Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q ../SelT-human.fa -t SelT-NIVO01008816.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 953 Query range: 0 -> 195 Target range: 49954 -> 74681 1 : MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSer : 20 |||||||||||||||||||||||||||||||||||||||:!!|||||||||!!:|||||| MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaValValArgSerAspAlaSer 49955 : ATGAGGCTTCTGCTACTTCTGCTGGTGGCGGCGTCGGCGGTGGTCCGGAGCGATGCCTCA : 50012 21 : AlaAsnLeu<->GlyGlyValProSerLysArgLeuLysMetGlnTyrAlaThrGlyPro : 39 ||||||||| ||||||||||||.!!||||||||||||||||||||||||||||||||| AlaAsnLeuGlyGlyGlyValProGlyLysArgLeuLysMetGlnTyrAlaThrGlyPro 50013 : GCCAACTTGGGCGGCGGCGTGCCTGGCAAGAGATTAAAGATGCAGTACGCCACGGGGCCT : 50072 40 : LeuLeuLysPheGlnIle{Cy} >>>> Target Intron 1 >>>> {s}ValSer : 48 ||||||||||||||||||{||} 19518 bp {|}|||||| LeuLeuLysPheGlnIle{Cy}++ ++{s}ValSer 50073 : CTGCTCAAGTTCCAGATT{TG}gt.........................ag{T}GTTTCC : 69617 49 : UnkGlyTyrArgArgValPheGluGluTyrMetArgValIleSerGlnArgTyrProAsp : 68 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ***GlyTyrArgArgValPheGluGluTyrMetArgValIleSerGlnArgTyrProAsp 69618 : TGAGGTTACAGGCGGGTGTTTGAGGAGTACATGCGGGTTATTAGCCAGCGGTACCCTGAC : 69677 69 : IleArgIleGluGlyGluAsnTyrLeuProGlnProIleTyr{Ar} >>>> Target : 83 ||||||||||||||||||||||||||||||||||||||||||{||} 60 IleArgIleGluGlyGluAsnTyrLeuProGlnProIleTyr{Ar}++ 69678 : ATCCGCATAGAAGGAGAGAATTACCTCCCTCAACCAATATAT{AG}gt............ : 69726 84 : Intron 2 >>>> {g}HisIleAlaSerPheLeuSerValPheLysLeuValLeuIle : 97 7 bp {|}|||||||||||||||||||||||||||||||||||||||||| ++{g}HisIleAlaSerPheLeuSerValPheLysLeuValLeuIle 69727 : .............ag{a}CACATAGCATCTTTCCTGTCAGTCTTCAAGCTAGTATTAATA : 70371 98 : GlyLeuIleIleValGlyLysAspProPheAlaPhePheGlyMetGlnAlaProSerIle : 117 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlyLeuIleIleValGlyLysAspProPheAlaPhePheGlyMetGlnAlaProSerIle 70372 : GGCTTAATAATTGTTGGCAAGGatccttttgctttctttggcATGCAAGCTCCTAGCATC : 70431 118 : TrpGlnTrpGlyGlnGluAsnLys >>>> Target Intron 3 >>>> ValTyrA : 128 |||||||||||||||||||||||| 1884 bp ||||||| TrpGlnTrpGlyGlnGluAsnLys++ ++ValTyrA 70432 : TGGCAGTGGGGCCAAGAAAATAAGgt.........................agGTCTATG : 72348 129 : laCysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMetSerThrGlyA : 148 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| laCysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMetSerThrGlyA 72349 : CATGTATGATGGTATTCTTCTTGAGCAACATGATTGAAAACCAGTGTATGTCAACAGGTG : 72408 149 : laPheGluIleThrLeuAsn{A} >>>> Target Intron 4 >>>> {sp}ValP : 157 ||||||||||||||||||||{|} 2130 bp {||}|||| laPheGluIleThrLeuAsn{A}++ ++{sp}ValP 72409 : CATTTGAGATAACTTTGAAT{G}gt.........................ag{AT}GTAC : 74565 158 : roValTrpSerLysLeuGluSerGlyHisLeuProSerMetGlnGlnLeuValGlnIleL : 177 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| roValTrpSerLysLeuGluSerGlyHisLeuProSerMetGlnGlnLeuValGlnIleL 74566 : CTGTGTGGTCTAAGTTGGAATCTGGTCACCTTCCATCCATGCAACAGCTTGTTCAAATTC : 74625 178 : euAspAsnGluMetLysLeuAsnValHisMetAspSerIleProHisHisArgSer : 195 |||||||||||||||||||||||||||||||||||||||||||||||||||||||| euAspAsnGluMetLysLeuAsnValHisMetAspSerIleProHisHisArgSer 74626 : TTGACAATGAAATGAAGCTCAACGTGCATATGGATTCAATCCCACACCATCGATCA : 74681 vulgar: SPP00000025_1.0 0 195 . NIVO01008816.1:subseq(494279,1406561) 49954 74681 + 953 M 23 69 G 0 3 M 22 66 S 0 2 5 0 2 I 0 19514 3 0 2 S 1 1 M 36 108 S 0 2 5 0 2 I 0 603 3 0 2 S 1 1 M 42 126 5 0 2 I 0 1880 3 0 2 M 29 87 S 0 1 5 0 2 I 0 2126 3 0 2 S 1 2 M 40 120 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 49955 74681 953 + . gene_id 1 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 49955 50094 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 49955 50094 . + . insertions 3 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 50095 50096 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 50095 69612 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 69611 69612 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 69613 69723 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 69613 69723 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 69724 69725 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 69724 70330 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 70329 70330 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 70331 70457 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 70331 70457 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 70458 70459 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 70458 72341 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 72340 72341 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 72342 72429 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 72342 72429 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 72430 72431 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 72430 74559 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 74558 74559 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 74560 74681 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 74560 74681 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 49955 74681 953 + . alignment_id 1 ; Query SPP00000025_1.0 ; Align 49955 1 69 ; Align 50027 24 66 ; Align 69614 47 108 ; Align 70332 84 126 ; Align 72342 126 87 ; Align 74562 156 120 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 171 Query range: 1 -> 191 Target range: 14947 -> 1147320 2 : ArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMet >>>> Target Int : 15 |||:!!|||:!!|||! !:!!|||::!|||:!!|||! ! 94168 ArgIleLeuMetLeuSerIleValSerAlaAlaAlaLys++ 14948 : AGAATCTTGATGCTTTCTATAGTTAGTGCAGCTGCTAAGgt............... : 14989 16 : ron 1 >>>> ValArgSerGluAla{S} >>>> Target Intron 2 >>> : 20 bp ::: ...||||||{:} 50517 bp ++IleSerGlnGluAla{A}++ 14990 : ..........agatttctcaggaggca{g}gt........................ : 109173 21 : > {er}AlaAsnLeuGlyGlyValProSerLysArg{Le} >>>> Target I : 31 {!!} ! !||| !!.!!:!!|||||| |||{ } 1049 ++{la}IleLeuLeuTrpSerIleProSerLeuArg{Ar}++ 109174 : .ag{cc}ATACTCCTGTGGAGTATCCCTTCCCTCAGG{AG}gt............. : 159724 32 : ntron 3 >>>> {u}LysMetGlnTyrAlaThrGlyPro{L} >>>> Targe : 40 8 bp {!}!..:!!|||! !:!!||| !!|||{:} 8 ++{g}SerLeuGlnCysSerThrCysPro{M}++ 159725 : ............ag{A}AGTTTGCAATGCTCGACATGTCCC{A}gt.......... : 170248 41 : t Intron 4 >>>> {eu}LeuLysPheGlnIleCysVal{Se} >>>> Tar : 48 4536 bp {!!}|||! ||| |||||| !{||} ++{et}LeuThrPheThrIleCysSer{Se}++ 170249 : ...............ag{TG}CTAACCTTCACCATCTGCTCT{AG}gt........ : 254809 49 : get Intron 5 >>>> {r}UnkGlyTyrArgArgValPheGluGluTyrMetA : 60 34177 bp {|} !.!||||||..!:!!.!.|||! !!:! ! +-{r}PheAlaTyrArgGluLeuLeuGluAlaPheSerL 254810 : .................at{C}TTTGCCTACAGAGAGCTGCTGGAAGCATTTTCTA : 289018 61 : rgValIleSer{Gl} >>>> Target Intron 6 >>>> {n}ArgTyrPro : 67 :! !:!!|||{::} 10054 bp {!} ||| ysSerValSer{Ar}-+ ++{g}AspLeuPro 289019 : AGTCAGTAAGT{AG}at.........................ag{g}gatcttcct : 299093 68 : AspIleArgIleGlu{Gl} >>>> Target Intron 7 >>>> {y}GluAs : 75 ||| :!!...{||} 51348 bp {|} AspProLeuLeuSer{Gl}-+ ++{y}GlyIl 299094 : gacccccttCTTTCT{GG}tt.........................ag{g}ggaat : 350465 76 : nTyrLeuProGlnProIleTyrArgHisIleAla{Se} >>>> Target Intr : 87 :::||| ||| |||! !|||.!!|||{.!} 175441 b ePheLeuThrGlnGlyTyrTyrLeuHisPheAla{Gl}++ 350466 : cttcctgacccaaggatattATCTCCATTTCGCC{GG}gt................ : 350505 88 : on 8 >>>> {r}PheLeuSerValPheLysLeuValLeuIleGlyLeuIle{Il : 101 p {!}!!.|||..!..!.!.:!! ! !||||||||||||!!:{! ++{y}LeuLeuGlnThrIleGlnThrGlnLeuIleGlyLeuMet{Ly 350506 : .........ag{T}TTATTACAAACAATACAAACTCAACTAATTGGCTTAATG{AA : 525984 102 : } >>>> Target Intron 9 >>>> {e}ValGlyLys{A} >>>> Targ : 105 } 118449 bp { }! !|||:!!{|} }++ ++{s}GlyGlyGlu{A}++ 525985 : }gt.........................ag{g}GGTGGAGAA{G}gt......... : 644448 106 : et Intron 10 >>>> {sp}Pro{P} >>>> Target Intron 11 >>> : 107 36783 bp {||}|||{ } 7579 bp ++{sp}Pro{A}++ 644449 : .................ag{AT}CCA{G}gt......................... : 681237 108 : > {he}AlaPhePheGlyMetGlnAlaProSerIleTrpGln{Tr} >>>> Ta : 120 { } !|||!::..!||| ! !|||:!:||| { !} ++{la}LeuPheTrpAsnMetCysPheCysSerLeuTrpAla{Se}+- 681238 : .ag{CA}TTGTTTTGGAATATGTGTTTCTGTTCCCTGTGGGCC{AG}gc....... : 688856 121 : rget Intron 12 >>>> {p}GlyGlnGluAsnLysValTyr >>>> Targ : 128 35060 bp { } ! ..!|||!:!|||||| ++{r}LysIleSerAsnArgValTyr++ 688857 : ...................ag{t}AAAATCTCAAATAGAGTTTATgt......... : 723938 129 : et Intron 13 >>>> AlaCysMetMet >>>> Target Intron 14 > : 132 24710 bp |||||| ||| 74564 bp ++AlaCysSerMet++ 723939 : .................agGCATGTTCTATGgt....................... : 748660 133 : >>> ValPhePheLeuSerAsnMetIleGlu >>>> Target Intron 15 : 141 !||||||:!!.!!||| !.!. 34247 bp ++CysPhePheIleGlyAsnProAlaHis++ 748661 : ...agTGCTTTTTTATTGGTAATCCAGCACATgt...................... : 823251 142 : >>>> AsnGlnCysMetSerThr{G} >>>> Target Intron 16 >>>> : 147 ||||||! !:!:!!! !!{|} 51369 bp ++AsnGlnSerValThrPro{G}++ + 823252 : ....agAATCAGTCTGTCACTCCA{G}gt..........................a : 908882 148 : {ly}AlaPheGluIleThrLeuAsnAspValProVal{T} >>>> Target I : 159 {||}!.!!:! !! !:!!! ! !||||||{|} 1651 +{ly}ValTyrThrGlyLeuTyrHisGlyAsnProVal{T}++ 908883 : g{GC}GTCTACACTGGGCTCTACCACGGTAATCCTGTA{T}gt............. : 908922 160 : ntron 17 >>>> {rp}SerLysLeuGluSer{G} >>>> Target Intro : 165 2 bp {||} ||||||||||||{|} 100518 b ++{rp}IleLysLeuGluSer{G}-+ 908923 : .............ag{gg}atcaaactggagtct{g}tt................. : 925452 166 : n 18 >>>> {ly}HisLeuProSerMetGlnGlnLeuValGlnIleLeuAspAs : 179 p {||}:::||| :::|||::: |||...:: ++{ly}AsnLeuGlnHisCysArgGlnIleProTyr***LeuSerHi 925453 : .........ag{Gc}aatctccagcactgcaggcagattccttactgactgagcca : 1026009 180 : nGlu >>>> Target Intron 19 >>>> MetLysLeuAsnValHis >> : 187 :::: 114664 bp ||| |||:::||| sGln++ ++AsnLysAsnAsnLeuHis++ 1026010 : ccaggt..........................agaataaaaataatttacatgt.. : 1140699 188 : >> Target Intron 20 >>>> MetAspSerIlePro : 191 6609 bp :::||||||:::||| ++ValAspSerLeuPro 1140700 : ........................aggtggattctttacca : 1147320 vulgar: SPP00000025_1.0 1 191 . NIVO01008816.1:subseq(494279,1406561) 14947 1147320 + 171 M 13 39 5 0 2 I 0 94164 3 0 2 M 5 15 S 0 1 5 0 2 I 0 50513 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 10494 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 84532 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 34173 3 0 2 S 1 1 M 15 45 S 0 2 5 0 2 I 0 10050 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 51344 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 175437 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 118445 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 36779 3 0 2 S 1 2 M 1 3 S 0 1 5 0 2 I 0 7575 3 0 2 S 1 2 M 12 36 S 0 2 5 0 2 I 0 35056 3 0 2 S 1 1 M 7 21 5 0 2 I 0 24706 3 0 2 M 4 12 5 0 2 I 0 74560 3 0 2 M 9 27 5 0 2 I 0 34243 3 0 2 M 6 18 S 0 1 5 0 2 I 0 51365 3 0 2 S 1 2 M 11 33 S 0 1 5 0 2 I 0 16508 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 100514 3 0 2 S 1 2 M 15 45 5 0 2 I 0 114660 3 0 2 M 6 18 5 0 2 I 0 6605 3 0 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 14948 1147320 171 + . gene_id 2 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 14948 14986 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 14948 14986 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 14987 14988 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 14987 109154 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 109153 109154 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 109155 109170 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 109155 109170 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 109171 109172 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 109171 159687 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159686 159687 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159688 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159688 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 170219 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 170218 170219 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 170220 170245 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 170220 170245 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 170246 170247 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 170246 254781 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 254780 254781 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 254782 254806 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 254782 254806 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 254807 254808 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 254807 288983 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 288982 288983 . + . intron_id 4 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 288984 289031 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 288984 289031 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 289032 289033 . + . intron_id 6 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 289032 299085 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 299084 299085 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 299086 299112 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 299086 299112 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 299113 299114 . + . intron_id 7 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 299113 350460 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 350459 350460 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 350461 350502 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 350461 350502 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 350503 350504 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 350503 525943 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 525942 525943 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 525944 525985 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 525944 525985 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 525986 525987 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 525986 644434 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 644433 644434 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 644435 644445 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 644435 644445 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 644446 644447 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 644446 681228 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 681227 681228 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 681229 681234 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 681229 681234 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 681235 681236 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 681235 688813 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 688812 688813 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 688814 688853 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 688814 688853 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 688854 688855 . + . intron_id 12 ; splice_site "GC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 688854 723913 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 723912 723913 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 723914 723935 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 723914 723935 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 723936 723937 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 723936 748645 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 748644 748645 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 748646 748657 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 748646 748657 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 748658 748659 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 748658 823221 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 823220 823221 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 823222 823248 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 823222 823248 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 823249 823250 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 823249 857495 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 908883 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 908882 908883 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 908884 908919 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 908884 908919 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 908920 908921 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 908920 925431 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 925430 925431 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 925432 925449 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 925432 925449 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 925450 925451 . + . intron_id 18 ; splice_site "tt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 925450 1025967 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1025966 1025967 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1025968 1026014 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1025968 1026014 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026015 1026016 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026015 1140678 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1140677 1140678 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1140679 1140696 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1140679 1140696 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1140697 1140698 . + . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1140697 1147305 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1147304 1147305 . + . intron_id 19 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1147306 1147320 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1147306 1147320 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 14948 1147320 171 + . alignment_id 2 ; Query SPP00000025_1.0 ; Align 14948 2 39 ; Align 109155 15 15 ; Align 159690 21 30 ; Align 170221 32 24 ; Align 254784 41 21 ; Align 288985 49 45 ; Align 299087 65 24 ; Align 350462 74 39 ; Align 525945 88 39 ; Align 644436 102 9 ; Align 681231 106 3 ; Align 688816 108 36 ; Align 723915 121 21 ; Align 748646 128 12 ; Align 823222 132 27 ; Align 857496 141 18 ; Align 908886 148 33 ; Align 925434 160 15 ; Align 1025970 166 45 ; Align 1140679 181 18 ; Align 1147306 187 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 150 Query range: 3 -> 195 Target range: 34573 -> 1380551 4 : LeuLeuLeuLeuLeuValAlaAla >>>> Target Intron 1 >>>> Ser : 12 |||! !|||:!!||||||!.! ! 16504 bp ..! LeuSerLeuValLeuValValGln++ ++Lys 34574 : CTGTCATTAGTCCTTGTAGTCCAGgt.........................agaAG : 51102 13 : AlaMetVal{Ar} >>>> Target Intron 2 >>>> {g}SerGluAlaSe : 20 .!!:!!|||{||} 165592 bp {|} !|||:!!:! ThrValVal{Ar}++ ++{g}ValGluSerAl 51103 : ACGGTGGTC{AG}gt.........................ag{G}GTTGAGTCAGC : 216718 21 : rAlaAsnLeuGlyGlyValProSer >>>> Target Intron 3 >>>> Ly : 29 !|||..! !||||||||| !!:!! 80632 bp || aAlaArgGlyGlyGlyValThrAla++ ++Ly 216719 : AGCACGCGGGGGAGGCGTGACCGCGgt.........................agAA : 297377 30 : sArgLeuLysMetGln >>>> Target Intron 4 >>>> TyrAla{T} : 37 |!:!:!!! ! :!! 3109 bp :!! !!{.} sGlnIleThrAlaGlu++ ++HisPro{A}++ 297378 : GCAAATCACAGCAGAGgt.........................agCACCCA{G}gt : 300511 38 : >>>> Target Intron 5 >>>> {hr}GlyProLeuLeuLysPheGlnIleC : 46 26156 bp {!!} ! !!:!!! ! ! ||| ! !| ++{la}IleThrValSerTyrPheValSerC 300512 : .........................ag{CC}ATCACTGTCTCCTACTTTGTGTCAT : 326693 47 : ysValSerUnkGlyTyrArgArgValPheGlu{G} >>>> Target Intron : 57 ||:!! !! |||!::||||||:!!.!!! !{|} 2388 bp ysLeuProArgGlyTrpArgArgLeuIleAla{G}+- 326694 : GCCTACCCAGGGGGTGGAGAAGACTCATTGCA{G}gg................... : 326729 58 : 6 >>>> {lu} >>>> Target Intron 7 >>>> TyrMet{Ar} >>> : 60 {||} 22876 bp |||:!:{||} ++{lu}++ ++TyrVal{Ar}++ 326730 : ......ag{AG}gt.........................agTATGTT{AG}gt... : 352003 61 : > Target Intron 8 >>>> {g}ValIleSerGlnArgTyrProAspIleAr : 70 69580 bp {|} ...|||::!!:! ||| !|| ++{g}PhePheSerArgLysAlaProArgAspAr 352004 : ......................ag{a}ttcttttcaagAAAAGCACCCAGAGATAG : 421609 71 : gIleGluGly{G} >>>> Target Intron 9 >>>> {lu}AsnTyrLeuP : 78 |! !...|||{!} 117398 bp {!:}!.!|||:!!| gLysSerGly{A}++ ++{sp}ThrTyrIleP 421610 : AAAAAGTGGT{G}gt.........................ag{AT}ACCTATATCC : 539031 79 : roGln >>>> Target Intron 10 >>>> ProIleTyrArgHis >>>> : 85 ||::! 6084 bp |||:!: !|||... roArg+- ++ProValValArgArg++ 539032 : CAAGGgc..........................agCCTGTGGTTAGGAGGgt.... : 545138 86 : Target Intron 11 >>>> IleAlaSerPheLeuSerValPheLysLeuVa : 95 37449 bp :!!..! !|||! !!.!|||.!.:!!! !:! ++ValCysLeuPheCysLysValLeuGluCysIl 545139 : ......................agGTTTGCCTTTTTTGTAAGGTTCTGGAATGCAT : 582615 96 : lLeuIleGlyLeuIleIleValGlyLysAsp{P} >>>> Target Intron 1 : 106 !!!!:!:|||! !:!!:!: !!.!!!. !{ } 77907 bp ePheLeuGlyTyrValLeuGlnAlaAsnThr{A}++ 582616 : TTTTTTGGGATATGTCCTGCAGGCAAATACT{G}gt.................... : 582651 107 : 2 >>>> {ro}PheAlaPhePheGlyMetGln{Al} >>>> Target Intro : 114 { !}||| |||||| ::: {!.} 106312 b ++{sp}PhePhePhePhePheLeuPro{Va}++ 582652 : ......ag{at}tttttttttttttttttacct{gt}gt................. : 660583 115 : n 13 >>>> {a}ProSerIleTrpGlnTrp{G} >>>> Target Intron : 121 p {!} !!|||:!!|||! !|||{|} 168450 bp ++{l}SerSerValTrpLeuTrp{G}-+ 660584 : .........ag{G}TCATCAGTATGGCTGTGG{G}tt................... : 766915 122 : 14 >>>> {ly}GlnGluAsnLysValTyr >>>> Target Intron 15 > : 128 {||}:::...||||||:::||| 126440 bp ++{ly}LysSerAsnLysLeuTyr++ 766916 : .......ag{gg}aaaagcaacaagttatATgt....................... : 935385 129 : >>> AlaCysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMet : 144 |||:::::::::|||......||||||... ... ...|||:!: ++PheCysLeuValLeuPheMetPheSerAsnPhe***AsnValHisCysVal 935386 : ...agttttgtttggttctttttatgttttctaacttttaaaatgttcattgtgTT : 1061871 145 : SerThrGlyAlaPheGluIle{Th} >>>> Target Intron 16 >>>> { : 152 ! !! ! !||| !:!!{ } 125246 bp { HisProPheTyrPheProVal{Tr}++ ++{ 1061872 : CATCCATTCTACTTCCCAGTT{TG}gt..........................ag{ : 1187143 153 : r}LeuAsnAspVal{P} >>>> Target Intron 17 >>>> {ro}ValTr : 159 !} !!:!|||..!{ } 53986 bp { !} || p}GluSerAspThr{G}++ ++{ly}AsnTr 1187144 : G}GAGAGTGACACA{G}gt..........................ag{gt}aattG : 1241148 160 : pSerLysLeuGluSerGlyHis >>>> Target Intron 18 >>>> LeuP : 168 |..!...||| !!.!!.!||| 3551 bp | pAspSerLeuLeuLysAlaHis++ ++ThrP 1241149 : GGATTCTTTGTTAAAAGCACATgt..........................agactc : 1244726 169 : roSerMetGlnGlnLeu{V} >>>> Target Intron 19 >>>> {al}Gl : 175 ||... ||| |||{|} 22567 bp {||}:: roGlyCysGlnGlyLeu{V}++ ++{al}Gl 1244727 : caggatgtcagggtcta{g}gt..........................ag{tg}ga : 1267314 176 : nIleLeu{As} >>>> Target Intron 20 >>>> {p}AsnGluMetLys : 182 !! !{..} 87707 bp {!}!.! :!!:!! uArgThr{Se}++ ++{r}ThrPheLeuGlu 1267315 : AAGGACA{AG}gt..........................ag{C}ACTTTTCTGGAG : 1355042 183 : LeuAsnValHisMetAsp{Se} >>>> Target Intron 21 >>>> {r}I : 190 ||||||||| !:!!:!!{!:} 25468 bp {!}: LeuAsnValAlaLeuAsn{As}++ ++{n}L 1355043 : CTTAATGTAGCTCTGAAT{AA}gt..........................ag{C}C : 1380534 191 : leProHisHisArgSer : 195 !!|||:!!||| !!||| euProTyrHisGlySer 1380535 : TCCCATATCATGGTAGT : 1380551 vulgar: SPP00000025_1.0 3 195 . NIVO01008816.1:subseq(494279,1406561) 34573 1380551 + 150 M 8 24 5 0 2 I 0 16500 3 0 2 M 4 12 S 0 2 5 0 2 I 0 165588 3 0 2 S 1 1 M 12 36 5 0 2 I 0 80628 3 0 2 M 6 18 5 0 2 I 0 3105 3 0 2 M 2 6 S 0 1 5 0 2 I 0 26152 3 0 2 S 1 2 M 19 57 S 0 1 5 0 2 I 0 2384 3 0 2 S 1 2 5 0 2 I 0 22872 3 0 2 M 2 6 S 0 2 5 0 2 I 0 69576 3 0 2 S 1 1 M 13 39 S 0 1 5 0 2 I 0 117394 3 0 2 S 1 2 M 5 15 5 0 2 I 0 6080 3 0 2 M 5 15 5 0 2 I 0 37445 3 0 2 M 21 63 S 0 1 5 0 2 I 0 77903 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 106308 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 168446 3 0 2 S 1 2 M 6 18 5 0 2 I 0 126436 3 0 2 M 24 72 S 0 2 5 0 2 I 0 125242 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 53982 3 0 2 S 1 2 M 9 27 5 0 2 I 0 3547 3 0 2 M 7 21 S 0 1 5 0 2 I 0 22563 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 87703 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 25464 3 0 2 S 1 1 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 34574 1380551 150 + . gene_id 3 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 34574 34597 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 34574 34597 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 34598 34599 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 34598 51101 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 51100 51101 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 51102 51115 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 51102 51115 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 51116 51117 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 51116 216707 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 216706 216707 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 216708 216744 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 216708 216744 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 216745 216746 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 216745 297376 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 297375 297376 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 297377 297394 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 297377 297394 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 297395 297396 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 297395 300503 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 300502 300503 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 300504 300510 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 300504 300510 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 300511 300512 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 300511 326666 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 326665 326666 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 326667 326726 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 326667 326726 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 326727 326728 . + . intron_id 6 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 326727 329114 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 329113 329114 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 329115 329116 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 329115 329116 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 329117 329118 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 329117 351992 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 351991 351992 . + . intron_id 6 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 351993 352000 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 351993 352000 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 352001 352002 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 352001 421580 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 421579 421580 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 421581 421621 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 421581 421621 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 421622 421623 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 421622 539019 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 539018 539019 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 539020 539036 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 539020 539036 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 539037 539038 . + . intron_id 10 ; splice_site "GC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 539037 545120 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 545119 545120 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 545121 545135 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 545121 545135 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 545136 545137 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 545136 582584 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 582583 582584 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 582585 582648 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 582585 582648 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 582649 582650 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 582649 660555 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 660554 660555 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 660556 660580 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 660556 660580 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 660581 660582 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 660581 766892 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 766891 766892 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 766893 766912 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 766893 766912 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 766913 766914 . + . intron_id 14 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 766913 935362 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 935361 935362 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 935363 935382 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 935363 935382 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 935383 935384 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 935383 1061822 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1061821 1061822 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1061823 1061896 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1061823 1061896 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1061897 1061898 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1061897 1187142 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1187141 1187142 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1187143 1187156 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1187143 1187156 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1187157 1187158 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1187157 1241142 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1241141 1241142 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1241143 1241171 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1241143 1241171 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1241172 1241173 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1241172 1244722 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1244721 1244722 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1244723 1244744 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1244723 1244744 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1244745 1244746 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1244745 1267311 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1267310 1267311 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1267312 1267324 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1267312 1267324 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1267325 1267326 . + . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1267325 1355031 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1355030 1355031 . + . intron_id 19 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1355032 1355064 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1355032 1355064 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1355065 1355066 . + . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1355065 1380532 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1380531 1380532 . + . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1380533 1380551 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1380533 1380551 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 34574 1380551 150 + . alignment_id 3 ; Query SPP00000025_1.0 ; Align 34574 4 24 ; Align 51102 12 12 ; Align 216709 17 36 ; Align 297377 29 18 ; Align 300504 35 6 ; Align 326669 38 57 ; Align 351993 58 6 ; Align 421582 61 39 ; Align 539022 75 15 ; Align 545121 80 15 ; Align 582585 85 63 ; Align 660558 107 21 ; Align 766894 115 18 ; Align 935365 122 18 ; Align 1061823 128 72 ; Align 1187144 153 12 ; Align 1241145 158 27 ; Align 1244723 167 21 ; Align 1267314 175 9 ; Align 1355033 179 30 ; Align 1380534 190 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 140 Query range: 5 -> 191 Target range: 346939 -> 1361497 6 : LeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSer{Al} >>>> : 21 ||| ||||||......|||:::::: ||| |||{::} LeuTrpThrValAlaCysGlnAlaLeuLeuPheMetGluPheSer{Se}++ 346940 : ctatggactgtagcctgccaggctcttctgttcatggaattctcc{ag}gt..... : 346989 22 : Target Intron 1 >>>> {a}AsnLeu >>>> Target Intron 2 >> : 24 85706 bp {!}|||||| 108186 bp ++{r}AsnLeu++ 346990 : ....................ag{C}AATTTGgt....................... : 432702 25 : >> GlyGlyValProSerLysArgLeuLysMetGln >>>> Target Intro : 35 !.!.!!:!!||| !!!..|||:!!::: ||| 20600 bp ++AlaSerLeuProProSerArgValArgAlaGln++ 432703 : ..agGCCAGTCTCCCTCCCAGCCGGGTCCGCGCCCAGgt................. : 540921 36 : n 3 >>>> TyrAla >>>> Target Intron 4 >>>> ThrGlyProLe : 40 57797 bp !|||||||| ++LeuLeu++ ++HisGlyProLe 540922 : ........agcttctggt.........................agCATGGCCCCCT : 619331 41 : uLeuLysPheGlnIleCysValSerUnk >>>> Target Intron 5 >>>> : 50 |:!! ! ! ! !|||:!!! ! 25074 bp uValTyrGlyLeuSerCysMetLeuGln++ + 619332 : GGTTTATGGACTTAGCTGTATGTTGCAGgt.........................a : 644433 51 : GlyTyrArg{Ar} >>>> Target Intron 6 >>>> {g}ValPheGluG : 57 |||!::|||{||} 8132 bp {|}|||.!!!!: +GlyTrpArg{Ar}++ ++{g}ValIleAspT 644434 : ggGGTGGAGA{AG}gt.........................ag{G}GTCATTGATT : 652588 58 : luTyrMetArgValIleSerGlnArgTyrProAsp{I} >>>> Target Intr : 69 ! ! ! ! !:!:||| ! !||| ! {:} 30244 b yrSerThrAlaCysLeuSerThrThrTyrGluArg{V}++ 652589 : ATTCAACTGCTTGCCTGAGTACTACATATGAAAGA{G}gt................ : 652627 70 : on 7 >>>> {le}ArgIleGlu{G} >>>> Target Intron 8 >>>> : 73 p {!!} !!! !..!{|} 17361 bp ++{al}GlyThrSer{G}++ ++ 652628 : .........ag{TT}GGGACTTCA{G}gt.........................ag : 700240 74 : {ly}GluAsnTyrLeuProGlnProIleTyrArgHisIle{Al} >>>> Targe : 86 {||} ::: ! ! !|||||| !:!!! !|||:!!{::} 1 {ly}ProSerGlySerLysGlnProCysHisLeuHisVal{Se}++ 700241 : {GG}CCCTCAGGATCCAAGCAGCCGTGCCACCTCCATGTT{AG}gt.......... : 700284 87 : t Intron 9 >>>> {a}SerPheLeuSerValPheLysLeuValLeuIleGly : 98 4889 bp {!}......::: ||| ||| ::!|||..! ++{r}GluLeuIlePhePhePheLeuLeuLysIleIleSer 700285 : ...............ag{t}gagttaatttttttttttttgcttaagatAATTTCT : 715205 99 : LeuIleIle >>>> Target Intron 10 >>>> ValGlyLysAspProPh : 107 ||||||:!: 179615 bp ||||||||| !!: LeuIleLeu++ ++ValGlyLysLeuArgTy 715206 : CTAATTTTGgt..........................agGTGGGAAAGCTAAGATA : 894847 108 : e{A} >>>> Target Intron 11 >>>> {la}PhePheGlyMetGlnAla : 114 !{|} 91222 bp {||}|||::: ||| ::: r{A}++ ++{la}PheTyrIleMetTyrSer 894848 : T{G}gt..........................ag{ca}ttttacatcatgtactct : 986090 115 : Pro{S} >>>> Target Intron 12 >>>> {er}Ile{T} >>>> Tar : 118 {|} 1007 bp {||}|||{|} Ala{S}++ ++{er}Ile{T}++ 986091 : gca{t}gt..........................ag{ct}att{t}gt........ : 987112 119 : get Intron 13 >>>> {rp}GlnTrpGlyGlnGlu >>>> Target Int : 124 25885 bp {||}...|||... ::: 48318 ++{rp}AspTrpAsnAlaLys++ 987113 : ..................ag{gg}gactggaatgcaaaagt............... : 1013014 125 : ron 14 >>>> AsnLysValTyr{A} >>>> Target Intron 15 >>>> : 128 bp ||| ||||||{.} 21171 bp ++AsnPheValTyr{T}-+ 1013015 : ...........agaACTTTGTATAT{A}tt.......................... : 1061345 129 : {la}CysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCys{M} : 144 {!!}||| .....!!:!|||||||||:!!! :!! ! |||||| !{!} ++{hr}CysHisGlnThrTyrPheLeuSerHisArgValTyrAsnGlnAsn{L}++ 1061346 : ag{CC}TGCCACCAAACATATTTTCTGAGTCACAGAGTTTATAATCAAAAT{A}gt : 1082562 145 : >>>> Target Intron 16 >>>> {et}SerThrGlyAlaPheGluIleThr : 152 25957 bp { }::!! ! !!|||! !:!!|||! ! ++{ys}AlaArgArgAlaCysLysIleLys 1082563 : ..........................ag{aa}gcCAGGAGAGCTTGTAAAATAAAA : 1108542 153 : {Le} >>>> Target Intron 17 >>>> {u}AsnAspVal >>>> Tar : 157 {! } 102542 bp {!}:!!|||||| {**}++ ++{*}AspAspVal++ 1108543 : {TG}gt..........................ag{A}GATGATGTGgt........ : 1211101 158 : get Intron 18 >>>> ProValTrpSerLysLeuGluSerGlyHisLeuPro : 168 115931 bp |||:!! ! !! :!!..! !!||||||!!! !! ++ProIleMetValIleIleArgProGlyHisPheAla 1211102 : ..................agCCTATTATGGTAATTATAAGGCCAGGGCATTTTGCT : 1327063 169 : SerMetGlnGlnLeuValGlnIle >>>> Target Intron 19 >>>> Le : 177 !!!.!.||| :!! !:!! ! 34363 bp ThrPheGlnThrIleTyrGluCys++ ++Ar 1327064 : ACATTCCAGACTATTTACGAATGCgt..........................agag : 1361453 178 : uAspAsnGluMetLysLeuAsnValHisMetAspSerIlePro : 191 ||| |||::::::||| ||||||:::||| gLeuAsnProTyrLeuLeuHisLeuHisAlaAspSerLeuPro 1361454 : actgaacccctatctcctgcatttgcatgcagattctttacca : 1361497 vulgar: SPP00000025_1.0 5 191 . NIVO01008816.1:subseq(494279,1406561) 346939 1361497 + 140 M 15 45 S 0 2 5 0 2 I 0 85702 3 0 2 S 1 1 M 2 6 5 0 2 I 0 108182 3 0 2 M 11 33 5 0 2 I 0 20596 3 0 2 M 2 6 5 0 2 I 0 57793 3 0 2 M 13 39 5 0 2 I 0 25070 3 0 2 M 3 9 S 0 2 5 0 2 I 0 8128 3 0 2 S 1 1 M 15 45 S 0 1 5 0 2 I 0 30240 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 17357 3 0 2 S 1 2 M 12 36 S 0 2 5 0 2 I 0 14885 3 0 2 S 1 1 M 15 45 5 0 2 I 0 179611 3 0 2 M 6 18 S 0 1 5 0 2 I 0 91218 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 1003 3 0 2 S 1 2 M 1 3 S 0 1 5 0 2 I 0 25881 3 0 2 S 1 2 M 5 15 5 0 2 I 0 48314 3 0 2 M 4 12 S 0 1 5 0 2 I 0 21167 3 0 2 S 1 2 M 15 45 S 0 1 5 0 2 I 0 25953 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 102538 3 0 2 S 1 1 M 3 9 5 0 2 I 0 115927 3 0 2 M 20 60 5 0 2 I 0 34359 3 0 2 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 346940 1361497 140 + . gene_id 4 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 346940 346986 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 346940 346986 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 346987 346988 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 346987 432692 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 432691 432692 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 432693 432699 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 432693 432699 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 432700 432701 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 432700 540885 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 540884 540885 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 540886 540918 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 540886 540918 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 540919 540920 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 540919 561518 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 619321 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 619320 619321 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 619322 619360 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 619322 619360 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 619361 619362 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 619361 644434 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 644433 644434 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 644435 644445 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 644435 644445 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 644446 644447 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 644446 652577 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 652576 652577 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 652578 652624 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 652578 652624 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 652625 652626 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 652625 682868 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 682867 682868 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 682869 682880 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 682869 682880 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 682881 682882 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 682881 700241 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 700240 700241 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 700242 700281 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 700242 700281 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 700282 700283 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 700282 715170 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 715169 715170 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 715171 715216 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 715171 715216 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 715217 715218 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 715217 894831 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 894830 894831 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 894832 894850 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 894832 894850 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 894851 894852 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 894851 986072 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 986071 986072 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 986073 986096 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 986073 986096 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 986097 986098 . + . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 986097 987103 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 987102 987103 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 987104 987109 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 987104 987109 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 987110 987111 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 987110 1012994 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1012993 1012994 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1012995 1013011 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1012995 1013011 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1013012 1013013 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1013012 1061329 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1061328 1061329 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1061330 1061342 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1061330 1061342 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1061343 1061344 . + . intron_id 15 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1061343 1082513 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1082512 1082513 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1082514 1082561 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1082514 1082561 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1082562 1082563 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1082562 1108518 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1108517 1108518 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1108519 1108546 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1108519 1108546 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1108547 1108548 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1108547 1211088 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1211087 1211088 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1211089 1211098 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1211089 1211098 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1211099 1211100 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1211099 1327029 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1327028 1327029 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1327030 1327089 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1327030 1327089 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1327090 1327091 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1327090 1361452 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1361451 1361452 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1361453 1361497 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1361453 1361497 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 346940 1361497 140 + . alignment_id 4 ; Query SPP00000025_1.0 ; Align 346940 6 45 ; Align 432694 22 6 ; Align 540886 24 33 ; Align 561519 35 6 ; Align 619322 37 39 ; Align 644435 50 9 ; Align 652579 54 45 ; Align 682871 70 9 ; Align 700244 74 36 ; Align 715172 87 45 ; Align 894832 102 18 ; Align 986075 109 21 ; Align 987106 117 3 ; Align 1012997 119 15 ; Align 1061330 124 12 ; Align 1082516 129 45 ; Align 1108521 145 24 ; Align 1211090 154 9 ; Align 1327030 157 60 ; Align 1361453 177 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 144 Query range: 2 -> 194 Target range: 37200 -> 1057209 3 : LeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSerAl : 21 ||||||:::::::::||| ||| ||||||... |||.. LeuLeuIleValMetLeuProLysAlaHisLeuThrSerArgSerArgMetSerGl 37201 : CTgttaatagtgatgcttcctaaggcccacttgacttcgcgttccagaatgtctgg : 37255 22 : aAsn{Le} >>>> Target Intron 1 >>>> {u}GlyGlyValProSerL : 29 . { } 47217 bp {!}||| !||| : yPhe{Se}++ ++{r}GlyMetValGluPheG 37256 : cttt{ag}gt.........................ag{T}GGAATGGTGGagttcc : 84496 30 : ysArgLeuLysMetGlnTyr{A} >>>> Target Intron 2 >>>> {la} : 36 :: ||| ||| {:} 52724 bp {:!} lnProLeuAspCysGlnAla{S}++ ++{er} 84497 : aaccactggactgccaggca{a}gt.........................ag{GC} : 137242 37 : ThrGlyProLeuLeuLysPheGlnIleCysValSerUnkGlyTyrArgArgValPh : 55 ! !!||||||||| !!.!!:!!:!:||| ! !! |||||| !!.! ! LeuTrpProLeuLeu***IleGluLeuCysSerArgLysGlyTyrValAsnProAs 137243 : TTATGGCCATTGTTATAGATTGAACTGTGTTCCCGCAAAGGCTATGTTAATCCTAA : 137298 56 : eGluGluTyr{Me} >>>> Target Intron 3 >>>> {t}{Ar} >>>> : 60 !... !|||{:!} 22407 bp {!}{||} nSerTrpTyr{Le}++ ++{u}{Ar}++ 137299 : CTCCTGGTAT{CT}gt.........................ag{G}{AG}gt.... : 159724 61 : Target Intron 4 >>>> {g}ValIle >>>> Target Intron 5 > : 63 9389 bp {|}:::||| 113279 bp ++{g}IleIle++ 159725 : .....................ag{g}attattgt...................... : 169120 64 : >>> SerGlnArgTyrProAspIleArgIle{G} >>>> Target Intron : 72 !!!|||||| !|||..!:!: ! !{|} 144677 bp ++ArgGlnArgValProSerLeuSerPro{G}++ 169121 : ...agAGGCAAAGAGTTCCTAGCCTGTCTCCT{G}gt................... : 282427 73 : 6 >>>> {lu}GlyGluAsnTyrLeuPro{G} >>>> Target Intron 7 : 79 {||}||| !|||! :!!|||{ } 14840 bp ++{lu}GlyMetAsnSerMetPro{A}++ 282428 : ......ag{AG}GGCATGAATTCAATGCCT{G}gt..................... : 427125 80 : >>>> {ln}ProIleTyrArgHisIleAla >>>> Target Intron 8 >> : 87 { !}||||||||| ! !!.! 13508 bp -+{la}ProIleTyrSerSerCysVal++ 427126 : ....tg{CA}CCCATATACTCATCATGCGTTgt....................... : 441988 88 : >> SerPheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGlyL : 104 .!!.!.:!!|||||||||...! !|||! !:!:|||||| ! ! ! !! ++GlyLeuIleSerValPheSerProValSerLeuGlyLeuGlyCysTyrHisM 441989 : ..agGGTCTGATATCAGTGTTCTCCCCTGTTTCTTTGGGGCTGGGATGCTATCATA : 455545 105 : ys >>>> Target Intron 9 >>>> AspProPheAlaPhePheGlyMetG : 113 ! 65227 bp |||||| !! ! !|||! ! | et++ ++AspProGlyGluAlaPheAspArgG 455546 : TGgt.........................agGACCCTGGTGAAGCCTTTGATCGTC : 520799 114 : lnAlaProSerIleTrpGlnTrpGlyGlnGluAsnLysValTyrAlaCysMetMet : 131 ||!.!||||||! ! ... ! !!:!!:!!::: ! !!::!.!||| !||| lnGlyProSerArgValSerLeuArgGluGlnSerProSerTrpGlyCysArgMet 520800 : AAGGCCCCTCAAGAGTTAGTCTGAGAGAGCAGTCACCATCCTGGGGTTGCCGGATG : 520853 132 : {Va} >>>> Target Intron 10 >>>> {l}PhePheLeuSerAsnMetI : 139 { } 35520 bp {!} !|||:!! !...:!:| {Cy}++ ++{s}HisPheIleHisGlyLeuI 520854 : {TG}gt..........................ag{C}CATTTCATTCATGGATTAA : 556397 140 : leGluAsnGlnCysMet{S} >>>> Target Intron 11 >>>> {er}Th : 146 ||..!.!. ||| {:} 5103 bp {!!}:: leSerGlnGlyCys***{A}++ ++{la}Se 556398 : TCTCACAGGGTTGTTGA{G}gt..........................ag{ct}tc : 561521 147 : r{G} >>>> Target Intron 12 >>>> {ly}AlaPheGluIleThrLeu : 153 :{|} 56516 bp {||} ! ! .!.:!!! !:!! r{G}++ ++{ly}IleValHisValIleMet 561522 : t{g}gt..........................ag{GT}ATAGTACATGTAATCATG : 618058 154 : AsnAspValProValTrpSerLysLeuGluSer{G} >>>> Target Intron : 165 !:!.!.:!! !:!!|||:!!!:! !||||||{|} 66427 bp SerGlnLeuIleLeuTrpAlaArgAsnGluSer{G}++ 618059 : AGCCAGTTGATTTTATGGGCAAGGAATGAGTCT{G}gt.................. : 618097 166 : 13 >>>> {ly}HisLeuProSerMet{Gl} >>>> Target Intron 14 : 171 {||}||| !||| !...{:!} 131304 bp ++{ly}HisArgProValGln{Ly}+- 618098 : ........ag{GT}CATAGACCTGTTCAA{AA}gg..................... : 684543 172 : >>>> {n}GlnLeuValGlnIleLeuAsp >>>> Target Intron 15 > : 179 {!}..! !:!!|||:!!:!!:!! 41629 bp ++{s}MetAsnLeuGlnValMetAsn++ 684544 : .....ag{G}ATGAATCTTCAAGTCATGAATgt....................... : 815869 180 : >>> AsnGluMetLysLeuAsn{V} >>>> Target Intron 16 >>>> : 185 |||:!! ! {|} 199666 bp ++AsnGlnSerValThrPro{V}++ ++ 815870 : ...agAATCAGTCTGTCACTCCA{G}gt..........................ag : 1057179 186 : {al}HisMetAspSerIleProHisHisArg : 194 {||} :!::!!||| !||||||||| {al}PheIleAsnSer***LysHisHisArg 1057180 : {tt}tttaTTAATTCTTAGAAACACCACAGA : 1057209 vulgar: SPP00000025_1.0 2 194 . NIVO01008816.1:subseq(494279,1406561) 37200 1057209 + 144 M 20 60 S 0 2 5 0 2 I 0 47213 3 0 2 S 1 1 M 12 36 S 0 1 5 0 2 I 0 52720 3 0 2 S 1 2 M 22 66 S 0 2 5 0 2 I 0 22403 3 0 2 S 1 3 5 0 2 I 0 9385 3 0 2 S 1 1 M 2 6 5 0 2 I 0 113275 3 0 2 M 9 27 S 0 1 5 0 2 I 0 144673 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 14836 3 0 2 S 1 2 M 7 21 5 0 2 I 0 13504 3 0 2 M 18 54 5 0 2 I 0 65223 3 0 2 M 27 81 S 0 2 5 0 2 I 0 35516 3 0 2 S 1 1 M 12 36 S 0 1 5 0 2 I 0 5099 3 0 2 S 1 2 M 1 3 S 0 1 5 0 2 I 0 56512 3 0 2 S 1 2 M 17 51 S 0 1 5 0 2 I 0 66423 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 131300 3 0 2 S 1 1 M 7 21 5 0 2 I 0 41625 3 0 2 M 6 18 S 0 1 5 0 2 I 0 199662 3 0 2 S 1 2 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 37201 1057209 144 + . gene_id 5 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 37201 37262 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 37201 37262 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 37263 37264 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 37263 84479 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 84478 84479 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 84480 84517 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 84480 84517 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 84518 84519 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 84518 137241 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 137240 137241 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 137242 137311 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 137242 137311 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 137312 137313 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 137312 159718 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 169110 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 169109 169110 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 169111 169117 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 169111 169117 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 169118 169119 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 169118 282396 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 282395 282396 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 282397 282424 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 282397 282424 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 282425 282426 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 282425 427101 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 427100 427101 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 427102 427122 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 427102 427122 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 427123 427124 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 427123 441962 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 441961 441962 . + . intron_id 6 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 441963 441985 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 441963 441985 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 441986 441987 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 441986 455493 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 455492 455493 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 455494 455547 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 455494 455547 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 455548 455549 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 455548 520774 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 520773 520774 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 520775 520857 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 520775 520857 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 520858 520859 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 520858 556377 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 556376 556377 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 556378 556415 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 556378 556415 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 556416 556417 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 556416 561518 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 618040 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 618039 618040 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 618041 618094 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 618041 618094 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 618095 618096 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 618095 684521 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 684520 684521 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 684522 684540 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 684522 684540 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 684541 684542 . + . intron_id 14 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 684541 815844 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 815843 815844 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 815845 815866 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 815845 815866 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 815867 815868 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 815867 857495 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 1057180 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1057179 1057180 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1057181 1057209 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1057181 1057209 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 37201 1057209 144 + . alignment_id 5 ; Query SPP00000025_1.0 ; Align 37201 3 60 ; Align 84481 24 36 ; Align 137244 37 66 ; Align 169112 61 6 ; Align 282397 63 27 ; Align 427104 73 18 ; Align 441965 80 21 ; Align 455494 87 54 ; Align 520775 105 81 ; Align 556379 133 36 ; Align 561521 146 3 ; Align 618043 148 51 ; Align 684524 166 15 ; Align 815846 172 21 ; Align 857496 179 18 ; Align 1057183 186 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 135 Query range: 2 -> 195 Target range: 11442 -> 876100 3 : LeuLeuLeuLeuLeuLeuValAlaAlaSerAla >>>> Target Intron 1 >> : 14 |||:!!|||! !:!!|||:!!!.!|||..! ! 81831 bp LeuIleLeuHisIleLeuLeuGlyAlaGlnMet++ 11443 : CTGATTCTACATATTTTGCTTGGTGCCCAGATGgt....................... : 11478 15 : >> MetValArgSerGluAlaSerAlaAsnLeu{G} >>>> Target Intron : 24 .!...! !..!..!|||..!|||:!! !{|} 66381 bp ++PheThrSerGluArgAlaGluAlaAspGly{G}++ 11479 : ..agTTTACATCTGAGAGAGCTGAGGCTGACGGA{G}gt................... : 93340 25 : 2 >>>> {ly}{G} >>>> Target Intron 3 >>>> {ly}ValProSerL : 29 {||}{|} 178037 bp {||}:!!|||! ! ++{ly}{G}++ ++{ly}LeuProLeuP 93341 : ......ag{GA}{G}gt.........................ag{gG}CTCCCATTGT : 337770 30 : ysArgLeuLysMetGlnTyrAlaThrGlyProLeuLeuLys{Ph} >>>> Target : 43 !:!|||!!.! !:!!! ! ! !||| !!||||||! !{ } 12 heLysLeuAsnArgLysSerGluGluGlyAlaLeuLeuMet{Ly}++ 337771 : TCAAACTCAACAGGAAGTCAGAGGAGGGAGCCCTATTGATG{AA}gt........... : 337816 44 : Intron 4 >>>> {e}GlnIleCysValSerUnkGlyTyrArgArgValPheGlu : 56 647 bp { } ||| :::::: |||||| !! ! !|||! ++{s}GlyIlePheLeuThrGlnGlyTyrTyrLeuHisPheAla 337817 : ..............ag{g}ggaatcttcctgacccaaggatattATCTCCATTTCGCC : 350498 57 : {Gl} >>>> Target Intron 5 >>>> {u}TyrMetArgValIle{S} >> : 63 {! } 83172 bp {!}|||... :::|||{:} {Gl}++ ++{y}TyrPheSerIleIle{A}++ 350499 : {GG}gt.........................ag{a}tacttttccattata{g}gt.. : 433694 64 : >> Target Intron 6 >>>> {er}GlnArgTyrProAspIleArgIleGluGl : 73 15928 bp {!!} !..!|||! ! :!:!:!!!::!!! ++{la}ValGluTyrHisArgValLysMetGlnVa 433695 : .......................ag{CT}GTGGAATACCACAGGGTGAAAATGCAAGT : 449649 74 : yGlu >>>> Target Intron 7 >>>> AsnTyrLeuProGlnProIleTyrA : 83 !:!! 11469 bp ||| !!!!|||:!!! !:!!!:!. lGln-+ ++AsnValPheProLysGlnLeuPheG 449650 : CCAGct.........................agAATGTTTTCCCAAAGCAGCTTTTTG : 461148 84 : rg{H} >>>> Target Intron 8 >>>> {is}IleAlaSerPheLeuSerVa : 91 .!{.} 3016 bp {..} !! !:!!|||! !!!!:! lu{A}++ ++{rg}TyrGluAlaPheCysThrLe 461149 : AG{A}gt.........................ag{GG}TATGAAGCATTTTGTACTTT : 464188 92 : lPheLysLeuValLeuIleGlyLeuIle >>>> Target Intron 9 >>>> I : 101 !.!.||||||:::|||::: |||::: 97301 bp : uLeuLysLeuLeuLeuLeuProLeuLeu-+ ++L 464189 : GCTGAAACttttgctgctgccgctgctgct.........................agc : 561519 102 : leVal >>>> Target Intron 10 >>>> GlyLysAspProPheAlaPhePh : 110 ::::: 42720 bp !.! |||! ! !||| || euLeu++ ++AlaAlaAspGlnHisAlaAspPh 561520 : ttctggt..........................agGCTGCTGATCAGCACGCTgattt : 604266 111 : eGlyMetGlnAlaPro{S} >>>> Target Intron 11 >>>> {er}IleTr : 118 | ... :::|||{|} 8675 bp {||} !|| eProPheProSerPro{S}++ -+{er}GlyTr 604267 : cccctttccttcccca{a}gt..........................tg{GT}GGTTG : 612965 119 : pGlnTrpGlyGlnGluAsn{Ly} >>>> Target Intron 12 >>>> {s}Va : 126 |!!.!::!.! ! !|||{||} 36030 bp {|}|| pHisPheAlaLeuLeuAsn{Ly}++ ++{s}Va 612966 : GCATTTTGCTTTGTTGAAC{AA}gt..........................ag{a}gt : 649019 127 : lTyrAlaCysMetMetValPhe{Ph} >>>> Target Intron 13 >>>> {e : 134 |::::::||| ! |||!::{ } 107000 bp {! lPheSerCysHisArgValTrp{Se}++ -+{r 649020 : tttctcttGCCATAGAGTTTGG{AG}gt..........................gg{T : 756045 135 : }LeuSerAsnMetIleGluAsnGlnCysMetSerThrGlyAlaPheGlu >>>> Ta : 151 }:!! ! .!.:!! ||| |||:::||||||...|||...::: }IleHisValPheValProAsnValCysValSerThrSerAlaLeuGln-+ 756046 : }ATCCATGTATTTGTTCccaatgtctgtgtctctacttctgctttgcagat....... : 756096 152 : rget Intron 14 >>>> IleThrLeu{A} >>>> Target Intron 15 > : 154 9558 bp :::|||! !{.} 73770 bp ++ValThrSer{G}++ 756097 : ...................aggtgACCTCT{G}gt....................... : 765664 155 : >>> {sn}AspValProVal{Tr} >>>> Target Intron 16 >>>> {p} : 159 {.!} !!:!!||||||{||} 15627 bp {|} ++{ly}HisIleProVal{Tr}++ +-{p} 765665 : ...ag{GC}CACATTCCAGTT{TG}gt..........................aa{g} : 855075 160 : SerLysLeuGluSerGlyHisLeuProSerMetGlnGlnLeuValGlnIleLeu >> : 178 ||| :::||| !||||||||||||:!:::!.!.||| ! !! !! ! ArgLysArgLysSerProHisLeuProSerLeuArgAsnLeuArgGlyAsnGln-+ 855076 : aggaagaggaagagcccACATCTCCCATCTCTCAGGAACCTGAGAGGAAATCAGct.. : 855132 179 : >> Target Intron 17 >>>> AspAsnGluMetLysLeuAsnValHisMet{A : 188 1101 bp ..!......:!:|||||| !:!!||||||{! ++SerGlySerLeuLysLeuPheIleHisMet{G 855133 : ........................agTCTGGGTCTCTTAAACTGTTTATCCACATG{G : 856261 189 : } >>>> Target Intron 18 >>>> {sp}SerIleProHisHis{Ar} >> : 194 } 1234 bp {!:}|||:!! !||| !{||} }++ ++{lu}SerValCysHisSer{Ar}++ 856262 : }gt..........................ag{AA}TCAGTCTGTCACTCC{AG}gt.. : 857517 195 : >> Target Intron 19 >>>> {g}Ser : 195 18582 bp {|}||| ++{g}Ser 857518 : ........................ag{A}AGT : 876100 vulgar: SPP00000025_1.0 2 195 . NIVO01008816.1:subseq(494279,1406561) 11442 876100 + 135 M 11 33 5 0 2 I 0 81827 3 0 2 M 10 30 S 0 1 5 0 2 I 0 66377 3 0 2 S 1 3 5 0 2 I 0 178033 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 12643 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 83168 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 15924 3 0 2 S 1 2 M 11 33 5 0 2 I 0 11465 3 0 2 M 9 27 S 0 1 5 0 2 I 0 3012 3 0 2 S 1 2 M 16 48 5 0 2 I 0 97297 3 0 2 M 2 6 5 0 2 I 0 42716 3 0 2 M 13 39 S 0 1 5 0 2 I 0 8671 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 36026 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 106996 3 0 2 S 1 1 M 16 48 5 0 2 I 0 9554 3 0 2 M 3 9 S 0 1 5 0 2 I 0 73766 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 15623 3 0 2 S 1 1 M 18 54 5 0 2 I 0 1097 3 0 2 M 10 30 S 0 1 5 0 2 I 0 1230 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 18578 3 0 2 S 1 1 M 1 3 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 11443 876100 135 + . gene_id 6 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 11443 11475 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 11443 11475 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 11476 11477 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 11476 93306 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 93305 93306 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 93307 93337 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 93307 93337 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 93338 93339 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 93338 159718 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 337758 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 337757 337758 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 337759 337813 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 337759 337813 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 337814 337815 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 337814 350460 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 350459 350460 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 350461 350502 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 350461 350502 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 350503 350504 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 350503 433674 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 433673 433674 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 433675 433691 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 433675 433691 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 433692 433693 . + . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 433692 449619 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 449618 449619 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 449620 449654 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 449620 449654 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 449655 449656 . + . intron_id 7 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 449655 461123 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 461122 461123 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 461124 461151 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 461124 461151 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 461152 461153 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 461152 464167 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 464166 464167 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 464168 464217 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 464168 464217 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 464218 464219 . + . intron_id 9 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 464218 561518 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 604244 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 604243 604244 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 604245 604284 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 604245 604284 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 604285 604286 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 604285 612959 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 612958 612959 . + . intron_id 10 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 612960 612987 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 612960 612987 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 612988 612989 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 612988 649017 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 649016 649017 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 649018 649044 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 649018 649044 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 649045 649046 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 649045 756044 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 756043 756044 . + . intron_id 12 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 756045 756093 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 756045 756093 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 756094 756095 . + . intron_id 14 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 756094 765651 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 765650 765651 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 765652 765661 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 765652 765661 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 765662 765663 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 765662 839431 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 839430 839431 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 839432 839447 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 839432 839447 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 839448 839449 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 839448 855074 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 855073 855074 . + . intron_id 15 ; splice_site "aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 855075 855129 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 855075 855129 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 855130 855131 . + . intron_id 17 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 855130 856230 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 856229 856230 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 856231 856261 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 856231 856261 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 856262 856263 . + . intron_id 18 ; splice_site "Gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 856262 857495 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 876096 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 876095 876096 . + . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 876097 876100 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 876097 876100 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 11443 876100 135 + . alignment_id 6 ; Query SPP00000025_1.0 ; Align 11443 3 33 ; Align 93307 14 30 ; Align 337761 26 51 ; Align 350462 44 39 ; Align 433676 58 15 ; Align 449622 64 33 ; Align 461124 75 27 ; Align 464170 85 48 ; Align 561519 101 6 ; Align 604245 103 39 ; Align 612962 117 24 ; Align 649019 126 24 ; Align 756046 135 48 ; Align 765652 151 9 ; Align 839434 155 12 ; Align 855076 160 54 ; Align 856231 178 30 ; Align 857498 189 15 ; Align 876098 195 3 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 139 Query range: 2 -> 193 Target range: 536703 -> 1381253 3 : LeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGlu{Al} >> : 19 |||:!!|||:!! !||| ! !::!|||!.!|||! !..!||||||{::} LeuValLeuValSerLeuLysIleSerSerGlyMetGluGluSerGlu{Se}++ 536704 : CTGGTCTTAGTGAGCCTAAAGATCAGCTCTGGAATGGAGGAGAGTGAG{AG}gt.. : 536756 20 : >> Target Intron 1 >>>> {a}SerAlaAsnLeuGlyGlyValProSerL : 29 175296 bp {!}||| ! !||||||! !:!!|||:!!| ++{r}SerLeuPheLeuGlyValIleProAlaL 536757 : .......................ag{c}agTCTCTTCCTTGGGGTGATCCCTGCAA : 712078 30 : ysArgLeu >>>> Target Intron 2 >>>> LysMetGlnTyrAlaThrG : 38 || !:!! 34143 bp ::::::::: ::: ysAlaVal++ ++ArgLeuLysLeuSerLeuL 712079 : AAGCAGTGgt.........................agagattaaagttgagtcttt : 746248 39 : lyProLeuLeuLysPheGln >>>> Target Intron 3 >>>> IleCysV : 47 |||||| :::||| 20516 bp ! !||| euCysLeuLeuHisTrpGln++ ++ArgCysC 746249 : tatgtctcctgcattggcaggt.........................agAGATGTT : 766791 48 : alSerUnkGlyTyrArgArgValPheGluGluTyrMetArgValIleSerGlnArg : 65 !||| |||:!! !! !!.!! ! ! !|||:!:|||||||||! !! !.. ysSerGluGlyHisSerMetAla***AlaLeuTyrLeuArgValIleIleLeuHis 766792 : GTTCGGAGGGTCATTCCATGGCTTAAGCACTATACTTAAGGGTCATAATTCTTCAt : 766845 66 : TyrProAspIleArg{I} >>>> Target Intron 4 >>>> {le}Glu{G : 73 ||| ||| { } 66924 bp { !}! !{| TyrAspAspAsnAsp{A}++ ++{la}Ala{G 766846 : tatgatgataatgat{g}gt.........................ag{CC}GCA{G : 833793 74 : } >>>> Target Intron 5 >>>> {ly}GluAsnTyrLeuProGlnProI : 81 } 33747 bp {||}!!:!.!!::||||||:::||| }++ ++{ly}AspThrPheLeuProArgProH 833794 : }gt.........................ag{GA}GATACCTTccttccccgccccc : 867564 82 : leTyrArgHisIleAla{S} >>>> Target Intron 6 >>>> {er}Phe : 88 :::! !:!!:!! !{.} 8394 bp {.!}||| isHisIleAsnLeuGln{G}+- ++{lu}Phe 867565 : accatATCAACCTTCAA{G}gg.........................ag{AG}TTC : 875979 89 : {Le} >>>> Target Intron 7 >>>> {u}SerVal{Ph} >>>> Tar : 92 {||} 32130 bp {|}:!!|||{ } {Le}++ ++{u}AlaVal{Ar}++ 875980 : {Ct}gt.........................ag{G}GCTGTC{AG}gt........ : 908125 93 : get Intron 8 >>>> {e}LysLeuValLeuIleGlyLeuIleIleVal >> : 103 89696 bp { }|||||||||! !:!! !!:!!:!!:!!! ! ++{g}LysLeuValSerValArgIleLeuLeuAsp++ 908126 : .................ag{G}AAACTTGTATCTGTCAGAATTCTTCTAGATgt.. : 997852 104 : >> Target Intron 9 >>>> GlyLysAspProPheAlaPhePheGlyMetG : 113 101383 bp !|||..! !.!.|||!:!||| ! | ++LysLysSerPheLeuAlaTyrPheLysAspG 997853 : .......................agAAAAAATCCTTTCTAGCATATTTTAAAGACC : 1099263 114 : lnAlaProSer >>>> Target Intron 10 >>>> IleTrpGlnTrpGly : 121 ||.!!|||||| 75294 bp :!!|||:!!|||||| lnThrProSer++ -+ValTrpGluTrpGly 1099264 : AGACTCCTAGTgt..........................tggTATGGGAATGGGGA : 1174581 122 : GlnGlu{As} >>>> Target Intron 11 >>>> {n}LysValTyrAlaC : 129 :!! !{||} 30011 bp {|}|||:::||||||| LysThr{As}++ ++{n}LysIleTyrAlaC 1174582 : AAAACA{AA}gt..........................ag{t}aaaatatatgCTT : 1204616 130 : ysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMetSer >>>> : 146 || :!:||| !:::!!..!! !! !!: ......||| ::: ysGlyValValGlyTrpIleGluIleLysMetTyrArgSerCysProThr++ 1204617 : GTGGTGTTGTGGGATGGATAGAAATCAAAATGTataggtcatgtccaactgt.... : 1204669 147 : Target Intron 12 >>>> ThrGlyAlaPheGluIleThrLeuAsn{A} : 155 92638 bp |||...|||:::......{|} ++ArgArgProPheAsnIleSerPheGly{A}++ 1204670 : ......................agagaagaccctttaatatttcttttggg{G}gt : 1297333 156 : >>>> Target Intron 13 >>>> {sp}ValProValTrpSerLysLeu{Gl : 163 18654 bp {||}::: |||::::::...|||{.. +-{sp}LeuIleValTyrThrSerLeu{Se 1297334 : ..........................at{ac}ctaattgtatacacaagtctt{ag : 1316010 164 : } >>>> Target Intron 14 >>>> {u}Ser{G} >>>> Target In : 165 } 15559 bp {.}|||{|} 17030 }++ ++{r}Ser{G}-+ 1316011 : }gt..........................ag{t}tca{g}tt.............. : 1331578 166 : tron 15 >>>> {ly}HisLeuProSerMetGlnGlnLeuValGlnIleLeuAs : 178 bp {||} !! ! !:!!||||||:!! !||||||.!!:!!|| ++{ly}IleProLeuAlaMetGlnLysAspValGlnPheIleAs 1331579 : ............ag{GA}ATTCCTTTAGCAATGCAGAAGGATGTGCAATTTATAGa : 1348644 179 : p{A} >>>> Target Intron 16 >>>> {sn}GluMetLysLeuAsnVal : 185 |{|} 32562 bp {||}...::: ::: ::: p{A}++ ++{sn}SerValTyrIleTyrIle 1348645 : c{a}gt..........................ag{AT}Tcggtatacatatacatc : 1381227 186 : HisMetAspSerIleProHisHis : 193 :::::: !!!!:!!! ! !||| TyrIleHisThrLeuGlnSerHis 1381228 : tatatacaTACTTTACAATCCCAT : 1381253 vulgar: SPP00000025_1.0 2 193 . NIVO01008816.1:subseq(494279,1406561) 536703 1381253 + 139 M 16 48 S 0 2 5 0 2 I 0 175292 3 0 2 S 1 1 M 12 36 5 0 2 I 0 34139 3 0 2 M 13 39 5 0 2 I 0 20512 3 0 2 M 26 78 S 0 1 5 0 2 I 0 66920 3 0 2 S 1 2 M 1 3 S 0 1 5 0 2 I 0 33743 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 8390 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 32126 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 89692 3 0 2 S 1 1 M 10 30 5 0 2 I 0 101379 3 0 2 M 14 42 5 0 2 I 0 75290 3 0 2 M 7 21 S 0 2 5 0 2 I 0 30007 3 0 2 S 1 1 M 21 63 5 0 2 I 0 92634 3 0 2 M 9 27 S 0 1 5 0 2 I 0 18650 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 15555 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 17026 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 32558 3 0 2 S 1 2 M 14 42 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 536704 1381253 139 + . gene_id 7 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 536704 536753 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 536704 536753 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 536754 536755 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 536754 712049 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 712048 712049 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 712050 712086 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 712050 712086 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 712087 712088 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 712087 746229 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746228 746229 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 746230 746268 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 746230 746268 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746269 746270 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746269 766784 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 766783 766784 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 766785 766863 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 766785 766863 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 766864 766865 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 766864 833787 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833786 833787 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833788 833793 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833788 833793 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833794 833795 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833794 867540 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 867539 867540 . + . intron_id 4 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 867541 867582 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 867541 867582 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 867583 867584 . + . intron_id 6 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 867583 875976 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 875975 875976 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 875977 875983 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 875977 875983 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 875984 875985 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 875984 908113 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 908112 908113 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 908114 908122 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 908114 908122 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 908123 908124 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 908123 997818 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 997817 997818 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 997819 997849 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 997819 997849 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 997850 997851 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 997850 1099232 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1099231 1099232 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1099233 1099274 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1099233 1099274 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1099275 1099276 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1099275 1174568 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1174567 1174568 . + . intron_id 9 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1174569 1174591 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1174569 1174591 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1174592 1174593 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1174592 1204602 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1204601 1204602 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1204603 1204666 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1204603 1204666 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1204667 1204668 . + . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1204667 1297304 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1297303 1297304 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1297305 1297332 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1297305 1297332 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1297333 1297334 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1297333 1315986 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1315985 1315986 . + . intron_id 12 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1315987 1316011 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1315987 1316011 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1316012 1316013 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1316012 1331570 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1331569 1331570 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1331571 1331575 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1331571 1331575 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1331576 1331577 . + . intron_id 15 ; splice_site "tt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1331576 1348605 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1348604 1348605 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1348606 1348647 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1348606 1348647 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1348648 1348649 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1348648 1381209 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1381208 1381209 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1381210 1381253 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1381210 1381253 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 536704 1381253 139 + . alignment_id 7 ; Query SPP00000025_1.0 ; Align 536704 3 48 ; Align 712051 20 36 ; Align 746230 32 39 ; Align 766785 45 78 ; Align 833790 72 3 ; Align 867543 74 39 ; Align 875979 88 3 ; Align 908115 90 6 ; Align 997820 93 30 ; Align 1099233 103 42 ; Align 1174569 117 21 ; Align 1204604 125 63 ; Align 1297305 146 27 ; Align 1315989 156 21 ; Align 1331572 164 3 ; Align 1348608 166 39 ; Align 1381212 180 42 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 135 Query range: 5 -> 192 Target range: 14882 -> 1334273 6 : LeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSer{A} >>>> T : 21 |||!!!|||||| ! !!!! !:!::!! !|||! ||||||{ } LeuPheLeuValGlnIleTrpIleLeuIleTyrSerValAlaSer{A}++ 14883 : TTGTTTCTTGTACAAATATGGATTCTCATATATTCAGTTGCTTCA{A}gt...... : 14931 22 : arget Intron 1 >>>> {la}AsnLeuGlyGlyValProSerLysArgLeuL : 32 25006 bp { !}||| ||| :::||| ::: !! : ++{rg}AsnThrGlyLeuIleProCysArgGlyThrG 14932 : ...................ag{gg}aacacgggtttgattccttgtCGTGGGACtg : 39967 33 : ysMetGlnTyrAlaThr{G} >>>> Target Intron 2 >>>> {ly}Pro : 39 ::::: :::||||||{!} 6383 bp { !} luIleProHisAlaThr{A}+- +-{sp}Trp 39968 : agataccacatgccaca{g}gg.........................at{ac}tgg : 46371 40 : LeuLeuLysPheGln >>>> Target Intron 3 >>>> IleCys{Va} : 47 ||||||::: ||| 9009 bp ||||||{||} LeuLeuArgArgGln++ ++IleCys{Va}++ 46372 : cttctcaggagacaggt.........................agatttgt{gt}gt : 55406 48 : >>>> Target Intron 4 >>>> {l}SerUnkGlyTyrArgArgValPheGl : 56 53 bp {|}||| ||||||... ||||||:: -+{l}SerValGlyTyrAsnValValPheAs 55407 : .........................tg{a}agtgtaggttacaatgttgtatttga : 55484 57 : uGluTyrMetArg >>>> Target Intron 5 >>>> ValIleSerGln{A : 65 : |||! ::: 73038 bp :::||| { pIleTyrSerLys++ ++GlyValSerPro{V 55485 : CATCTACAgtaaagt.........................agggggtttctcca{g : 128549 66 : } >>>> Target Intron 6 >>>> {rg}TyrProAspIleArgIleGluG : 73 } 60165 bp { !}:::|||...||||||::: . }++ ++{al}PheProSerIleArgValPheS 128550 : }gt.........................ag{tc}ttccccagcatcagggtcttct : 188738 74 : ly{G} >>>> Target Intron 7 >>>> {lu}AsnTyrLeuProGlnPro : 80 ..{.} 108143 bp {..}|||:!! |||! ! er{S}++ ++{er}AsnHis---ProProAsp 188739 : cc{a}gt.........................ag{GT}AACCAC---CCTCCTGAC : 296899 81 : IleTyrArgHisIleAlaSerPheLeuSerValPheLysLeuVal >>>> Targ : 96 :!!||| !|||! ! |||||||||:::|||::!||| ! LeuTyrTyrHisArgLeuIlePheLeuSerIlePheGluLeuTyr++ 296900 : CTTTATTACCACAGACTaatttttttgtccatttttgaACTATATgt......... : 296949 97 : et Intron 8 >>>> LeuIle{Gl} >>>> Target Intron 9 >>>> : 98 55046 bp ! !:!!{.!} 37579 bp ++TyrVal{Se}++ + 296950 : ................agTATGTT{AG}gt.........................a : 389578 99 : {y}LeuIleIleValGlyLysAsp{Pr} >>>> Target Intron 10 >>> : 106 {!}||||||||| !|||:!! { } 192981 bp -{r}LeuIleIleArgGlyGluLys{Ly}++ 389579 : a{T}CTCATAATAAGAGGGGAAAag{aa}gt......................... : 389606 107 : > {o}PheAlaPhePhe >>>> Target Intron 11 >>>> GlyMetGl : 113 {!}|||||||||||| 61837 bp ||| !:: ++{s}PheAlaPhePhe++ ++GlyTrpAr 389607 : .ag{G}TTTGCCTTTTTTgt..........................aggGGTGGAG : 644441 114 : n{Al} >>>> Target Intron 12 >>>> {a}ProSerIleTrp{Gl} : 119 !{::} 34458 bp {!} :::|||{.!} g{Se}++ ++{r}SerHisValTrp{As}++ 644442 : A{AG}gt..........................ag{t}agtcatgtatgg{aa}gt : 678919 120 : >>>> Target Intron 13 >>>> {n}TrpGlyGlnGluAsn{Ly} >>>> : 125 65713 bp {.}||| !!!.......{!:} ++{n}TrpThrHisSerGly{Ar}++ 678920 : ..........................ag{C}TGGACACACAGTGGG{AG}gt.... : 744652 126 : Target Intron 14 >>>> {s}ValTyrAla{Cy} >>>> Target In : 129 27084 bp {!}:!! ! |||{||} 19970 ++{g}LeuGluAla{Cy}++ 744653 : ......................ag{G}TTAGAGGCC{TG}gt.............. : 771748 130 : tron 15 >>>> {s}MetMetValPhePheLeuSerAsnMetIleGluAsn{Gl : 142 bp {|}:!::!!:!!|||!!.|||||| :!::!:!!: !{! ++{s}LeuLeuLeuPheLeuLeuSerLeuLeuLeuAspPhe{Le 771749 : ............ag{C}CTTTTGTTGTTCTTGCTGTCCTTACTCTTGGACTTC{CT : 791753 143 : } >>>> Target Intron 16 >>>> {n}CysMetSerThrGly{Al} > : 148 } 50917 bp {!} !:!!|||!:!|||{ } }++ ++{u}IleLeuSerSerGly{Ar}-+ 791754 : }gt..........................ag{A}ATCTTGAGCAGTGGA{CG}ct. : 842692 149 : >>> Target Intron 17 >>>> {a}PheGluIleThrLeuAsn >>>> T : 155 14806 bp {!}.!!...:!::!!|||.!. ++{g}IleSerLeuSerLeuGln++ 842693 : .........................ag{A}ATCAGTCTGTCACTCCAGgt...... : 857517 156 : arget Intron 18 >>>> AspValProValTrpSerLysLeu >>>> Tar : 163 95047 bp :::::: ::: ||||||||| ++AsnLeuSerIleSerSerLysLeu++ 857518 : ....................agaatttgtccatttcatctaagttagt........ : 952588 164 : get Intron 19 >>>> GluSerGlyHisLeuProSerMetGln{G} >>>> : 172 155933 bp ::: !!|||.!.||| !!.! .!.{:} ++LysProGlyGluLeuValLys***Asn{G}++ 952589 : ..................agaagcCAGGAGAGCTTGTAAAATAAAAT{G}gt.... : 1108549 173 : Target Intron 20 >>>> {ln}LeuValGln{I} >>>> Target In : 176 67116 bp {!!}||||||:!!{:} 60394 ++{lu}LeuValLys{V}++ 1108550 : ......................ag{AA}CTGGTGAAA{G}gt.............. : 1175677 177 : tron 21 >>>> {le}LeuAspAsnGluMetLysLeuAsnValHisMet >>> : 188 bp {!!}|||.!....... !! !:!!:!!:!!|||..! ++{al}LeuGlnGlySerTrpMetValHisIleHisGln++ 1175678 : ............ag{TC}TTGCAAGGATCCTGGATGGTTCACATCCACCAGgt... : 1236106 189 : > Target Intron 22 >>>> {A} >>>> Target Intron 23 >>>> : 188 94717 bp {!} 3438 bp ++{G}++ 1236107 : .......................ag{G}gt.......................... : 1330824 189 : {sp}SerIleProHis : 192 { }::::::|||||| ++{ly}AsnLeuProHis 1330825 : ag{gg}aatcttccccac : 1334273 vulgar: SPP00000025_1.0 5 192 . NIVO01008816.1:subseq(494279,1406561) 14882 1334273 + 135 M 15 45 S 0 1 5 0 2 I 0 25002 3 0 2 S 1 2 M 16 48 S 0 1 5 0 2 I 0 6379 3 0 2 S 1 2 M 6 18 5 0 2 I 0 9005 3 0 2 M 2 6 S 0 2 5 0 2 I 0 49 3 0 2 S 1 1 M 13 39 5 0 2 I 0 73034 3 0 2 M 4 12 S 0 1 5 0 2 I 0 60161 3 0 2 S 1 2 M 8 24 S 0 1 5 0 2 I 0 108139 3 0 2 S 1 2 M 2 6 G 1 0 M 18 54 5 0 2 I 0 55042 3 0 2 M 2 6 S 0 2 5 0 2 I 0 37575 3 0 2 S 1 1 M 7 21 S 0 2 5 0 2 I 0 192977 3 0 2 S 1 1 M 4 12 5 0 2 I 0 61833 3 0 2 M 3 9 S 0 2 5 0 2 I 0 34454 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 65709 3 0 2 S 1 1 M 5 15 S 0 2 5 0 2 I 0 27080 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 19966 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 50913 3 0 2 S 1 1 M 5 15 S 0 2 5 0 2 I 0 14802 3 0 2 S 1 1 M 6 18 5 0 2 I 0 95043 3 0 2 M 8 24 5 0 2 I 0 155929 3 0 2 M 9 27 S 0 1 5 0 2 I 0 67112 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 60390 3 0 2 S 1 2 M 11 33 5 0 2 I 0 94713 3 0 2 S 0 1 5 0 2 I 0 3434 3 0 2 S 1 2 M 4 12 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 14883 1334273 135 + . gene_id 8 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 14883 14928 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 14883 14928 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 14929 14930 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 14929 39934 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 39933 39934 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 39935 39985 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 39935 39985 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 39986 39987 . + . intron_id 2 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 39986 46368 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 46367 46368 . + . intron_id 1 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 46369 46388 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 46369 46388 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 46389 46390 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 46389 55397 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 55396 55397 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 55398 55405 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 55398 55405 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 55406 55407 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 55406 55458 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 55457 55458 . + . intron_id 3 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 55459 55498 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 55459 55498 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 55499 55500 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 55499 128536 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 128535 128536 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 128537 128549 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 128537 128549 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 128550 128551 . + . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 128550 188714 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 188713 188714 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 188715 188741 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 188715 188741 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 188742 188743 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 188742 296884 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 296883 296884 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 296885 296946 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 296885 296946 . + . insertions 0 ; deletions 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 296947 296948 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 296947 351992 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 351991 351992 . + . intron_id 7 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 351993 352000 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 351993 352000 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 352001 352002 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 352001 389579 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 389578 389579 . + . intron_id 8 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 389580 389603 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 389580 389603 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 389604 389605 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 389604 582584 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 582583 582584 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 582585 582597 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 582585 582597 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 582598 582599 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 582598 644434 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 644433 644434 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 644435 644445 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 644435 644445 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 644446 644447 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 644446 678903 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 678902 678903 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 678904 678918 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 678904 678918 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 678919 678920 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 678919 744631 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 744630 744631 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 744632 744649 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 744632 744649 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 744650 744651 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 744650 771733 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 771732 771733 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 771734 771745 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 771734 771745 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 771746 771747 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 771746 791715 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 791714 791715 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 791716 791754 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 791716 791754 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 791755 791756 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 791755 842671 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 842670 842671 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 842672 842689 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 842672 842689 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 842690 842691 . + . intron_id 17 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 842690 857495 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 952561 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 952560 952561 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 952562 952585 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 952562 952585 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 952586 952587 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 952586 1108518 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1108517 1108518 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1108519 1108546 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1108519 1108546 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1108547 1108548 . + . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1108547 1175662 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1175661 1175662 . + . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1175663 1175674 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1175663 1175674 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1175675 1175676 . + . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1175675 1236068 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1236067 1236068 . + . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1236069 1236103 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1236069 1236103 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1236104 1236105 . + . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1236104 1330820 . + . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1330819 1330820 . + . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1330821 1330821 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1330821 1330821 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1330822 1330823 . + . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1330822 1334259 . + . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1334258 1334259 . + . intron_id 22 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1334260 1334273 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1334260 1334273 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 14883 1334273 135 + . alignment_id 8 ; Query SPP00000025_1.0 ; Align 14883 6 45 ; Align 39937 22 48 ; Align 46371 39 18 ; Align 55398 45 6 ; Align 55460 48 39 ; Align 128537 61 12 ; Align 188717 66 24 ; Align 296887 75 6 ; Align 296893 78 54 ; Align 351993 96 6 ; Align 389581 99 21 ; Align 582586 107 12 ; Align 644435 111 9 ; Align 678905 115 12 ; Align 744633 120 15 ; Align 771735 126 9 ; Align 791717 130 36 ; Align 842673 143 15 ; Align 857497 149 18 ; Align 952562 155 24 ; Align 1108519 163 27 ; Align 1175665 173 9 ; Align 1236071 177 33 ; Align 1334262 189 12 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 137 Query range: 5 -> 194 Target range: 164424 -> 1271453 6 : LeuLeuLeuValAlaAlaSerAlaMetValArgSer >>>> Target Intron : 18 |||||||||:!!..! !|||!.!.!. !|||... 8247 bp LeuLeuLeuLeuCysIleSerValPheSerArgGln++ 164425 : CTGTTGTTGCTTTGCATTTCAGTATTTAGCCGACAggt.................. : 164463 19 : 1 >>>> GluAlaSerAlaAsnLeuGlyGlyValProSerLys{A} >>>> T : 30 .!.:!!|||!.! !||||||.!!:!!|||||||||{ } ++AsnSerSerValAlaLeuGlySerLeuProSerLys{G}-+ 164464 : .......agAACTCCTCAGTGGCTCTTGGCAGCCTGCCAAGTAAA{G}ct...... : 172747 31 : arget Intron 2 >>>> {rg}LeuLysMetGlnTyrAla{T} >>>> Tar : 37 43963 bp {!!}|||!....!|||:!!|||{.} ++{ly}LeuSerGlnGlnHisAla{V}+- 172748 : ...................ag{GG}TTGAGTCAGCAGCACGCG{G}gg........ : 216731 38 : get Intron 3 >>>> {hr}GlyProLeuLeuLysPheGlnIleCysValSer : 48 13339 bp {.!}||| ||| :::...::: :::... ++{al}GlyGlyTyrLeuLeuTyrAsnValValLeuAsp 216732 : .................ag{tt}ggaggatacttgctttacaatgttgtgttggat : 230100 49 : UnkGlyTyrArg{A} >>>> Target Intron 4 >>>> {rg}ValPheGl : 56 ...! !|||!:!{!} 22023 bp {.!}|||||||| SerValTyrGln{A}++ +-{sn}ValPheGl 230101 : TCTGTGTACCAA{A}gt.........................at{AC}GTGTTTGA : 252147 57 : uGluTyrMetArgValIleSer{Gl} >>>> Target Intron 5 >>>> { : 64 | ||| ||||||.!!!!!{::} 16108 bp { uIleTyrSerArgValPheTrp{Ar}+- ++{ 252148 : AATTTACTCCAGGGTTTTTTGG{AG}ga.........................ag{ : 268281 65 : n}ArgTyrProAspIleArgIleGluGlyGluAsnTyrLeuProGlnProIleTyr : 82 !}|||||| ! ! !!:!:!! ! !!|||||| !:!! !... !!|||||| g}ArgTyrSerLeuLysLysLeuLeuArgGluAsnValMetMetSerAlaIleTyr 268282 : A}AGATACAGCTTGAAAAAATTATTAAGGGAAAATGTCATGATGTCTGCAATTTAT : 268333 83 : ArgHisIle{A} >>>> Target Intron 6 >>>> {la}SerPheLeuSe : 90 !|||:!:{|} 32723 bp {||}|||:::||||| AlaHisLeu{A}-+ ++{la}SerTyrLeuSe 268334 : GCTCACTTG{G}tt.........................ag{Cg}tcatatctttc : 301080 91 : rValPheLysLeuValLeuIleGlyLeuIle{I} >>>> Target Intron 7 : 101 |...|||... ||| ||| { } 175121 bp rAlaPheSerTyrCysLeu***GlySerPro{G}++ 301081 : tgccttttcatactgtctatgaggttctcca{g}gt.................... : 301116 102 : >>>> {le}ValGlyLysAspProPheAlaPhePheGlyMetGlnAlaProSer : 116 { }::! !!:!!!:|||||| !! ! |||:!:||| !|||||| ++{ly}IleHisArgGluProPheLeuCysAlaGlyLeuGlnLeuProSer 301117 : .....ag{gg}atTCACAGGGAGCCCTTTCTCTGTGCAGGGCTCCAGCTTCCATCC : 476279 117 : Ile{Tr} >>>> Target Intron 8 >>>> {p}Gln{Tr} >>>> Tar : 120 !{||} 41629 bp {|}..!{||} Pro{Tr}+- ++{p}Ser{Tr}++ 476280 : CCT{TG}ga.........................ag{G}TCA{TG}gt........ : 517924 121 : get Intron 9 >>>> {p}GlyGlnGlu{A} >>>> Target Intron 1 : 124 126513 bp {|}||| !|||{.} 131029 bp ++{p}GlyGlyGlu{G}++ 517925 : .................ag{g}GGTGGAGAA{G}gt.................... : 644448 125 : 0 >>>> {sn}Lys >>>> Target Intron 11 >>>> ValTyrAlaCy : 129 {!.}||| 77077 bp |||||| !|| ++{lu}Lys++ +-ValTyrLysCy 644449 : ......ag{aG}AAGgt..........................atGTATATAAATG : 852566 130 : sMetMetValPhePheLeuSerAsnMetIle{G} >>>> Target Intron 1 : 140 |||| :!! !|||||| ! !:!: {|} 4896 bp sMetHisLeuHisPheLeuValPheLeu***{G}+- 852567 : CATGCACTTACACTTTCTTGTTTTCCTATAG{G}gc.................... : 852602 141 : 2 >>>> {lu}AsnGlnCysMetSer{Th} >>>> Target Intron 13 > : 146 {||}::: ||| |||{!:} 23004 bp ++{lu}SerValCysHisSer{Se}++ 852603 : ......ag{AA}TCAGTCTGTCACTCC{AG}gt....................... : 857517 147 : >>> {r}GlyAlaPhe{Gl} >>>> Target Intron 14 >>>> {u}Il : 151 {!}!.!..!! !{..} 24115 bp {!}|| ++{r}AlaCysSer{Ar}++ ++{g}Il 857518 : ...ag{C}GCCTGCTCC{AG}gt..........................ag{A}AT : 904647 152 : eThr{L} >>>> Target Intron 15 >>>> {eu}AsnAsp{Va} >>> : 156 ||||{ } 56603 bp { !}||||||{:!} eThr{A}++ ++{la}AsnAsp{Il}++ 904648 : AACA{G}gt..........................ag{CT}AATGAC{AT}gt... : 961269 157 : > Target Intron 16 >>>> {l}ProValTrpSerLysLeuGluSerGlyH : 166 65650 bp {!} ! !||| !!::!|||:!! !!|||| ++{e}LeuSerTrpProArgLeuGlnProGlyH 961270 : .......................ag{C}TTGTCATGGCCTCGACTGCAGCCTGGGC : 1026945 167 : isLeuProSerMet{Gl} >>>> Target Intron 17 >>>> {n}GlnLe : 173 ||||| !..!! {! } 158231 bp { } || isLeuValGluThr{Pr}++ ++{o}AlaLe 1026946 : ACTTAGTAGAAACC{CC}gt..........................ag{t}GCTTT : 1185197 174 : uValGlnIleLeuAspAsnGluMetLysLeuAsnValHis{Me} >>>> Targe : 187 |:!!||| !||| !|||...!!: !||||||:!!|||{!!} 2 uIleGlnTyrLeuIleAsnSerIleLeuLeuAsnLeuHis{Il}-+ 1185198 : GATACAATATCTAATCAATAGTATATTGCTTAATCTCCAT{AT}at.......... : 1185243 188 : t Intron 18 >>>> {t}AspSerIle >>>> Target Intron 19 >> : 191 5848 bp {:}|||..!:!: 60343 bp ++{e}AspAspVal++ 1185244 : ................ag{A}GATGATGTGgt........................ : 1211101 192 : >> ProHisHisArg : 194 |||||||||::: +-ProHisHisGln 1211102 : ..accctcatcaccag : 1271453 vulgar: SPP00000025_1.0 5 194 . NIVO01008816.1:subseq(494279,1406561) 164424 1271453 + 137 M 12 36 5 0 2 I 0 8243 3 0 2 M 12 36 S 0 1 5 0 2 I 0 43959 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 13335 3 0 2 S 1 2 M 15 45 S 0 1 5 0 2 I 0 22019 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 16104 3 0 2 S 1 1 M 21 63 S 0 1 5 0 2 I 0 32719 3 0 2 S 1 2 M 14 42 S 0 1 5 0 2 I 0 175117 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 41625 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 126509 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 131025 3 0 2 S 1 2 M 1 3 5 0 2 I 0 77073 3 0 2 M 14 42 S 0 1 5 0 2 I 0 4892 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 23000 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 24111 3 0 2 S 1 1 M 2 6 S 0 1 5 0 2 I 0 56599 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 65646 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 158227 3 0 2 S 1 1 M 15 45 S 0 2 5 0 2 I 0 25844 3 0 2 S 1 1 M 3 9 5 0 2 I 0 60339 3 0 2 M 4 12 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 164425 1271453 137 + . gene_id 9 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 164425 164460 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 164425 164460 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 164461 164462 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 164461 172707 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 172706 172707 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 172708 172744 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 172708 172744 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 172745 172746 . + . intron_id 2 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 172745 216707 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 216706 216707 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 216708 216728 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 216708 216728 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 216729 216730 . + . intron_id 3 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 216729 230067 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 230066 230067 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 230068 230115 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 230068 230115 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 230116 230117 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 230116 252138 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 252137 252138 . + . intron_id 3 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 252139 252172 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 252139 252172 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 252173 252174 . + . intron_id 5 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 252173 268280 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 268279 268280 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 268281 268345 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 268281 268345 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 268346 268347 . + . intron_id 6 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 268346 301068 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 301067 301068 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 301069 301113 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 301069 301113 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 301114 301115 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 301114 476234 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 476233 476234 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 476235 476286 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 476235 476286 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 476287 476288 . + . intron_id 8 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 476287 517915 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 517914 517915 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 517916 517921 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 517916 517921 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 517922 517923 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 517922 644434 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 644433 644434 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 644435 644445 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 644435 644445 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 644446 644447 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 644446 775474 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 775473 775474 . + . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 775475 775479 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 775475 775479 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 775480 775481 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 775480 852556 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 852555 852556 . + . intron_id 10 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 852557 852599 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 852557 852599 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 852600 852601 . + . intron_id 12 ; splice_site "GC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 852600 857495 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 880518 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 880517 880518 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 880519 880530 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 880519 880530 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 880531 880532 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 880531 904645 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 904644 904645 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 904646 904653 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 904646 904653 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 904654 904655 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 904654 961256 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 961255 961256 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 961257 961266 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 961257 961266 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 961267 961268 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 961267 1026916 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1026915 1026916 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1026917 1026961 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1026917 1026961 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026962 1026963 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026962 1185192 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1185191 1185192 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1185193 1185240 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1185193 1185240 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1185241 1185242 . + . intron_id 18 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1185241 1211088 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1211087 1211088 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1211089 1211098 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1211089 1211098 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1211099 1211100 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1211099 1271441 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1271440 1271441 . + . intron_id 18 ; splice_site "ac" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1271442 1271453 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1271442 1271453 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 164425 1271453 137 + . alignment_id 9 ; Query SPP00000025_1.0 ; Align 164425 6 36 ; Align 172708 18 36 ; Align 216710 31 18 ; Align 230070 38 45 ; Align 252141 54 30 ; Align 268282 65 63 ; Align 301071 87 42 ; Align 476237 102 48 ; Align 517917 119 3 ; Align 644436 121 9 ; Align 775477 125 3 ; Align 852557 126 42 ; Align 857498 141 15 ; Align 880520 147 9 ; Align 904647 151 6 ; Align 961259 154 6 ; Align 1026918 157 42 ; Align 1185194 172 45 ; Align 1211090 188 9 ; Align 1271442 191 12 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 125 Query range: 3 -> 194 Target range: 101596 -> 1253561 4 : LeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGlu >>>> Targ : 19 ...|||:::||| :::||| |||||| |||...:::||| PheLeuValLeuAlaIleAlaAsnSerAlaAlaValAsnThrGlu++ 101597 : ttccttgtcttggctattgcaaatagtgctgctgtgaacactgaggt......... : 101644 20 : et Intron 1 >>>> AlaSerAlaAsnLeuGlyGlyValPro >>>> Targ : 28 87073 bp :::||| |||... ||| ++SerSerProAlaSerGlySerSerPro++ 101645 : ................agtcttccccagcatcagggtcttctccagt......... : 188744 29 : et Intron 2 >>>> SerLysArgLeuLysMet >>>> Target Intron : 34 62494 bp !:!||| ! !||| ! 1022 bp ++AsnLysSerGluLysGlu++ 188745 : ................agAACAAGTCAGAGAAGGAGgt.................. : 251256 35 : 3 >>>> GlnTyrAlaThrGlyProLeuLeuLysPheGlnIleCysValSerUn : 49 ..! ! !|||||| !||||||:!!||| !!! :!!.!! ++MetGlnPheThrGlyLeuLeuLeuGluPheGlyAlaTrpLeuGlyMe 251257 : .......agATGCAATTCACAGGCTTGCTTCTGGAATTTGGCGCCTGGCTGGGGAT : 252321 50 : kGlyTyrArgArgValPheGluGlu >>>> Target Intron 4 >>>> Ty : 58 ||| !!||| !! !... ::: 36137 bp :: tGlyAspArgGlyTrpIleLeuLys++ ++Tr 252322 : GGGAGATCGGGGGTGGattttgaaggt.........................agtg : 288485 59 : rMetArgVal{Il} >>>> Target Intron 5 >>>> {e}SerGln >> : 65 : ||| !{ } 12005 bp {!}!!!||| pSerArgSer{Cy}++ ++{s}ThrGln++ 288486 : gagcAGATCC{TG}gt.........................ag{C}ACCCAGgt.. : 300513 66 : >> Target Intron 6 >>>> ArgTyrProAspIleArgIleGlu >>>> : 73 103383 bp ! !||| !..!:!!|||:!!:!! ++IleTyrCysSerLeuArgValGln++ 300514 : .......................agATCTATTGTTCTCTCCGAGTCCAGgt..... : 403920 74 : Target Intron 7 >>>> GlyGluAsn >>>> Target Intron 8 >> : 76 15624 bp !..!||| 72675 bp ++LysSerAsn++ 403921 : ....................agAAGTCAAATgt....................... : 419553 77 : >> TyrLeuProGlnProIleTyrArgHisIleAlaSerPheLeuSerValPheL : 93 ::::::||| |||:::::: ::: :::|||:::|||. ++PheIleProLeuProLeuHisLeuSerProLeuAlaThrIleSerLeuPheS 419554 : ..agtttatccctctgcccctccacctttcccctttggcaaccataagtctgtttt : 492277 94 : ysLeuVal >>>> Target Intron 9 >>>> LeuIle >>>> Target : 98 ..::: 69233 bp |||::: 56 erMetSer++ ++LeuLeu++ 492278 : ctatgtctgt.........................agcttctggt........... : 561527 99 : Intron 10 >>>> GlyLeuIleIleValGlyLysAspProPhe{Al} >>> : 108 142 bp |||||||||...:::... !!: ! !{ } ++GlyLeuIlePheIleAsnLeuGlu***Gly{Ar}++ 561528 : ...............agGGattaatttttatcaatttaGAATGAGGC{AG}gt... : 617701 109 : > Target Intron 11 >>>> {a}PhePheGlyMetGlnAlaProSerIle{ : 118 29663 bp {!}|||!!.! !! ||||||||||||:!:{ ++{g}PheLeuAspThrGlnAlaProSerLeu{ 617702 : .......................ag{G}TTTTTAGATACACAGGCCCCCTCGTTG{ : 647390 119 : T} >>>> Target Intron 12 >>>> {rp}GlnTrp{Gl} >>>> Tar : 121 |} 105366 bp {||} |||{ } T}++ ++{rp}GlyTrp{Th}-+ 647391 : T}gt..........................ag{GG}GGTTGG{AC}ct........ : 752769 122 : get Intron 13 >>>> {y}Gln{G} >>>> Target Intron 14 >>> : 123 22708 bp {!}:!!{|} 57909 bp ++{r}Glu{G}++ 752770 : ..................ag{a}GAA{G}gt......................... : 775482 124 : > {lu}AsnLysValTyrAlaCysMetMetValPhePheLeuSerAsnMetIleG : 140 {||}! ... :::...|||...:::|||:::||||||||| !!||| !. ++{lu}IleSerSerPheCysCysPheIleValTrpPheLeuSerTyrMetTyrS 775483 : .ag{AG}ATATcttcattttgctgttttattgtttggttTCTCAGTTACATGTACT : 833439 141 : lu{As} >>>> Target Intron 15 >>>> {n}GlnCysMetSerThrGl : 147 .!{!.} 24052 bp {.} !!:!!||| ! er{Ar}++ ++{g}IleSerLeuSerLeuGl 833440 : CA{AG}gt..........................ag{A}ATCAGTCTGTCACTCCA : 857512 148 : y >>>> Target Intron 16 >>>> AlaPheGlu >>>> Target In : 151 ! 11452 bp ::!|||..! 40640 n++ ++SerPheArg++ 857513 : Ggt..........................agAGTTTTAGGgt.............. : 868978 152 : tron 17 >>>> IleThrLeuAsnAspValProValTrpSerLysLeuGluSer : 164 bp |||! !||| !... !!|||||||||||| :!! !.! ++IleMetLeuAlaSerPheProValTrpSerValIlePheLys 868979 : ............agATCATGTTAGCTTCATTTCCAGTTTGGTCTGTTATATTCAAA : 909655 165 : >>>> Target Intron 18 >>>> GlyHisLeu >>>> Target Int : 168 169202 bp ||| ||| 20658 ++ ++GlyGlyLeu++ 909656 : gt..........................agggaggcctggt............... : 1078871 169 : ron 19 >>>> ProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetL : 182 bp ||||||::: :::::::::......|||||| -+ProSerIlePheProSerIleArgValPheSerAsnGluSerA 1078872 : ...........tgccctcaatctttcccagcatcagggtcttttcaaatgagtcag : 1099569 183 : ysLeuAsnVal{Hi} >>>> Target Intron 20 >>>> {s}MetAspSe : 189 |||...:::{..} 111506 bp {.} ||| laLeuArgIle{Ar}++ ++{g}AspAspVa 1099570 : ctcttcgcatc{ag}gt..........................ag{A}GATGATGT : 1211096 190 : r >>>> Target Intron 21 >>>> IleProHisHisArg : 194 ! 42448 bp ||||||||| ||| l++ ++IleProHisIleArg 1211097 : Ggt..........................agattccacatataagg : 1253561 vulgar: SPP00000025_1.0 3 194 . NIVO01008816.1:subseq(494279,1406561) 101596 1253561 + 125 M 15 45 5 0 2 I 0 87069 3 0 2 M 9 27 5 0 2 I 0 62490 3 0 2 M 6 18 5 0 2 I 0 1018 3 0 2 M 24 72 5 0 2 I 0 36133 3 0 2 M 4 12 S 0 2 5 0 2 I 0 12001 3 0 2 S 1 1 M 2 6 5 0 2 I 0 103379 3 0 2 M 8 24 5 0 2 I 0 15620 3 0 2 M 3 9 5 0 2 I 0 72671 3 0 2 M 20 60 5 0 2 I 0 69229 3 0 2 M 2 6 5 0 2 I 0 56138 3 0 2 M 10 30 S 0 2 5 0 2 I 0 29659 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 105362 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 22704 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 57905 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 24048 3 0 2 S 1 1 M 6 18 5 0 2 I 0 11448 3 0 2 M 3 9 5 0 2 I 0 40636 3 0 2 M 14 42 5 0 2 I 0 169198 3 0 2 M 3 9 5 0 2 I 0 20654 3 0 2 M 18 54 S 0 2 5 0 2 I 0 111502 3 0 2 S 1 1 M 3 9 5 0 2 I 0 42444 3 0 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 101597 1253561 125 + . gene_id 10 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 101597 101641 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 101597 101641 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 101642 101643 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 101642 188714 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 188713 188714 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 188715 188741 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 188715 188741 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 188742 188743 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 188742 251235 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 251234 251235 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 251236 251253 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 251236 251253 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 251254 251255 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 251254 252275 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 252274 252275 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 252276 252347 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 252276 252347 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 252348 252349 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 252348 288484 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 288483 288484 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 288485 288498 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 288485 288498 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 288499 288500 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 288499 300503 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 300502 300503 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 300504 300510 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 300504 300510 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 300511 300512 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 300511 403893 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 403892 403893 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 403894 403917 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 403894 403917 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 403918 403919 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 403918 419541 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 419540 419541 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 419542 419550 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 419542 419550 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 419551 419552 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 419551 492225 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 492224 492225 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 492226 492285 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 492226 492285 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 492286 492287 . + . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 492286 561518 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 617666 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 617665 617666 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 617667 617698 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 617667 617698 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 617699 617700 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 617699 647361 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 647360 647361 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 647362 647390 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 647362 647390 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 647391 647392 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 647391 752756 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 752755 752756 . + . intron_id 11 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 752757 752766 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 752757 752766 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 752767 752768 . + . intron_id 13 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 752767 775474 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 775473 775474 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 775475 775479 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 775475 775479 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 775480 775481 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 775480 833388 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833387 833388 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833389 833443 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833389 833443 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833444 833445 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833444 857495 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 868966 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 868965 868966 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 868967 868975 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 868967 868975 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 868976 868977 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 868976 909615 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 909614 909615 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 909616 909657 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 909616 909657 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 909658 909659 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 909658 1078859 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1078858 1078859 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1078860 1078868 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1078860 1078868 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1078869 1078870 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1078869 1099526 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1099525 1099526 . + . intron_id 18 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1099527 1099582 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1099527 1099582 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1099583 1099584 . + . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1099583 1211088 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1211087 1211088 . + . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1211089 1211098 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1211089 1211098 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1211099 1211100 . + . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1211099 1253546 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1253545 1253546 . + . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1253547 1253561 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1253547 1253561 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 101597 1253561 125 + . alignment_id 10 ; Query SPP00000025_1.0 ; Align 101597 4 45 ; Align 188715 19 27 ; Align 251236 28 18 ; Align 252276 34 72 ; Align 288485 58 12 ; Align 300505 63 6 ; Align 403894 65 24 ; Align 419542 73 9 ; Align 492226 76 60 ; Align 561519 96 6 ; Align 617667 98 30 ; Align 647363 109 27 ; Align 752759 119 6 ; Align 775476 122 3 ; Align 833391 124 51 ; Align 857497 142 18 ; Align 868967 148 9 ; Align 909616 151 42 ; Align 1078860 165 9 ; Align 1099527 168 54 ; Align 1211090 187 9 ; Align 1253547 190 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 130 Query range: 6 -> 194 Target range: 32308 -> 1376577 7 : LeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSerAla >>>> Targ : 22 ||| :::|||!.!:!!|||::: ||| ...||| LeuArgLeuAlaGlyAlaAlaValLysArgTyrProThrSerLys++ 32309 : ctgcgcttggCTGGAGCAGCcgtaaagagataccccacgtccaaggt......... : 32356 23 : et Intron 1 >>>> AsnLeuGlyGlyValProSerLysArgLeuLysMet{G : 34 52126 bp !||||||||||||::: ||| {. ++TrpAsnGlyGlyValProThrThrGlyLeuProGly{A 32357 : ................agTGGAATGGTGGagttccaaccactggactgccaggc{a : 84516 35 : l} >>>> Target Intron 2 >>>> {n}Tyr{Al} >>>> Target I : 36 !} 25725 bp {.}|||{ } 15386 s}++ ++{n}Tyr{Le}++ 84517 : a}gt.........................ag{c}tat{tt}gt............. : 110251 37 : ntron 3 >>>> {a}ThrGlyProLeuLeuLysPheGln >>>> Target I : 45 5 bp {!}:!!.!! !!||||||...||| ! 9982 ++{u}SerSerThrLeuLeuSerPheTyr++ 110252 : ............ag{A}TCAAGTACCCTGTTGTCCTTTTATgt............. : 264141 46 : ntron 4 >>>> IleCysValSerUnkGlyTyrArg{Ar} >>>> Target : 53 bp ::: |||||| |||::: {||} 1845 ++ValProValSerLeuGlyPheSer{Ar}+- 264142 : ............aggttcctgtgtccctggggttttcc{ag}gc............ : 274149 54 : Intron 5 >>>> {g}ValPheGluGluTyrMetArgValIleSerGln >>> : 65 83 bp {|}:!! ...:!!|||:!:!:! !!:!:!!!||| ++{g}IleLysSerLysTyrLeuLysPheValCysGln++ 274150 : .............ag{A}ATAAAGTCCAAATACCTTAAGTTTGTGTGCCAAgt... : 458766 66 : > Target Intron 6 >>>> ArgTyr >>>> Target Intron 7 >>> : 67 40336 bp ||| 25564 bp ++ArgGlu++ 458767 : ......................agagagaggt........................ : 499108 68 : > ProAspIleArgIleGluGlyGlu{A} >>>> Target Intron 8 >>> : 75 |||||| !|||||||||!.!! !{.} 114557 bp ++ProAspGlnArgIleGluAlaGly{G}++ 499109 : .agCCAGATCAAAGAATTGAGGCAGGA{G}gt........................ : 524697 76 : > {sn}TyrLeuProGlnProIleTyrArgHisIle{Al} >>>> Target I : 86 {..} ||||||...||| ||| {::} 8105 ++{ly}AspLeuProAsnProAspLeuLeuHisCys{Se}++ 524698 : .ag{gg}gatcttcccaacccagatttattgcattgc{ag}gt............. : 639288 87 : ntron 9 >>>> {a}SerPheLeuSerValPhe{Ly} >>>> Target Int : 93 1 bp {!} !||||||!!!:!!|||{!:} 19449 ++{r}ValPheLeuThrLeuPhe{Ar}++ 639289 : ............ag{T}GTCTTCCTCACTTTGTTC{AG}gt............... : 720360 94 : ron 10 >>>> {s}LeuValLeuIleGlyLeuIleIleValGlyLysAspProP : 107 bp {!} ! !|||:!:||| |||||| ||| ++{g}SerTyrLeuLeuGlyTyrIleIlePheLysLysValLysL 720361 : ...........ag{G}AGCTATTTACTGggttatatcatttttaaaaaagttaaaa : 739847 108 : heAlaPhePhe >>>> Target Intron 11 >>>> GlyMetGln >>>> : 114 |||||| 168255 bp ||| ||| ysAlaPhePro+- ++GlyCysGln++ 739848 : aggctTTTCCGgc..........................agGGCTGTCAGgt.... : 908125 115 : Target Intron 12 >>>> AlaProSerIle{Tr} >>>> Target In : 118 15817 bp ||||||||| !{||} 47717 ++AlaProSerAsp{Tr}++ 908126 : ......................agGCGCCTTCTGAC{TG}gt.............. : 923956 119 : tron 13 >>>> {p}GlnTrpGlyGlnGlu{As} >>>> Target Intron : 124 bp {|}...||||||||||||{:!} 129012 bp ++{p}AspTrpGlyGlnGlu{As}+- 923957 : ............ag{g}gattgggggcaggaa{ga}ga.................. : 971691 125 : 14 >>>> {n}LysValTyrAlaCysMetMetVal{P} >>>> Target In : 133 {!} |||!:! !!||||||!!::!!{|} 13261 ++{p}ThrValPheProCysMetIleIle{P}++ 971692 : ........ag{c}acagtATTCCCCTGTATGATTATA{T}gt.............. : 1100729 134 : tron 15 >>>> {he}PheLeuSerAsnMetIleGluAsnGlnCysMetSerTh : 146 bp {||} ||||||::::::||| ...... ||| || ++{he}HisLeuSerSerLeuIleProArgMetSerMetPheTh 1100730 : ............ag{tc}catcttagttcgctgattcctagaatgtcaatgttcac : 1114026 147 : rGlyAlaPheGlu{I} >>>> Target Intron 16 >>>> {le}ThrLeu : 153 | |||......{:} 81178 bp {!:}|||||| rPheAlaIleSer{L}++ ++{eu}ThrLeu 1114027 : ttttgccatctcc{t}gt..........................ag{tg}actctg : 1195225 154 : >>>> Target Intron 17 >>>> {A} >>>> Target Intron 18 : 154 135593 bp {.} 43931 bp ++ ++{G}++ 1195226 : gt..........................ag{G}gt..................... : 1330824 155 : >>>> {sn}AspValProValTrpSerLysLeuGluSerGlyHisLeuProSer : 169 {!.} ||| ::: :::|||::::::||| ||||||||| ++{lu}LeuLysProGlyPheProGlnLeuGlnAlaGlySerLeuProSer 1330825 : .....ag{ag}ctcaaacctgggtttcctcaactgcaggcaggttctttaccatct : 1374797 170 : MetGlnGln{Le} >>>> Target Intron 19 >>>> {u}ValGlnIleL : 177 ...{ } 444 bp {!}:::::::::. LysProSer{Se}+- ++{r}IleArgValP 1374798 : aagccatca{ag}ga..........................ag{c}atcagggtct : 1375265 178 : euAspAsnGluMetLysLeuAsnVal{Hi} >>>> Target Intron 20 >> : 186 .....|||||| ||| :::{..} 1259 bp heSerAsnGluSerValLeuCysIle{Ar}++ 1375266 : tttccaatgagtcagttctttgcatc{ag}gt........................ : 1375296 187 : >> {s}MetAspSerIleProHisHisArg : 194 {.}.!. !|||:!!|||:!!:!!!:! ++{g}PhePheSerValProTyrTyrLys 1375297 : ..ag{A}TTCTTCTCTGTCCCTTATTATAAA : 1376577 vulgar: SPP00000025_1.0 6 194 . NIVO01008816.1:subseq(494279,1406561) 32308 1376577 + 130 M 15 45 5 0 2 I 0 52122 3 0 2 M 12 36 S 0 2 5 0 2 I 0 25721 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 153861 3 0 2 S 1 1 M 8 24 5 0 2 I 0 9978 3 0 2 M 8 24 S 0 2 5 0 2 I 0 184579 3 0 2 S 1 1 M 11 33 5 0 2 I 0 40332 3 0 2 M 2 6 5 0 2 I 0 25560 3 0 2 M 8 24 S 0 1 5 0 2 I 0 114553 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 81047 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 19445 3 0 2 S 1 1 M 17 51 5 0 2 I 0 168251 3 0 2 M 3 9 5 0 2 I 0 15813 3 0 2 M 4 12 S 0 2 5 0 2 I 0 47713 3 0 2 S 1 1 M 5 15 S 0 2 5 0 2 I 0 129008 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 13257 3 0 2 S 1 2 M 17 51 S 0 1 5 0 2 I 0 81174 3 0 2 S 1 2 M 2 6 5 0 2 I 0 135589 3 0 2 S 0 1 5 0 2 I 0 43927 3 0 2 S 1 2 M 18 54 S 0 2 5 0 2 I 0 440 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 1255 3 0 2 S 1 1 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 32309 1376577 130 + . gene_id 11 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 32309 32353 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 32309 32353 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 32354 32355 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 32354 84479 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 84478 84479 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 84480 84517 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 84480 84517 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 84518 84519 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 84518 110242 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 110241 110242 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 110243 110248 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 110243 110248 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 110249 110250 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 110249 264113 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 264112 264113 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 264114 264138 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 264114 264138 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 264139 264140 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 264139 274120 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 274119 274120 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 274121 274146 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 274121 274146 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 274147 274148 . + . intron_id 5 ; splice_site "gc" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 274147 458729 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 458728 458729 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 458730 458763 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 458730 458763 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 458764 458765 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 458764 499099 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 499098 499099 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 499100 499105 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 499100 499105 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 499106 499107 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 499106 524669 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 524668 524669 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 524670 524694 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 524670 524694 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 524695 524696 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 524695 639251 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 639250 639251 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 639252 639285 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 639252 639285 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 639286 639287 . + . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 639286 720336 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 720335 720336 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 720337 720357 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 720337 720357 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 720358 720359 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 720358 739806 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 739805 739806 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 739807 739858 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 739807 739858 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 739859 739860 . + . intron_id 11 ; splice_site "GC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 739859 908113 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 908112 908113 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 908114 908122 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 908114 908122 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 908123 908124 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 908123 923939 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 923938 923939 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 923940 923953 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 923940 923953 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 923954 923955 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 923954 971670 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 971669 971670 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 971671 971688 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 971671 971688 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 971689 971690 . + . intron_id 14 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 971689 1100700 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1100699 1100700 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1100701 1100726 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1100701 1100726 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1100727 1100728 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1100727 1113987 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1113986 1113987 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1113988 1114041 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1113988 1114041 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1114042 1114043 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1114042 1195219 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1195218 1195219 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1195220 1195227 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1195220 1195227 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1195228 1195229 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1195228 1330820 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1330819 1330820 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1330821 1330821 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1330821 1330821 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1330822 1330823 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1330822 1374752 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1374751 1374752 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1374753 1374810 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1374753 1374810 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1374811 1374812 . + . intron_id 19 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1374811 1375254 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1375253 1375254 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1375255 1375293 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1375255 1375293 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1375294 1375295 . + . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1375294 1376552 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1376551 1376552 . + . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1376553 1376577 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1376553 1376577 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 32309 1376577 130 + . alignment_id 11 ; Query SPP00000025_1.0 ; Align 32309 7 45 ; Align 84480 22 36 ; Align 110244 35 3 ; Align 264115 37 24 ; Align 274121 45 24 ; Align 458731 54 33 ; Align 499100 65 6 ; Align 524670 67 24 ; Align 639254 76 30 ; Align 720338 87 18 ; Align 739808 94 51 ; Align 908114 111 9 ; Align 923940 114 12 ; Align 971672 119 15 ; Align 1100702 125 24 ; Align 1113990 134 51 ; Align 1195222 152 6 ; Align 1374755 155 54 ; Align 1375256 174 36 ; Align 1376554 187 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 124 Query range: 1 -> 191 Target range: 2438 -> 1344306 2 : ArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetVal{Ar} >>>> Tar : 16 |||! ! !:!!|||:!!:!!||| !|||..!:!!||||||{!:} ArgCysSerValLeuIleValValPheAlaGluSerMetVal{Ly}-+ 2439 : AGATGTAGTGTATTGATTGTAGTCTTTGCTGAGTCCATGGTT{AA}tt........ : 2485 17 : get Intron 1 >>>> {g}SerGluAlaSerAlaAsnLeuGlyGlyValProS : 28 108469 bp {!}|||..! !!|||::!!.. !|||.!! ! !. ++{s}SerSerProSerSerArgLysGlySerHisLysG 2486 : .................ag{G}AGCTCACCATCCAGTAGGAAAGGCAGCCACAAAG : 110986 29 : er{Ly} >>>> Target Intron 2 >>>> {s}{Ar} >>>> Target : 30 !!{||} 48728 bp {|}{||} 1413 ly{Ly}++ ++{s}{Ar}++ 110987 : GC{AA}gt.........................ag{G}{AG}gt............ : 159724 31 : Intron 3 >>>> {g}LeuLysMetGlnTyrAla{Th} >>>> Target In : 37 71 bp {|}|||...|||:::::::::{! } 28001 +-{g}LeuSerMetArgPheSer{Ar}++ 159725 : .............at{a}ctgtctatgaggttctcc{ag}gt.............. : 301116 38 : tron 4 >>>> {r}{G} >>>> Target Intron 5 >>>> {ly}{Pr} : 39 bp {!}{|} 3735 bp {||}{ } ++{g}{G}++ ++{ly}{Ar} 301117 : ...........ag{A}{G}gt.........................ag{GA}{AG} : 332854 40 : >>>> Target Intron 6 >>>> {o}LeuLeuLysPheGlnIle{C} > : 46 60119 bp {!}||||||:!! :!!|||{|} ++ ++{g}LeuLeuGlnArgGluIle{C}++ 332855 : gt.........................ag{A}CTTCTTCAAAGAGAAATA{T}gt. : 392997 47 : >>> Target Intron 7 >>>> {ys}ValSerUnkGlyTyrArgArg >>> : 54 107491 bp {||}||| ... :::...... ++{ys}ValLeuSerArgPheHisHis++ 392998 : ........................ag{gt}gtgctaagtcgcttccatcatgt... : 500511 55 : > Target Intron 8 >>>> ValPheGluGluTyrMetArgVal >>>> T : 62 174305 bp ! ||||||! ! ||| ! ++LysArgGluGluSerSerArgGln++ 500512 : ......................agaAAAGGGAAGAATCGAGTAGACAGgt...... : 674840 63 : arget Intron 9 >>>> IleSerGlnArgTyrProAspIleArgIle >>> : 72 37956 bp :!!|||...! !||| !|||||| !!!!: ++ValSerSerThrTyrAspAspIle***Met++ 674841 : ...................agGTTTCCTCTACATATGATGACATTTGAATGgt... : 712826 73 : > Target Intron 10 >>>> GluGlyGlu{A} >>>> Target Intro : 75 754 bp ! ||||||{ } 43264 bp ++GlyGlyGlu{A}++ 712827 : .......................agGGTGGGGAA{G}gt................. : 713590 76 : n 11 >>>> {sn}TyrLeu >>>> Target Intron 12 >>>> ProGl : 79 { !}|||||| 76928 bp ||||| ++{la}TyrLeu++ ++ProGl 713591 : .........ag{CT}TACCTGgt..........................agCCGCA : 833791 80 : n >>>> Target Intron 13 >>>> ProIle >>>> Target Intro : 82 | 50644 bp |||:!: 40076 bp n++ ++ProLeu++ 833792 : Ggt..........................agCCTCTGgt................. : 884446 83 : n 14 >>>> TyrArgHisIleAla >>>> Target Intron 15 >>>> : 87 !||||||||| ! 145148 bp +-ValArgHisIleLys++ ++ 884447 : .........aaGTTAGGCACATAAAGgt..........................ag : 1069681 88 : SerPheLeuSerValPheLysLeuValLeuIleGly{L} >>>> Target Int : 99 ||| |||||| :::|||::: |||{|} 64724 SerGlyAlaMetValPheProValValMetTyrGly{L}++ 1069682 : TCtggggctatggtttttcctgtggtcatgtatgga{t}gt............... : 1069722 100 : ron 16 >>>> {eu}Ile{Il} >>>> Target Intron 17 >>>> {e : 101 bp {||}:::{||} 41212 bp {| ++{eu}Val{Il}++ ++{e 1069723 : ...........ag{tg}gtc{at}gt..........................ag{A : 1175663 102 : }ValGlyLys{As} >>>> Target Intron 18 >>>> {p}ProPheAla : 108 }..!|||:!!{ } 4959 bp { }! ! ! ! }ThrGlyGlu{Ar}++ ++{g}HisGlyLeu 1175664 : }ACTGGTGAA{AG}gt..........................ag{A}CATGGTTTA : 1180641 109 : PhePheGlyMetGlnAlaProSerIleTrpGlnTrpGlyGlnGluAsnLysValTy : 127 |||.!. !!!:|||! ! !!!!:!!!::! ! ! ||| !! || PheMetLysIleGlnGluAsn***LeuPheProAspProPheGluCysThrPheTy 1180642 : TTTATGAAGATACAGGAAAACTGATTATTTCCAGACCCTTTTGAGTGTAcctttta : 1180698 128 : rAlaCysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMet{Se} : 145 | |||:::::::::||| !|||!.! !.!.|||... !! !||| {!.} rLeuCysLeuLeuIlePheAsnLeuLysValPheIleSerLeuLeuCysGly{Ly} 1180699 : tctttgtttattgattttcaaTCTCAAAGTCTTTATCAGTCTTCTGTGCGGC{AA} : 1180752 146 : >>>> Target Intron 19 >>>> {r}ThrGlyAlaPheGluIleThrLe : 153 22980 bp {!} !.!! !!!!. !:!!!:!|| ++ ++{s}GluSerProLeuProValSerLe 1180753 : gt..........................ag{G}GAAAGTCCTTTACCAGTCAGTCT : 1203756 154 : uAsnAspValProValTrpSer{Ly} >>>> Target Intron 20 >>>> : 161 |||| ! ! ! !!||||||:!!{!:} 7307 bp uAsnLysAspSerValTrpAla{Ar}-+ ++ 1203757 : AAACAAAGATTCTGTGTGGGCT{AG}ct..........................ag : 1211087 162 : {s}LeuGluSer >>>> Target Intron 21 >>>> GlyHisLeuProSe : 169 {!} !!!: ! 4526 bp ||| |||.. {g}AspAspVal++ ++GlySerAsnProGl 1211088 : {A}GATGATGTGgt..........................aggggtcgaacccagg : 1215637 170 : rMetGlnGlnLeuValGlnIleLeuAspAsn{G} >>>> Target Intron 2 : 180 .::::::... |||||||||...:::{ } 51641 bp yLeuArgHisCysArgGlnIleLeuSerSer{L}++ 1215638 : tctcaggcattgcaggcagattctttcatca{t}gt.................... : 1215673 181 : 2 >>>> {lu}MetLysLeu{As} >>>> Target Intron 23 >>>> { : 184 { !} !:! !{!.} 76960 bp { ++{eu}GluArgThr{Ar}++ ++{ 1215674 : ......ag{tg}gaAAGGACA{AG}gt..........................ag{ : 1344285 185 : n}ValHisMetAspSerIlePro : 191 .}|||||| |||||| ||| g}ValHisSerAspSerCysPro 1344286 : a}gttcactcagactcatgtcca : 1344306 vulgar: SPP00000025_1.0 1 191 . NIVO01008816.1:subseq(494279,1406561) 2438 1344306 + 124 M 14 42 S 0 2 5 0 2 I 0 108465 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 48724 3 0 2 S 1 3 5 0 2 I 0 141367 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 27997 3 0 2 S 1 2 5 0 2 I 0 3731 3 0 2 S 1 4 5 0 2 I 0 60115 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 107487 3 0 2 S 1 2 M 7 21 5 0 2 I 0 174301 3 0 2 M 8 24 5 0 2 I 0 37952 3 0 2 M 10 30 5 0 2 I 0 750 3 0 2 M 3 9 S 0 1 5 0 2 I 0 43260 3 0 2 S 1 2 M 2 6 5 0 2 I 0 76924 3 0 2 M 2 6 5 0 2 I 0 50640 3 0 2 M 2 6 5 0 2 I 0 40072 3 0 2 M 5 15 5 0 2 I 0 145144 3 0 2 M 12 36 S 0 1 5 0 2 I 0 64720 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 41208 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 4955 3 0 2 S 1 1 M 39 117 S 0 2 5 0 2 I 0 22976 3 0 2 S 1 1 M 15 45 S 0 2 5 0 2 I 0 7303 3 0 2 S 1 1 M 3 9 5 0 2 I 0 4522 3 0 2 M 15 45 S 0 1 5 0 2 I 0 51637 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 76956 3 0 2 S 1 1 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 2439 1344306 124 + . gene_id 12 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 2439 2482 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 2439 2482 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 2483 2484 . + . intron_id 1 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 2483 110951 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 110950 110951 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 110952 110990 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 110952 110990 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 110991 110992 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 110991 159718 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 301092 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 301091 301092 . + . intron_id 2 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 301093 301113 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 301093 301113 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 301114 301115 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 301114 329114 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 329113 329114 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 329115 329116 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 329115 329116 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 329117 329118 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 329117 332851 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 332850 332851 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 332852 332855 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 332852 332855 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 332856 332857 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 332856 392974 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 392973 392974 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 392975 392994 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 392975 392994 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 392995 392996 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 392995 500485 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 500484 500485 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 500486 500508 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 500486 500508 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 500509 500510 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 500509 674813 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 674812 674813 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 674814 674837 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 674814 674837 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 674838 674839 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 674838 712793 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 712792 712793 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 712794 712823 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 712794 712823 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 712824 712825 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 712824 713577 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 713576 713577 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 713578 713587 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 713578 713587 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 713588 713589 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 713588 756851 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 756850 756851 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 756852 756859 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 756852 756859 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 756860 756861 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 756860 833787 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833786 833787 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833788 833793 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833788 833793 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833794 833795 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833794 884437 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 884436 884437 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 884438 884443 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 884438 884443 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 884444 884445 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 884444 924519 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 924518 924519 . + . intron_id 13 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 924520 924534 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 924520 924534 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 924535 924536 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 924535 1069682 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1069681 1069682 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1069683 1069719 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1069683 1069719 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1069720 1069721 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1069720 1134443 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1134442 1134443 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1134444 1134450 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1134444 1134450 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1134451 1134452 . + . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1134451 1175662 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1175661 1175662 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1175663 1175674 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1175663 1175674 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1175675 1175676 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1175675 1180633 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1180632 1180633 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1180634 1180753 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1180634 1180753 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1180754 1180755 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1180754 1203733 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1203732 1203733 . + . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1203734 1203781 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1203734 1203781 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1203782 1203783 . + . intron_id 20 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1203782 1211088 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1211087 1211088 . + . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1211089 1211098 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1211089 1211098 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1211099 1211100 . + . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1211099 1215624 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1215623 1215624 . + . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1215625 1215670 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1215625 1215670 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1215671 1215672 . + . intron_id 22 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1215671 1267311 . + . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1267310 1267311 . + . intron_id 21 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1267312 1267324 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1267312 1267324 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1267325 1267326 . + . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1267325 1344284 . + . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1344283 1344284 . + . intron_id 22 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1344285 1344306 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1344285 1344306 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 2439 1344306 124 + . alignment_id 12 ; Query SPP00000025_1.0 ; Align 2439 2 42 ; Align 110953 17 36 ; Align 301094 31 18 ; Align 392976 40 18 ; Align 500488 47 21 ; Align 674814 54 24 ; Align 712794 62 30 ; Align 713578 72 9 ; Align 756854 76 6 ; Align 833788 78 6 ; Align 884438 80 6 ; Align 924520 82 15 ; Align 1069683 87 36 ; Align 1134446 100 3 ; Align 1175664 102 9 ; Align 1180635 106 117 ; Align 1203735 146 45 ; Align 1211090 162 9 ; Align 1215625 165 45 ; Align 1267314 181 9 ; Align 1344286 185 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 122 Query range: 4 -> 193 Target range: 152436 -> 1165497 5 : LeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSerAlaAsnLe : 23 |||||| |||::: ::: ::: ::: ||| :::|| LeuLeuSerLeuIleArgSerHisLeuTyrIlePheAlaPheIleSerIleSerLe 152437 : cttttaagtttaattaggtcccatttgtatatttttgcttttatttccattagtct : 152491 24 : uGly{G} >>>> Target Intron 1 >>>> {ly}{V} >>>> Target : 26 ||||{|} 7221 bp {||}{|} 37 uGly{G}++ ++{ly}{V}++ 152492 : ggga{g}gt.........................ag{GA}{G}gt........... : 159724 27 : Intron 2 >>>> {al}ProSerLysArgLeuLysMetGlnTyrAlaThrGly : 38 618 bp {||}|||..! !!:!||| !.!.::! ! ! !|||||| ++{al}ProAspGlyLysLeuProPheArgGlnAspThrGly 159725 : ..............ag{TG}CCAGATGGGAAGCTGCCATTCAGACAGGACACGGGG : 197375 39 : Pro{Le} >>>> Target Intron 3 >>>> {u}LeuLysPheGlnIleCy : 46 !{||} 727 bp {|}||||||.!.!!..!!|| Lys{Le}++ ++{u}LeuLysLeuHisPheCy 197376 : AAA{CT}gt.........................ag{A}CTCAAACTGCACTTTTG : 198126 47 : sValSerUnkGlyTyrArg{Ar} >>>> Target Intron 4 >>>> {g}V : 54 | !!!:! ! ! !{||} 88284 bp {|}| sPheAsnTyrPheGlySer{Ar}++ ++{g}V 198127 : TTTCAACTACTTTGGTTCC{AG}gt.........................ag{g}g : 286434 55 : alPheGluGluTyrMetArgValIleSerGln >>>> Target Intron 5 > : 65 |||||...... ... ::: ||| 42648 bp alPheSerAsnGluSerAsnPheLeuHisGln++ 286435 : tcttttccaatgagtcaaattttttgcatcaggt...................... : 286469 66 : >>> {Ar} >>>> Target Intron 6 >>>> {g}TyrProAspIleArg : 70 {||} 8642 bp {|} !||| !:!!!:! ++{Ar}++ ++{g}AlaProIleValGln 286470 : ...ag{AG}gt.........................ag{g}GCTCCCATTGTTCAA : 337772 71 : IleGluGlyGlu >>>> Target Intron 7 >>>> AsnTyrLeuProGln : 79 ! !:!! !||| 63414 bp !|||||||||! ThrGlnGlnGlu++ ++ProTyrLeuProPro 337773 : ACTCAACAGGAAgt.........................agCCTTACCTTCCTCCT : 401213 80 : ProIleTyrArgHisIleAlaSer >>>> Target Intron 8 >>>> Phe : 88 |||.!! ! !|||! !:!!||| 66215 bp ||| ProPheValSerHisThrSerSer++ ++Phe 401214 : CCCTTTGTCTCTCACACATCCTCTgt.........................agttt : 467455 89 : LeuSerValPheLysLeu{Va} >>>> Target Intron 9 >>>> {l}Le : 96 ::!||| !|||! ! !{:!} 28197 bp {!} MetSerAsnPheThrAla{Il}++ ++{e}Ly 467456 : atGTCTAATTTCACAGCA{AT}gt.........................ag{A}AA : 495676 97 : uIleGlyLeuIleIleValGlyLysAspPro{P} >>>> Target Intron 1 : 107 !||||||! !:!: !:!!..! ||| !!{!} 4290 bp sIleGlySerLeu***IleAsnPheAspSer{C}++ 495677 : AATTGGTTCACTGTGAATTAATTTTGACTCA{T}gt.................... : 495712 108 : 0 >>>> {he}AlaPhePheGlyMetGlnAlaPro{Se} >>>> Target In : 116 { !}...|||||| ::: ||||||{||} 17810 ++{ys}GlyPhePheThrIle***AlaPro{Se}+- 495713 : ......ag{gt}ggattctttaccatctgagcccct{ag}gg.............. : 500030 117 : tron 11 >>>> {r}IleTrpGlnTrp >>>> Target Intron 12 >>> : 121 bp {|}! !||| !||| 41403 bp ++{r}SerTrpGlyTrp++ 500031 : ............ag{C}AGCTGGGGGTGGgt......................... : 517853 122 : > GlyGlnGluAsnLysValTyrAlaCys{Me} >>>> Target Intron 1 : 130 |||......::: ::: |||{! } 23302 bp ++GlySerAsnSerGlyLeuLeuHisCys{Ar}++ 517854 : .agggatcgaactcaggtctcttacattgc{ag}gt.................... : 559285 131 : 3 >>>> {t}MetValPhePhe >>>> Target Intron 14 >>>> Leu : 135 {!}.!.!.!|||||| 162034 bp ||| ++{g}PheAlaPhePhe++ ++Leu 559286 : ......ag{G}TTTGCCTTTTTTgt..........................agCTG : 744632 136 : SerAsnMetIleGlu >>>> Target Intron 15 >>>> AsnGln >>> : 143 ..!!....! ||| 89138 bp ||| AspThrGlnTrpGlu++ ++ProGln++ 744633 : GACACACAGTGGGAGgt..........................agCCGCAGgt... : 833796 144 : > Target Intron 16 >>>> CysMetSerThrGlyAlaPheGluIleThrL : 153 17419 bp !!!:!!!:!!|||.!! !!!!:!!: ! ++IleIleThrSerGlyThrValAspMetHisT 833797 : .......................agATCATTACTTCTGGCACCGTTGACATGCACA : 851243 154 : euAsn{As} >>>> Target Intron 17 >>>> {p}ValPro >>>> T : 158 !|||{ !} 24726 bp { }|||||| hrAsn{Ly}++ ++{s}ValPro++ 851244 : CTAAC{AA}gt..........................ag{A}GTTCCtgt...... : 875986 159 : arget Intron 18 >>>> ValTrpSer{L} >>>> Target Intron 1 : 161 16438 bp ||||||..!{:} 66324 bp ++ValTrpAsp{A}++ 875987 : ....................agGTATGGGAT{C}gt.................... : 892434 162 : 9 >>>> {ys}LeuGluSerGlyHis{L} >>>> Target Intron 20 >> : 167 {:!}:!!... !||||||{:} 191453 bp ++{rg}ValSerLeuGlyHis{V}++ 892435 : ......ag{GG}GTTAGTCTGGGACAC{G}gt........................ : 958776 168 : >> {eu}ProSerMetGlnGlnLeuValGlnIleLeu{A} >>>> Target I : 178 {!!}|||!.!:!:..!...|||:!!!!.|||! !{!} 1519 ++{al}ProLysValSerSerLeuIleHisIleCys{G}++ 958777 : ..ag{TT}CCTAAAGTATCATCTCTAATACATATATGT{G}gt............. : 1150262 179 : ntron 21 >>>> {sp}AsnGluMetLysLeuAsnValHisMetAspSerIleP : 191 1 bp {!:}......:::... :::||| ||||||:::| ++{lu}GluSerValSerCysSerValMetSerAspSerLeuP 1150263 : .............ag{ag}gaaagtgttagttgttcagtcatgtctgactctttgc : 1165489 192 : roHisHis : 193 || ||| roProHis 1165490 : cacctcat : 1165497 vulgar: SPP00000025_1.0 4 193 . NIVO01008816.1:subseq(494279,1406561) 152436 1165497 + 122 M 20 60 S 0 1 5 0 2 I 0 7217 3 0 2 S 1 3 5 0 2 I 0 37614 3 0 2 S 1 2 M 13 39 S 0 2 5 0 2 I 0 723 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 88280 3 0 2 S 1 1 M 11 33 5 0 2 I 0 42644 3 0 2 S 0 2 5 0 2 I 0 8638 3 0 2 S 1 1 M 9 27 5 0 2 I 0 63410 3 0 2 M 13 39 5 0 2 I 0 66211 3 0 2 M 7 21 S 0 2 5 0 2 I 0 28193 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 4286 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 17806 3 0 2 S 1 1 M 4 12 5 0 2 I 0 41399 3 0 2 M 9 27 S 0 2 5 0 2 I 0 23298 3 0 2 S 1 1 M 4 12 5 0 2 I 0 162030 3 0 2 M 6 18 5 0 2 I 0 89134 3 0 2 M 2 6 5 0 2 I 0 17415 3 0 2 M 12 36 S 0 2 5 0 2 I 0 24722 3 0 2 S 1 1 M 2 6 5 0 2 I 0 16434 3 0 2 M 3 9 S 0 1 5 0 2 I 0 66320 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 191449 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 15187 3 0 2 S 1 2 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 152437 1165497 122 + . gene_id 13 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 152437 152497 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 152437 152497 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 152498 152499 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 152498 159718 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 197339 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 197338 197339 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 197340 197382 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 197340 197382 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 197383 197384 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 197383 198109 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 198108 198109 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 198110 198148 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 198110 198148 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 198149 198150 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 198149 286432 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 286431 286432 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 286433 286466 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 286433 286466 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 286467 286468 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 286467 329114 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 329113 329114 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 329115 329116 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 329115 329116 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 329117 329118 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 329117 337758 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 337757 337758 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 337759 337786 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 337759 337786 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 337787 337788 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 337787 401200 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 401199 401200 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 401201 401239 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 401201 401239 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 401240 401241 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 401240 467454 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 467453 467454 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 467455 467477 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 467455 467477 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 467478 467479 . + . intron_id 9 ; splice_site "Gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 467478 495674 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 495673 495674 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 495675 495709 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 495675 495709 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 495710 495711 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 495710 499999 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 499998 499999 . + . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 500000 500027 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 500000 500027 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 500028 500029 . + . intron_id 11 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 500028 517837 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 517836 517837 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 517838 517850 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 517838 517850 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 517851 517852 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 517851 559253 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559252 559253 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559254 559282 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559254 559282 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559283 559284 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559283 582584 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 582583 582584 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 582585 582597 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 582585 582597 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 582598 582599 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 582598 744631 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 744630 744631 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 744632 744649 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 744632 744649 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 744650 744651 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 744650 833787 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833786 833787 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833788 833793 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833788 833793 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833794 833795 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833794 851212 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 851211 851212 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 851213 851250 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 851213 851250 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 851251 851252 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 851251 875976 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 875975 875976 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 875977 875983 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 875977 875983 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 875984 875985 . + . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 875984 892421 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 892420 892421 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 892422 892431 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 892422 892431 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 892432 892433 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 892432 958755 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 958754 958755 . + . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 958756 958773 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 958756 958773 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 958774 958775 . + . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 958774 1150226 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1150225 1150226 . + . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1150227 1150259 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1150227 1150259 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1150260 1150261 . + . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1150260 1165450 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1165449 1165450 . + . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1165451 1165497 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1165451 1165497 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 152437 1165497 122 + . alignment_id 13 ; Query SPP00000025_1.0 ; Align 152437 5 60 ; Align 197342 27 39 ; Align 198111 41 36 ; Align 286434 54 33 ; Align 337760 66 27 ; Align 401201 75 39 ; Align 467455 88 21 ; Align 495676 96 33 ; Align 500002 108 24 ; Align 517839 117 12 ; Align 559254 121 27 ; Align 582586 131 12 ; Align 744632 135 18 ; Align 833788 141 6 ; Align 851213 143 36 ; Align 875978 156 6 ; Align 892422 158 9 ; Align 958758 162 15 ; Align 1150229 168 30 ; Align 1165453 179 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 117 Query range: 13 -> 193 Target range: 2478 -> 900356 14 : MetValArgSerGluAlaSer{A} >>>> Target Intron 1 >>>> {la}A : 22 :!::!!!:!||||||||| !{!} 25960 bp {.!}| LeuIleLysSerGluAlaVal{G}-+ ++{ly}A 2479 : TTAATTAAGTCAGAAGCTGTA{G}ct.........................ag{gg}a : 28463 23 : snLeuGlyGlyValProSerLys >>>> Target Intron 2 >>>> ArgLeu : 31 ||:::|||... ||| !!:! 27779 bp !:!:!! snMetGlySerPheProCysArg++ ++LysIle 28464 : acatgggttcattcccttgTAGGgt.........................agAAAATT : 56269 32 : LysMetGlnTyrAlaThrGlyProLeuLeu{Ly} >>>> Target Intron 3 > : 42 !:!!!: !!:! !! !.!! !! !|||{!:} 13161 bp ArgIleLeuPheProTyrSerLeuProLeu{Ar}++ 56270 : AGAATATTGTTTCCTTATAGTTTGCCATTA{AG}gt...................... : 56306 43 : >>> {s}PheGlnIleCysValSerUnkGlyTyrArgArgValPheGluGluTyrMe : 59 {!} :::|||||||||||| |||::::::||| :::.. ++{g}AspArgIleCysValSerCysIleGlyArgGlnIlePhePhePhePhePh 56307 : ...ag{g}gatcgaatctgtgtctcctgcattggcaggcagatttttttttttttttt : 69514 60 : tArgValIleSer{G} >>>> Target Intron 4 >>>> {ln}ArgTyrPro : 67 . ::: {:} 33691 bp {:!}||| !||| ePheLeuProLeu{A}++ ++{rg}ArgGlyPro 69515 : ttttttaccacta{a}gt.........................ag{GG}AGAGGCCCC : 103229 68 : AspIle{Ar} >>>> Target Intron 5 >>>> {g}IleGluGlyGluAsnT : 76 !:!:{||} 13330 bp {|}|||... !...!..| CysLeu{Ar}++ ++{g}IleSerIleSerArgT 103230 : TGCCTG{AG}gt.........................ag{A}ATTTCTATCTCTAGGT : 116586 77 : yrLeuProGlnPro{I} >>>> Target Intron 6 >>>> {le}TyrArgHi : 84 ||||| !||| !{!} 183 bp { !}||| ! yrLeuIleGlnGly{T}++ -+{hr}TyrTyrIl 116587 : ATTTAATTCAAGGA{A}gt.........................tg{CA}TATTACAT : 116793 85 : sIleAlaSerPheLeuSerValPheLysLeuValLeuIle{G} >>>> Target I : 98 :!! !! !|||:!!|||:!!!:! |||:!!|||:!!{|} 5227 eLeuIleMetPheMetSerIleTyrCysLeuIleLeuLeu{G}++ 116794 : ACTCATAATGTTTATGAGTATTTATTGTCTAATATTATTA{G}gt............. : 116838 99 : ntron 7 >>>> {ly}Leu{Il} >>>> Target Intron 8 >>>> {e}I : 101 5 bp {||}|||{:!} 137194 bp {:} ++{ly}Leu{Le}++ ++{u}G 116839 : ............ag{ga}tta{tt}gt.........................ag{g}g : 306313 102 : leValGlyLysAspPro{Ph} >>>> Target Intron 9 >>>> {e}AlaPh : 109 ||| ||||||{!:} 40628 bp {:} || luCysGlyPheAspPro{Tr}++ ++{p}LeuPh 306314 : agtgtgggtttgatccc{tg}gt.........................ag{g}ctctt : 346965 110 : ePheGlyMetGlnAlaPro{S} >>>> Target Intron 10 >>>> {er}Il : 117 | ... ...:::|||{:} 85706 bp {!!}|| eCysSerTrpAsnSerPro{A}++ ++{la}Il 346966 : ctgttcatggaattctcca{g}gt..........................ag{CA}AT : 432695 118 : e{Tr} >>>> Target Intron 11 >>>> {p}GlnTrpGlyGlnGluAsnLy : 125 |{||} 5484 bp {|}...||||||||||||...|| e{Tr}++ ++{p}AspTrpGlyGlnGluGluLy 432696 : T{TG}gt..........................ag{g}gattgggggcaggaggagaa : 438203 126 : s >>>> Target Intron 12 >>>> ValTyrAla{Cy} >>>> Target : 129 | 86753 bp :!!:!! !{ !} 189 s+- ++IleHisTyr{Ar}+- 438204 : ggg..........................agATTCATTAT{Ag}ga............ : 524972 130 : Intron 13 >>>> {s}MetMetValPhePheLeuSerAsnMetIleGluAsnGln : 142 95 bp { }... ..!|||!:!||||||... ..!.!. ! ++{g}GlnProThrPheTyrLeuSerGlyAlaGluSerGluLeu 524973 : ..............ag{G}CAACCAACATTTTATCTCTCTGGAGCAGAGTCAGAGTTA : 544002 143 : CysMetSerThrGlyAlaPheGluIleThrLeuAsnAsp >>>> Target Intro : 156 ||| !:!!..!!.! !|||||| !!.!:!!.!..!. 41840 bp CysGlyAlaValAlaLysPheGluTyrAsnMetGluGln++ 544003 : TGTGGGGCTGTAGCCAAATTTGAATACAATATGGAACAGgt................. : 544046 157 : n 14 >>>> ValProValTrpSerLysLeuGlu{S} >>>> Target Intron : 164 ||||||:!! |||||| !|||{:} 76909 bp ++ValProIleLeuSerLysLysGlu{A}-+ 544047 : .........agGTTCCCATCCTTAGTAAAAAAGAA{G}at.................. : 585911 165 : 15 >>>> {er}GlyHisLeuProSerMetGlnGlnLeu >>>> Target Int : 174 {!!}||| ! !||||||:!:|||::! ! 18382 ++{la}GlyPheAlaProSerLeuGlnArgAsn-+ 585912 : ........ag{CG}GGCTTTGCTCCAAGTCTTCAGAGAAACat............... : 662849 175 : ron 16 >>>> ValGlnIleLeuAspAsnGluMet{Ly} >>>> Target Int : 182 bp :!!|||:!! !!!:|||||||||{! } 176241 ++IleGlnValLysGluAsnGluMet{Il}++ 662850 : ...........agATCCAGGTAAAGGAGAATGAAATG{AT}gt............... : 681257 183 : ron 17 >>>> {s}LeuAsnValHisMetAsp >>>> Target Intron 18 : 189 bp {!}:!!!:!:!! :!:.!. 42827 bp ++{e}IleSerLeuSerLeuGln++ 681258 : ...........ag{A}ATCAGTCTGTCACTCCAGgt...................... : 857517 190 : >>>> SerIleProHisHis : 193 !:!!||||||||| ++ValValProHisHis 857518 : ....aggtGGTTCCTCACCat : 900356 vulgar: SPP00000025_1.0 13 193 . NIVO01008816.1:subseq(494279,1406561) 2478 900356 + 117 M 7 21 S 0 1 5 0 2 I 0 25956 3 0 2 S 1 2 M 8 24 5 0 2 I 0 27775 3 0 2 M 12 36 S 0 2 5 0 2 I 0 13157 3 0 2 S 1 1 M 21 63 S 0 1 5 0 2 I 0 33687 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 13326 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 179 3 0 2 S 1 2 M 16 48 S 0 1 5 0 2 I 0 52271 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 137190 3 0 2 S 1 1 M 6 18 S 0 2 5 0 2 I 0 40624 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 85702 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 5480 3 0 2 S 1 1 M 7 21 5 0 2 I 0 86749 3 0 2 M 3 9 S 0 2 5 0 2 I 0 18991 3 0 2 S 1 1 M 26 78 5 0 2 I 0 41836 3 0 2 M 8 24 S 0 1 5 0 2 I 0 76905 3 0 2 S 1 2 M 9 27 5 0 2 I 0 18378 3 0 2 M 8 24 S 0 2 5 0 2 I 0 176237 3 0 2 S 1 1 M 6 18 5 0 2 I 0 42823 3 0 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 2479 900356 117 + . gene_id 14 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 2479 2500 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 2479 2500 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 2501 2502 . + . intron_id 1 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 2501 28460 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 28459 28460 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 28461 28486 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 28461 28486 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 28487 28488 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 28487 56265 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 56264 56265 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 56266 56303 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 56266 56303 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 56304 56305 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 56304 69464 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 69463 69464 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 69465 69529 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 69465 69529 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 69530 69531 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 69530 103220 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 103219 103220 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 103221 103239 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 103221 103239 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 103240 103241 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 103240 116569 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 116568 116569 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 116570 116601 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 116570 116601 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 116602 116603 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 116602 116784 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 116783 116784 . + . intron_id 5 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 116785 116835 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 116785 116835 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 116836 116837 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 116836 169110 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 169109 169110 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 169111 169117 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 169111 169117 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 169118 169119 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 169118 306311 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 306310 306311 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 306312 306332 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 306312 306332 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 306333 306334 . + . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 306333 346960 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 346959 346960 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 346961 346986 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 346961 346986 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 346987 346988 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 346987 432692 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 432691 432692 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 432693 432699 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 432693 432699 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 432700 432701 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 432700 438183 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 438182 438183 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 438184 438205 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 438184 438205 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 438206 438207 . + . intron_id 12 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 438206 524958 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 524957 524958 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 524959 524969 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 524959 524969 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 524970 524971 . + . intron_id 13 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 524970 543964 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 543963 543964 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 543965 544043 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 543965 544043 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 544044 544045 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 544044 585883 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 585882 585883 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 585884 585908 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 585884 585908 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 585909 585910 . + . intron_id 15 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 585909 662817 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 662816 662817 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 662818 662846 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 662818 662846 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 662847 662848 . + . intron_id 16 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 662847 681228 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 681227 681228 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 681229 681254 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 681229 681254 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 681255 681256 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 681255 857495 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 900341 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900340 900341 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900342 900356 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900342 900356 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 2479 900356 117 + . alignment_id 14 ; Query SPP00000025_1.0 ; Align 2479 14 21 ; Align 28463 22 24 ; Align 56266 30 36 ; Align 69466 43 63 ; Align 103223 65 15 ; Align 116571 71 30 ; Align 116787 82 48 ; Align 169113 99 3 ; Align 306313 101 18 ; Align 346962 108 24 ; Align 432695 117 3 ; Align 438185 119 21 ; Align 524959 126 9 ; Align 543966 130 78 ; Align 585884 156 24 ; Align 662820 165 27 ; Align 681229 174 24 ; Align 857497 183 18 ; Align 900342 189 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 117 Query range: 2 -> 187 Target range: 582736 -> 1366795 3 : LeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAla{S} : 20 :!!||||||! !||||||! !|||||||||!.!...||||||!!! :!!{.} ValLeuLeuSerLeuLeuGlyAlaAlaSerGlyGlnValArgCysProSer{G}++ 582737 : GTTCTTCTCTCTTTATTAGGAGCTGCCTCTGGCCAAGTCAGGTGTCCCTCA{G}gt : 582789 21 : >>>> Target Intron 1 >>>> {er}AlaAsnLeu{G} >>>> Target : 24 163373 bp {!!} :::|||{|} 3 +-{ly}AspSerLeu{G}++ 582790 : .........................at{gg}gattctcta{g}gt........... : 746176 25 : Intron 2 >>>> {ly}GlyValProSerLysArgLeuLysMetGlnTyrAla : 36 8 bp {||} :::|||... ...:::|||:::::: ++{ly}AspLeuProAspProGluIleLysValGluSerPhe 746177 : ..............ag{gg}gatcttcctgacccagagattaaagttgagtctttt : 746247 37 : ThrGlyProLeuLeuLys{P} >>>> Target Intron 3 >>>> {he}Gl : 44 ...||| ||| { } 111227 bp { }.. MetSerProAlaLeuAla{G}++ ++{lu}Se 746248 : atgtctcctgcattggca{g}gt.........................ag{AA}TC : 857498 45 : nIleCysValSer{Un} >>>> Target Intron 4 >>>> {k}GlyTyrA : 52 !:!!||| !|||{ } 23046 bp { }..!|||: rValCysHisSer{Ar}++ ++{g}AsnTyrG 857499 : AGTCTGTCACTCC{AG}gt.........................ag{A}AACTatc : 880568 53 : rgArgValPheGlu{Gl} >>>> Target Intron 5 >>>> {u}TyrMet : 59 ::...:::|||:::{:!} 138522 bp {!}!:!!!: lnAsnIlePheLys{Ly}++ ++{s}PheIle 880569 : agaacatttttaaa{aa}gt.........................ag{A}TTCATT : 1019111 60 : ArgValIleSerGlnArg{Ty} >>>> Target Intron 6 >>>> {r}Pr : 67 |||:!!|||!!!! !|||{ } 6834 bp { } ArgIleIleThrProArg{Ar}++ ++{g}Gl 1019112 : AGAATTATTACACCAAGA{AG}gt.........................ag{G}ca : 1025969 68 : oAspIleArgIleGluGlyGluAsnTyrLeuProGlnProIle{T} >>>> Tar : 82 ... ::::::...:::::: ||| :::||| { } nSerProAlaLeuGlnAlaAspSerLeuLeuThrGluProPro{G}++ 1025970 : atctccagcactgcaggcagattccttactgactgagccacca{g}gt........ : 1026017 83 : get Intron 7 >>>> {yr}ArgHisIleAlaSer{P} >>>> Target I : 88 85158 bp { }|||||| !||| !{ } 7439 ++{ly}ArgHisTyrAlaHis{A}++ 1026018 : .................ag{GA}AGACATTATGCACAC{A}gt............. : 1111193 89 : ntron 8 >>>> {he}LeuSerValPheLysLeuValLeuIleGlyLeuIleIl : 101 6 bp { !}|||! !|||||| ! ! !:!!! !:!!|||:!!:!:|| ++{sn}LeuLeuValPheAspTyrIleCysValGlyValLeuIl 1111194 : ............ag{aT}TTGTTAGTATTTGATTATATATGTGTAGGTGTTCTGAT : 1185625 102 : eVal{G} >>>> Target Intron 9 >>>> {ly}LysAspProPheAlaP : 109 |:!!{|} 5510 bp {||} ...|||::: | eLeu{G}++ ++{ly}AspGlnProTrpAspP 1185626 : ATTG{G}gt.........................ag{ga}gatcaaccctgggatt : 1191159 110 : hePheGly{Me} >>>> Target Intron 10 >>>> {t}GlnAlaPro : 116 ||||||||{! } 19919 bp { }.!.! ! ! hePheGly{Ar}+- ++{g}AspAspVal++ 1191160 : tctttgga{ag}ga..........................ag{A}GATGATGTGgt : 1211099 117 : >>>> Target Intron 11 >>>> SerIleTrpGlnTrpGlyGlnGluAsnL : 125 52948 bp |||:!! ! ! ...:::|||...| ++SerValGlyValLysSerLysGluArgL 1211100 : ..........................agAGTGTAGGAGTAaaatcaaaggaaagga : 1264074 126 : ysValTyr{A} >>>> Target Intron 12 >>>> {la}CysMetMetVa : 132 ||:::|||{!} 31622 bp {.!}|||... :! ysIleTyr{G}++ ++{ly}CysPheAsnIl 1264075 : aaatatat{g}gt..........................ag{gt}tgctttaaCAT : 1295717 133 : lPhePheLeuSerAsnMetIleGluAsnGlnCysMetSerThr >>>> Target : 147 ! ! !|||..! |||:!!.!.||| ! !:!:|||! ! 38 eAlaThrLeuGluAlaMetLeuAsnAsnAlaIleLeuSerLys++ 1295718 : AGCCACTTTAGAGGCAATGCTCAATAATGCAATTCTCAGTAAAgt........... : 1295764 148 : Intron 13 >>>> GlyAlaPheGluIleThrLeuAsnAspValProValTrp : 159 498 bp ||| ||| :::::: |||::: ++GlyIlePheProThrGluGlySerAsnProProLeuLeu 1295765 : ...............agggaatcttccccaccgagggatcgaacccacctctctta : 1334296 160 : SerLysLeuGluSerGly >>>> Target Intron 14 >>>> HisLeuPr : 168 ||| |||... 23278 bp ...|| SerLeuLeuHis***Gln-+ ++SerPhePr 1334297 : tctctcctgcattgacagat..........................agtctttccc : 1357601 169 : oSerMetGlnGlnLeuVal >>>> Target Intron 15 >>>> GlnIleL : 177 |:::::::::...... 9135 bp |||!!:| oAlaLeuArgSerPhePro++ ++GlnMetL 1357602 : agcattgaggtcttttccagt..........................agCAAATGT : 1366763 178 : euAspAsnGluMetLysLeuAsnValHisMet : 187 ||..!!!....:!:||||||!:!|||:::::: euSerLysSerLeuLysLeuSerValTyrLeu 1366764 : TAAGTAAAAGTTTAAAACTTAGTGTatatttg : 1366795 vulgar: SPP00000025_1.0 2 187 . NIVO01008816.1:subseq(494279,1406561) 582736 1366795 + 117 M 17 51 S 0 1 5 0 2 I 0 163369 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 34 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 111223 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 23042 3 0 2 S 1 1 M 7 21 S 0 2 5 0 2 I 0 138518 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 6830 3 0 2 S 1 1 M 15 45 S 0 1 5 0 2 I 0 85154 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 74392 3 0 2 S 1 2 M 14 42 S 0 1 5 0 2 I 0 5506 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 19915 3 0 2 S 1 1 M 3 9 5 0 2 I 0 52944 3 0 2 M 12 36 S 0 1 5 0 2 I 0 31618 3 0 2 S 1 2 M 18 54 5 0 2 I 0 38494 3 0 2 M 19 57 5 0 2 I 0 23274 3 0 2 M 9 27 5 0 2 I 0 9131 3 0 2 M 13 39 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 582737 1366795 117 + . gene_id 15 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 582737 582788 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 582737 582788 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 582789 582790 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 582789 746161 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746160 746161 . + . intron_id 0 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 746162 746173 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 746162 746173 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746174 746175 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746174 746211 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746210 746211 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 746212 746268 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 746212 746268 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746269 746270 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746269 857495 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 880560 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 880559 880560 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 880561 880584 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 880561 880584 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 880585 880586 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 880585 1019106 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1019105 1019106 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1019107 1019133 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1019107 1019133 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1019134 1019135 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1019134 1025967 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1025966 1025967 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1025968 1026014 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1025968 1026014 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026015 1026016 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026015 1111172 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1111171 1111172 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1111173 1111190 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1111173 1111190 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1111191 1111192 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1111191 1185586 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1185585 1185586 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1185587 1185631 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1185587 1185631 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1185632 1185633 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1185632 1191141 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1191140 1191141 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1191142 1191169 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1191142 1191169 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1191170 1191171 . + . intron_id 10 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1191170 1211088 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1211087 1211088 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1211089 1211098 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1211089 1211098 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1211099 1211100 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1211099 1264046 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1264045 1264046 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1264047 1264083 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1264047 1264083 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1264084 1264085 . + . intron_id 12 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1264084 1295705 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1295704 1295705 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1295706 1295761 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1295706 1295761 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1295762 1295763 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1295762 1334259 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1334258 1334259 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1334260 1334316 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1334260 1334316 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1334317 1334318 . + . intron_id 14 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1334317 1357594 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1357593 1357594 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1357595 1357621 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1357595 1357621 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1357622 1357623 . + . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1357622 1366756 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1366755 1366756 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1366757 1366795 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1366757 1366795 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 582737 1366795 117 + . alignment_id 15 ; Query SPP00000025_1.0 ; Align 582737 3 51 ; Align 746164 21 9 ; Align 746214 25 54 ; Align 857498 44 15 ; Align 880562 50 21 ; Align 1019108 58 24 ; Align 1025969 67 45 ; Align 1111175 83 15 ; Align 1185589 89 42 ; Align 1191144 104 24 ; Align 1211090 113 9 ; Align 1264047 116 36 ; Align 1295708 129 54 ; Align 1334260 147 57 ; Align 1357595 166 27 ; Align 1366757 175 39 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 119 Query range: 2 -> 191 Target range: 46347 -> 1323001 3 : LeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetVal{Ar} >>>> Target : 16 ||||||||||||...||| ...... ::: {||} 113 LeuLeuLeuLeuPheLeuHisThrGlyPheSerGlyAsp{Ar}++ 46348 : ctgttgcttcttttcctgcatactggcttctcaggagac{ag}gt........... : 46391 17 : Intron 1 >>>> {g}{Se} >>>> Target Intron 2 >>>> {r}G : 18 330 bp {|}{||} 122799 bp {|}! ++{g}{Se}++ ++{r}G 46392 : ..............ag{G}{AG}gt.........................ag{T}G : 282522 19 : luAlaSerAlaAsnLeuGlyGlyValProSerLysArgLeu{Ly} >>>> Targ : 32 !!.!||||||:!!||| !||| !||| !!!:!!:!! !{!:} 1 lyGlySerAlaAspLeuThrGlyTyrProProArgLysTrp{Ar}++ 282523 : GAGGCTCTGCGGACCTAACTGGCTACCCTCCCAGAAAATGG{AG}gt......... : 282568 33 : et Intron 3 >>>> {s}MetGln{Ty} >>>> Target Intron 4 >> : 35 36976 bp {!}! |||{ } 6496 bp ++{g}SerGln{Il}++ 282569 : ................ag{A}AGTCAA{AT}gt....................... : 419553 36 : >> {r}AlaThrGlyProLeuLeuLys >>>> Target Intron 5 >>>> : 43 { }|||!.!||| !!|||:!! ! 42449 bp ++{e}AlaAsnGlyThrLeuMetHis++ + 419554 : ..ag{A}GCAAATGGAACTTTAATGCATgt.........................a : 468516 44 : PheGlnIleCysValSer{Un} >>>> Target Intron 6 >>>> {k}G : 50 |||... |||||||||{ } 28222 bp { }| +PheAspTyrCysValSer{**}++ ++{*}G 468517 : gtttgattattgtgtgtct{tg}gt.........................ag{A}G : 496761 51 : lyTyrArgArgValPheGluGluTyrMetArgValIleSer{G} >>>> Targe : 64 || !! ! !..!.!.:!!|||||| ::: ...{|} 9 lyLeuProAlaThrLeuGlnGluTyrHisGlyLeuAspGly{G}++ 496762 : GGCTTCCTGCTACTCTACAGgagtatcacggactcgatgga{c}gt.......... : 496806 65 : t Intron 7 >>>> {ln}ArgTyrPro >>>> Target Intron 8 >>> : 68 8320 bp {||} :::||| 7483 bp ++{ln}CysPhePro++ 496807 : ...............ag{ag}tgttttccagt........................ : 595137 69 : > AspIleArgIleGluGlyGluAsnTyrLeuProGlnProIleTyr{A} >>> : 83 |||:!:|||! ! ! ! ! !:!||||||..! !:!!!:!{|} ++AspLeuArgAsnTyrThrLeuLeuPheLeuProMetGluLeuPhe{A}++ 595138 : .agGACCTGCGAAATTACACACTGCTGTTTCTGCCCATGGAACTCTTT{C}gt... : 602666 84 : > Target Intron 9 >>>> {rg}HisIleAlaSerPheLeuSerValPheL : 93 77218 bp {||}|||:!! !:!!.!!|||:!! !|||| +-{rg}HisLeuArgAlaIleLeuAlaArgPheL 602667 : ......................at{GA}CATCTTCGTGCTATTTTGGCCCGTTTCA : 679911 94 : ysLeuValLeu{I} >>>> Target Intron 10 >>>> {le}GlyLeuIl : 100 || !||| !{:} 2945 bp {!!}||| ! ysAlaValAla{V}++ ++{al}GlyThrSe 679912 : AAGCAGTGGCA{G}gt..........................ag{TT}GGGACTTC : 682877 101 : e{I} >>>> Target Intron 11 >>>> {le}ValGlyLysAspPro{P} : 107 !{:} 94170 bp {!:}||||||!:!:!! !!{|} r{V}++ ++{al}ValGlyArgAsnSer{P} 682878 : A{G}gt..........................ag{TG}GTGGGTAGGAATTCA{T} : 777068 108 : >>>> Target Intron 12 >>>> {he}AlaPhePheGlyMetGlnAla{ : 115 46713 bp {||} !!:!|||.!!:!:.!.! !{ ++ ++{he}LysTyrPheSerLeuAspGlu{ 777069 : gt..........................ag{TT}AAATATTTTAGCCTTGATGAA{ : 823805 116 : Pr} >>>> Target Intron 13 >>>> {o}SerIleTrpGlnTrpGlyGl : 122 ||} 155154 bp {|} :::||| ||| .. Pr}++ ++{o}LeuLeuTrpProTrpAspSe 823806 : CC}gt..........................ag{g}ctcctctggccatgggattc : 978980 123 : nGlu{A} >>>> Target Intron 14 >>>> {sn}LysValTyrAlaCys : 129 . {.} 129532 bp {!.} ! |||||| rPro{G}++ ++{lu}AlaArgArgAlaCys 978981 : tcca{g}gt..........................ag{aa}gcCAGGAGAGCTTGT : 1108533 130 : MetMetVal{Ph} >>>> Target Intron 15 >>>> {e}PheLeuSerA : 137 ! !!: !{! } 92149 bp {!} ||| | LysIleLys{Cy}++ ++{s}ProLeuValA 1108534 : AAAATAAAA{TG}gt..........................ag{t}ccattggtta : 1200706 138 : snMetIleGluAsnGlnCysMet{Se} >>>> Target Intron 16 >>>> : 145 ||!!:! !... |||||||||{.!} 11132 bp snIleThrHisPheGlnCysMet{Gl}++ + 1200707 : aTATTACACacttccaatgcatg{gg}gt..........................a : 1211862 146 : {r}ThrGlyAlaPheGlu{I} >>>> Target Intron 17 >>>> {le} : 151 {!}||| ...|||...{|} 6865 bp {||} +{y}ThrArgValPheSer{I}++ ++{le} 1211863 : g{c}accagggtcttttcc{a}gt..........................ag{tt} : 1218746 152 : ThrLeuAsn{As} >>>> Target Intron 18 >>>> {p}ValProValT : 159 ...||||||{..} 33300 bp {!}||| |||| ValLeuAsn{Se}-+ ++{r}ValGlnValT 1218747 : gtacTTAAC{AG}tt..........................ag{t}gttcaagtat : 1252069 160 : rp{Se} >>>> Target Intron 19 >>>> {r}LysLeuGluSerGlyHi : 166 ||{! } 31805 bp {!} |||...||| rp{Il}++ ++{e}HisLeuAsnSerValVa 1252070 : gg{at}gt..........................ag{c}catctcaactctgttgt : 1283895 167 : sLeuProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsnV : 185 |||||| ::: :::::::::......|||||| |||:::: lLeuProProIleProProSerIleArgValPheSerAsnGluSerThrLeuHisI 1283896 : cctgcccccaatccctcccagcatcagagtcttttccaatgagtcaactcttcata : 1283952 186 : al{Hi} >>>> Target Intron 20 >>>> {s}MetAspSerIlePro : 191 ::{..} 39029 bp {.}!!:..!!!!|||||| le{Ar}++ ++{g}IleSerThrIlePro 1283953 : tc{ag}gt..........................ag{G}ATTTCCACCATtcct : 1323001 vulgar: SPP00000025_1.0 2 191 . NIVO01008816.1:subseq(494279,1406561) 46347 1323001 + 119 M 13 39 S 0 2 5 0 2 I 0 113326 3 0 2 S 1 3 5 0 2 I 0 122795 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 136972 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 6492 3 0 2 S 1 1 M 7 21 5 0 2 I 0 42445 3 0 2 M 6 18 S 0 2 5 0 2 I 0 28218 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 98316 3 0 2 S 1 2 M 3 9 5 0 2 I 0 7479 3 0 2 M 15 45 S 0 1 5 0 2 I 0 77214 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 2941 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 94166 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 46709 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 155150 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 129528 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 92145 3 0 2 S 1 1 M 11 33 S 0 2 5 0 2 I 0 11128 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 6861 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 33296 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 31801 3 0 2 S 1 1 M 25 75 S 0 2 5 0 2 I 0 39025 3 0 2 S 1 1 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 46348 1323001 119 + . gene_id 16 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 46348 46388 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 46348 46388 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 46389 46390 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 46389 159718 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 282520 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 282519 282520 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 282521 282565 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 282521 282565 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 282566 282567 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 282566 419541 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 419540 419541 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 419542 419550 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 419542 419550 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 419551 419552 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 419551 426046 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426045 426046 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426047 426068 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426047 426068 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426069 426070 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426069 468517 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 468516 468517 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 468518 468537 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 468518 468537 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 468538 468539 . + . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 468538 496759 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 496758 496759 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 496760 496803 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 496760 496803 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 496804 496805 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 496804 595123 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 595122 595123 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 595124 595134 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 595124 595134 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 595135 595136 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 595135 602617 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 602616 602617 . + . intron_id 7 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 602618 602663 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 602618 602663 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 602664 602665 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 602664 679881 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 679880 679881 . + . intron_id 8 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 679882 679923 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 679882 679923 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 679924 679925 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 679924 682868 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 682867 682868 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 682869 682880 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 682869 682880 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 682881 682882 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 682881 777050 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 777049 777050 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 777051 777068 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 777051 777068 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 777069 777070 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 777069 823781 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 823780 823781 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 823782 823806 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 823782 823806 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 823807 823808 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 823807 978960 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 978959 978960 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 978961 978986 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 978961 978986 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 978987 978988 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 978987 1108518 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1108517 1108518 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1108519 1108546 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1108519 1108546 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1108547 1108548 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1108547 1200695 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1200694 1200695 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1200696 1200731 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1200696 1200731 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1200732 1200733 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1200732 1211863 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1211862 1211863 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1211864 1211880 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1211864 1211880 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1211881 1211882 . + . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1211881 1218745 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1218744 1218745 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1218746 1218758 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1218746 1218758 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1218759 1218760 . + . intron_id 18 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1218759 1252058 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1252057 1252058 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1252059 1252073 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1252059 1252073 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1252074 1252075 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1252074 1283878 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1283877 1283878 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1283879 1283956 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1283879 1283956 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1283957 1283958 . + . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1283957 1322985 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1322984 1322985 . + . intron_id 19 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1322986 1323001 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1322986 1323001 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 46348 1323001 119 + . alignment_id 16 ; Query SPP00000025_1.0 ; Align 46348 3 39 ; Align 282522 18 42 ; Align 419543 33 6 ; Align 426048 36 21 ; Align 468518 43 18 ; Align 496761 50 42 ; Align 595126 65 9 ; Align 602618 68 45 ; Align 679884 84 39 ; Align 682871 98 9 ; Align 777053 102 15 ; Align 823784 108 21 ; Align 978962 116 24 ; Align 1108521 125 24 ; Align 1200697 134 33 ; Align 1211865 146 15 ; Align 1218748 152 9 ; Align 1252060 156 12 ; Align 1283880 161 75 ; Align 1322987 187 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 115 Query range: 3 -> 195 Target range: 49960 -> 1313944 4 : LeuLeuLeuLeuLeuValAlaAlaSerAlaMetVal >>>> Target Intron : 16 |||||||||||||||:!!!.!|||:!!:!! !||| 1105 bp LeuLeuLeuLeuLeuLeuValAlaAlaSerAlaVal++ 49961 : CTTCTGCTACTTCTGCTGGTGGCGGCGTCGGCGGTGgt.................. : 49999 17 : 1 >>>> ArgSerGluAla{Se} >>>> Target Intron 2 >>>> {r : 20 ::!!!!! !!.!{||} 5176 bp {| ++LysThrValVal{Se}++ ++{r 50000 : .......agaAGACGGTGGTC{AG}gt.........................ag{T : 56292 21 : }AlaAsnLeu{Gl} >>>> Target Intron 3 >>>> {y}GlyValProS : 28 } ! |||{ !} 72233 bp {!}||| . }LeuProLeu{Ar}++ ++{g}GlyPheLeuG 56293 : }TTGCCATTA{AG}gt.........................ag{g}gggtttctcc : 128547 29 : er >>>> Target Intron 4 >>>> Lys >>>> Target Intron 5 : 30 .. 31169 bp :!! 45176 bp ln++ ++Glu++ 128548 : aggt.........................agGAGgt.................... : 159724 31 : >>>> ArgLeuLysMetGlnTyrAlaThrGlyProLeuLeuLysPheGlnIleC : 46 ||| ... ::: |||||| ::: ...||| ++CysLeuLeuPheLeuTrpLeuThrGlySerGlyThrGlnAlaSerIleV 159725 : .....agtgccttctcttcttgtggctcacgggctcgggcacacaggcttccatag : 204946 47 : ysValSerUnkGlyTyrArgArgVal{P} >>>> Target Intron 6 >>>> : 55 |||::: ||| ||| !! !{ } 83511 bp alValAlaHisGlyLeuArgSerArg{V}++ 204947 : ttgtggctcatgggctcaggaGCCGA{G}gt......................... : 204976 56 : {he}GluGluTyrMet >>>> Target Intron 7 >>>> ArgValIle : 62 {! }|||:!! !:!! 20872 bp |||:!!:!! ++{al}GluGlnIleLeu++ ++ArgIleLeu 204977 : ag{tg}gagcAGATCCTGgt.........................agAGAATTCTA : 309377 63 : SerGlnArgTyr{Pr} >>>> Target Intron 8 >>>> {o}AspIleAr : 70 |||..! !|||{ } 9181 bp {!}||| !|| SerMetPheTyr{Tr}++ ++{p}AspGlyAr 309378 : AGTATGTTTTAC{TG}gt.........................ag{G}GATGGCAG : 318582 71 : gIleGluGly >>>> Target Intron 9 >>>> Glu{A} >>>> Targ : 75 |:!!..!! ! 14258 bp |||{.} gLeuSerGlu++ ++Glu{G}++ 318583 : ACTCTCAGAGgt.........................agGAA{G}gt......... : 332858 76 : et Intron 10 >>>> {sn}TyrLeuProGlnProIleTyrArgHisIleAla : 86 3739 bp {..} ||||||...||| ||| :::||| ++{ly}AspLeuProAspProGluTyrLeuTyrIleIle 332859 : .................ag{gg}gatcttcctgatccagagtatctttatattata : 336627 87 : SerPheLeuSerValPheLys{L} >>>> Target Intron 11 >>>> {e : 94 ...||| ::: {!} 25002 bp { TyrIleLeuTyrIleValVal{C}++ ++{y 336628 : tatattttatatatagtagta{t}gt..........................ag{G : 361654 95 : u}ValLeuIleGly{Le} >>>> Target Intron 12 >>>> {u}IleIl : 101 !}|||||| !|||{ } 11394 bp {!}:!!:! s}ValLeuSerGly{Se}++ ++{r}ValLe 361655 : C}GTGCTGTCAGGC{AG}gt..........................ag{T}GTCTT : 373068 102 : eValGlyLysAspProPheAlaPhePheGlyMetGlnAlaProSerIleTrpGln : 120 !||| !!!. ! ||||||:!!||| !! !.!..!. !|||!!!||||||! ! uValLysAsn***ProPheSerPheHisValPheAspPheProThrIleTrpLeu+ 373069 : AGTCAAAAACTAGCCATTTTCCTTTCACGTGTTTGATTTTCCCACCATCTGGCTGg : 373125 121 : >>>> Target Intron 13 >>>> TrpGlyGlnGluAsn >>>> Targe : 125 115435 bp !!...:::|||... 3 + ++GlySerArgGluLys++ 373126 : t..........................agGGGagcagggagaaggt.......... : 488577 126 : t Intron 14 >>>> LysValTyrAlaCysMetMetValPhePheLeuSer : 137 8858 bp :!!!.!|||::!! ||||||||| ++GluAlaTyrSerPheTyrTyrPhePhePheLeuPro++ 488578 : ................agGAAGCTTATAGTTTctactatttctttttccttcctgt : 527469 138 : >>>> Target Intron 15 >>>> AsnMetIleGluAsnGlnCysMetSerT : 146 31767 bp ...:::... ...||| :::: ++GlyIlePheProThrGlnGlySerAsnS 527470 : ..........................agggaatcttcccaacccagggatcgaact : 559263 147 : hrGlyAlaPheGluIle{Th} >>>> Target Intron 16 >>>> {r}Le : 153 ::||| ...... {! } 44147 bp {!}:! erGlyLeuLeuHisCys{Ar}++ ++{g}Me 559264 : caggtctcttacattgc{ag}gt..........................ag{A}AT : 603431 154 : uAsnAspVal{Pr} >>>> Target Intron 17 >>>> {o}ValTrp{Se : 160 !||| !:!!{ } 45591 bp {!}||||||{|| tAsnArgLeu{Ar}++ ++{g}ValTrp{Se 603432 : GAATCGCCTC{AG}gt..........................ag{A}GTTTGG{AG : 649043 161 : } >>>> Target Intron 18 >>>> {r}LysLeuGluSerGly{Hi} > : 166 } 95587 bp {|} ! !.!.||||||{..} }++ ++{r}TrpThrHisSerGly{Ar}++ 649044 : }gt..........................ag{C}TGGACACACAGTGGG{AG}gt. : 744652 167 : >>> Target Intron 19 >>>> {s}LeuPro >>>> Target Intron : 169 131327 bp {.}:!!||| 99996 bp ++{g}ValPro++ 744653 : .........................ag{A}GTTCCtgt.................. : 875986 170 : 20 >>>> SerMetGlnGlnLeuVal{Gl} >>>> Target Intron 21 : 175 !.!:!::!! !|||:!!{::} 194261 bp ++LysLeuGluIleLeuLeu{Ar}++ 875987 : ........agAAGCTAGAGATATTGCTA{AG}gt...................... : 976002 176 : >>>> {n}IleLeu{A} >>>> Target Intron 22 >>>> {sp}AsnG : 180 {!}:!:|||{|} 136019 bp {||}! | ++{g}LeuLeu{A}++ +-{sp}MetG 976003 : ....ag{A}TTGCTA{G}gt..........................aa{AT}ATGG : 1306293 181 : luMetLysLeuAsnValHisMetAsp >>>> Target Intron 23 >>>> : 189 ||!!:|||:!!||| !!:!! ||| 7604 bp luIleLysIleAsnPheTyrHisAsp++ ++ 1306294 : AGATCAAGATCAATTTTTACCATGATgt..........................ag : 1313922 190 : SerIleProHisHisArgSer : 195 ||| !|||||||||...::: SerHisProHisHisGluAsn 1313923 : TCTCACCCACaccatgaaaat : 1313944 vulgar: SPP00000025_1.0 3 195 . NIVO01008816.1:subseq(494279,1406561) 49960 1313944 + 115 M 12 36 5 0 2 I 0 1101 3 0 2 M 4 12 S 0 2 5 0 2 I 0 5172 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 72229 3 0 2 S 1 1 M 4 12 5 0 2 I 0 31165 3 0 2 M 1 3 5 0 2 I 0 45172 3 0 2 M 25 75 S 0 1 5 0 2 I 0 83507 3 0 2 S 1 2 M 4 12 5 0 2 I 0 20868 3 0 2 M 7 21 S 0 2 5 0 2 I 0 9177 3 0 2 S 1 1 M 6 18 5 0 2 I 0 14254 3 0 2 M 1 3 S 0 1 5 0 2 I 0 3735 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 24998 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 11390 3 0 2 S 1 1 M 20 60 5 0 2 I 0 115431 3 0 2 M 5 15 5 0 2 I 0 38854 3 0 2 M 12 36 5 0 2 I 0 31763 3 0 2 M 15 45 S 0 2 5 0 2 I 0 44143 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 45587 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 95583 3 0 2 S 1 1 M 5 15 S 0 2 5 0 2 I 0 131323 3 0 2 S 1 1 M 2 6 5 0 2 I 0 99992 3 0 2 M 6 18 S 0 2 5 0 2 I 0 194257 3 0 2 S 1 1 M 2 6 S 0 1 5 0 2 I 0 136015 3 0 2 S 1 2 M 10 30 5 0 2 I 0 7600 3 0 2 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 49961 1313944 115 + . gene_id 17 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 49961 49996 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 49961 49996 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 49997 49998 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 49997 51101 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 51100 51101 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 51102 51115 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 51102 51115 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 51116 51117 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 51116 56291 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 56290 56291 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 56292 56303 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 56292 56303 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 56304 56305 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 56304 128536 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 128535 128536 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 128537 128549 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 128537 128549 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 128550 128551 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 128550 159718 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 204897 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 204896 204897 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 204898 204973 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 204898 204973 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 204974 204975 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 204974 288484 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 288483 288484 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 288485 288498 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 288485 288498 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 288499 288500 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 288499 309370 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 309369 309370 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 309371 309393 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 309371 309393 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 309394 309395 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 309394 318574 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 318573 318574 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 318575 318593 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 318575 318593 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 318594 318595 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 318594 332851 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 332850 332851 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 332852 332855 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 332852 332855 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 332856 332857 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 332856 336594 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 336593 336594 . + . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 336595 336651 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 336595 336651 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 336652 336653 . + . intron_id 11 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 336652 361653 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 361652 361653 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 361654 361669 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 361654 361669 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 361670 361671 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 361670 373063 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 373062 373063 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 373064 373124 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 373064 373124 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 373125 373126 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 373125 488559 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 488558 488559 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 488560 488574 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 488560 488574 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 488575 488576 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 488575 527432 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 527431 527432 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 527433 527468 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 527433 527468 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 527469 527470 . + . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 527469 559235 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559234 559235 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559236 559282 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559236 559282 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559283 559284 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559283 603429 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 603428 603429 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 603430 603444 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 603430 603444 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 603445 603446 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 603445 649035 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 649034 649035 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 649036 649044 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 649036 649044 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 649045 649046 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 649045 744631 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 744630 744631 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 744632 744649 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 744632 744649 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 744650 744651 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 744650 875976 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 875975 875976 . + . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 875977 875983 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 875977 875983 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 875984 875985 . + . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 875984 975979 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 975978 975979 . + . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 975980 975999 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 975980 975999 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 976000 976001 . + . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 976000 1170260 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1170259 1170260 . + . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1170261 1170268 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1170261 1170268 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1170269 1170270 . + . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1170269 1306287 . + . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1306286 1306287 . + . intron_id 21 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1306288 1306319 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1306288 1306319 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1306320 1306321 . + . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1306320 1313923 . + . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1313922 1313923 . + . intron_id 22 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1313924 1313944 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1313924 1313944 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 49961 1313944 115 + . alignment_id 17 ; Query SPP00000025_1.0 ; Align 49961 4 36 ; Align 51102 16 12 ; Align 56293 21 9 ; Align 128538 25 12 ; Align 159719 29 3 ; Align 204898 30 75 ; Align 288487 56 12 ; Align 309371 60 21 ; Align 318576 68 18 ; Align 332852 74 3 ; Align 336597 76 54 ; Align 361656 95 12 ; Align 373065 100 60 ; Align 488560 120 15 ; Align 527433 125 36 ; Align 559236 137 45 ; Align 603431 153 12 ; Align 649037 158 6 ; Align 744633 161 15 ; Align 875978 167 6 ; Align 975980 169 18 ; Align 1170262 176 6 ; Align 1306290 179 30 ; Align 1313924 189 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 109 Query range: 0 -> 186 Target range: 93322 -> 877344 1 : MetArgLeuLeuLeu >>>> Target Intron 1 >>>> LeuLeuLeuValAl : 10 :!!|||||| ! ! 130820 bp :!!:!!|||..! ! LeuArgLeuThrGlu++ ++ValValLeuThrPr 93323 : CTGAGGCTGACGGAGgt.........................agGTGGTTTTAACTCC : 224170 11 : aAlaSerAlaMetValArgSerGluAlaSerAlaAsnLeu >>>> Target Intr : 24 !!.!|||!.!:!::!! !|||:!! !!!!!|||.!.:!! 126249 b oValSerValLeuLeuAlaSerGlnProArgAlaGluIle++ 224171 : AGTATCTGTGCTCTTAGCTTCTCAGCCAAGAGCAGAAATTgt................ : 224214 25 : on 2 >>>> GlyGlyValProSerLysArgLeuLysMetGlnTyrAlaThr >>> : 38 p |||...:::|||... |||::: ! ! !!:! ! ! ++GlyAsnLeuProAspProArgIleLeuSerProPheArgArg++ 224215 : .........aggggaatcttcctgacccaaggatattATCTCCATTTCGCCGGgt... : 350505 39 : > Target Intron 3 >>>> GlyProLeuLeuLysPheGlnIleCysValSerU : 49 51015 bp ||||||:!!:!! !! !! ||||||||| ++GlyProValMet***HisProTrpCysValSerV 350506 : ......................agGGCCCCGTCATGTAACATCCTTGGTGTGTGTCAG : 401551 50 : nkGly{T} >>>> Target Intron 4 >>>> {yr}ArgArgValPheGluGl : 57 !{ } 28439 bp {! }|||!:!|||.!...... alPro{G}++ ++{lu}ArgLysValLeuSerAr 401552 : TTCCA{G}gt.........................ag{AG}AGAAAAGTGCTGTCCAG : 430014 58 : uTyr{M} >>>> Target Intron 5 >>>> {et}ArgValIleSerGlnArg : 65 ! { } 27464 bp { }|||||| !|||||| !! gAla{G}++ ++{ly}ArgValCysSerGlnGly 430015 : AGCA{G}gt.........................ag{GC}AGGGTGTGTAGTCAGGGA : 457502 66 : TyrProAspIleArgIleGlu{Gl} >>>> Target Intron 6 >>>> {y}G : 74 ! ! !!:! !:!!:!!{||} 10444 bp {|}| GlySerLysMetThrValGln{Gl}-+ +-{y}G 457503 : GGGAGCAAGATGACAGTACAG{GG}at.........................at{g}g : 467973 75 : luAsnTyrLeuProGlnProIleTyrArgHis >>>> Target Intron 7 >>> : 85 || ||||||...||| !!:!!:! ! 93513 bp luTyrLeuLeuProSerProTyrPheLysSer++ 467974 : aataccttctTCCATCCCCTTACTTTAAGTCTgt........................ : 468008 86 : > IleAla >>>> Target Intron 8 >>>> SerPheLeuSerValPheLy : 93 ::: 55793 bp :::...::: :::||||| ++LeuLeu++ ++AlaIleIleLeuIlePheLy 468009 : .agcttctggt.........................aggccattatattgatttttaa : 617336 94 : sLeuValLeuIleGlyLeuIleIleValGlyLysAspProPheAlaPhePheGlyMet : 112 |::::::... !! !:!!!!:|||..!:!! !|||||| !.!. ! ! sValIlePheTyrArgTrpValMetValSerGluIleProPheArgIleAlaLysGlu 617337 : agttatattttatagGTGGGTTATGGTATCTGAAATTCCCTTTAGGATAGCAAAAGAG : 617393 113 : GlnAlaProSerIleTrpGln{Tr} >>>> Target Intron 9 >>>> {p}G : 121 .!! !.!! !|||! {||} 21833 bp {|}| AlaThrArgGlyProTrpLeu{Tr}-+ ++{p}G 617394 : GCTACTAGAGGGCCTTGGCTC{TG}at.........................ag{g}g : 639253 122 : lyGlnGluAsnLysValTyrAlaCysMetMet >>>> Target Intron 10 >> : 132 ||......... ::: ...:::... 9732 bp lySerSerGlnProArgPheIleAlaLeuGln++ 639254 : gatcttcccaacccagatttattgcattgcaggt........................ : 639288 133 : >> ValPhePheLeuSerAsnMetIleGlu >>>> Target Intron 11 >>> : 141 |||...||| !! ! ! :!:||| 105952 bp ++SerPheLeuLeuPro***SerLeuGlu++ 639289 : ..agagttttctcttGCCATAGAGTTTGGAGgt......................... : 649047 142 : > AsnGlnCysMetSerThr >>>> Target Intron 12 >>>> GlyAlaP : 149 .!.|||||| ! !! ! 122210 bp ! !. ++GluGlnCysProPheLys++ ++IleIleI 649048 : .agGAACAATGTCCATTTAAAgt..........................agATTATAA : 877231 150 : heGluIleThrLeuAsnAspValProValTrpSerLysLeuGluSerGlyHisLeuPr : 168 !!!!:|||:!!! !!!...!:!!|||||| ! !|||! !! !!!||| :!! leAspIleSerGlnLysSerLeuProValIleIleLysGlnValTrpGlyLeuIleLy 877232 : TCGACATTTCACAGAAATCTTTACCAGTGATTATTAAACAAGTCTGGGGATTGATTAA : 877288 169 : oSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsnValHis : 186 !.!! :!! !!!! !:!!|||:!! ||||||:!::!!:!!:::|||||| sGlyHisLysThrPhe***GluIleValArgAsnGluLeuGluIleSerValHis 877289 : AGGGCATAAAACATTTTAGGAAATTGTTAGAAATGAATTAGAAATATCAGTTCAT : 877344 vulgar: SPP00000025_1.0 0 186 . NIVO01008816.1:subseq(494279,1406561) 93322 877344 + 109 M 5 15 5 0 2 I 0 130816 3 0 2 M 18 54 5 0 2 I 0 126245 3 0 2 M 14 42 5 0 2 I 0 51011 3 0 2 M 13 39 S 0 1 5 0 2 I 0 28435 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 27460 3 0 2 S 1 2 M 13 39 S 0 2 5 0 2 I 0 10440 3 0 2 S 1 1 M 11 33 5 0 2 I 0 93509 3 0 2 M 2 6 5 0 2 I 0 55789 3 0 2 M 33 99 S 0 2 5 0 2 I 0 21829 3 0 2 S 1 1 M 11 33 5 0 2 I 0 9728 3 0 2 M 9 27 5 0 2 I 0 105948 3 0 2 M 6 18 5 0 2 I 0 122206 3 0 2 M 40 120 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 93323 877344 109 + . gene_id 18 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 93323 93337 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 93323 93337 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 93338 93339 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 93338 224157 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 224156 224157 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 224158 224211 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 224158 224211 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 224212 224213 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 224212 350460 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 350459 350460 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 350461 350502 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 350461 350502 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 350503 350504 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 350503 401517 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 401516 401517 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 401518 401557 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 401518 401557 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 401558 401559 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 401558 429996 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 429995 429996 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 429997 430020 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 429997 430020 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 430021 430022 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 430021 457484 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 457483 457484 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 457485 457527 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 457485 457527 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 457528 457529 . + . intron_id 6 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 457528 467971 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 467970 467971 . + . intron_id 5 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 467972 468005 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 467972 468005 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 468006 468007 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 468006 561518 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 617317 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 617316 617317 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 617318 617418 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 617318 617418 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 617419 617420 . + . intron_id 9 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 617419 639251 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 639250 639251 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 639252 639285 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 639252 639285 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 639286 639287 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 639286 649017 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 649016 649017 . + . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 649018 649044 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 649018 649044 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 649045 649046 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 649045 754996 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 754995 754996 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 754997 755014 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 754997 755014 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 755015 755016 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 755015 877224 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 877223 877224 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 877225 877344 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 877225 877344 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 93323 877344 109 + . alignment_id 18 ; Query SPP00000025_1.0 ; Align 93323 1 15 ; Align 224158 6 54 ; Align 350461 24 42 ; Align 401518 38 39 ; Align 429999 52 21 ; Align 457487 60 39 ; Align 467973 74 33 ; Align 561519 85 6 ; Align 617318 87 99 ; Align 639253 121 33 ; Align 649018 132 27 ; Align 754997 141 18 ; Align 877225 147 120 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 108 Query range: 2 -> 193 Target range: 46350 -> 1184122 3 : LeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMet{Va} >>>> Target In : 15 |||||||||...||| ...... |||... { } 4713 LeuLeuLeuPheLeuHisThrGlyPheSerGlyAsp{Ar}++ 46351 : ttgcttcttttcctgcatactggcttctcaggagac{ag}gt.............. : 46391 16 : tron 1 >>>> {l}ArgSerGluAla{S} >>>> Target Intron 2 >> : 20 bp {!}||| !! !:!!{.} 34627 bp ++{g}ArgArgTrpSer{A}++ 46392 : ...........ag{a}AGACGGTGGTCA{G}gt....................... : 51118 21 : >> {er}AlaAsnLeuGlyGlyValProSerLysArgLeuLysMetGlnTyr{A} : 36 {.!}|||.!. !||||||:!!||| !||| !! !... ! ! {!} ++{sp}AlaGluLysGlyGlyIleProValLysAlaGlnSerTyrTyrSer{G} 51119 : ..ag{AT}GCAGAGAAGGGGGGAATCCCAGTCAAAGCACAGTCCTATTACTCA{G} : 85790 37 : >>>> Target Intron 3 >>>> {la}ThrGlyProLeuLeu{Ly} >> : 42 17430 bp {.!}! !||||||! !|||{!.} -+ ++{ly}ArgGlyProCysLeu{Se}++ 85791 : tt.........................ag{GG}AGAGGCCCCTGCCTG{AG}gt.. : 103242 43 : >> Target Intron 4 >>>> {s}Phe{Gl} >>>> Target Intron : 44 7003 bp {.}:::{ } 6321 bp ++{r}Tyr{Le}++ 103243 : .......................ag{c}tat{tt}gt................... : 110251 45 : 5 >>>> {n}IleCysValSer{Un} >>>> Target Intron 6 >>>> : 49 {!}|||! !:!!|||{ } 11952 bp ++{u}IleSerIleSer{Ar}++ ++ 110252 : ......ag{A}ATTTCTATCTCT{AG}gt.........................ag : 128535 50 : {k}GlyTyrArgArg >>>> Target Intron 7 >>>> ValPheGluGlu : 57 { }|||::: ::: 84618 bp :!!!:!:!!... {g}GlyPheLeuGln++ ++LeuTyrLysSer 128536 : {g}gggtttctccaggt.........................agCTTTATAAATCT : 213177 58 : TyrMetArgValIleSerGlnArgTyrProAspIleArgIle >>>> Target : 72 :!!||| !|||.!!!!!|||!:!! ||| ! !|||! 500 HisMetTyrValPheThrGlnLys***ProProProArgLys++ 213178 : CACATGTATGTATTTACACAAAAGTGACCTCCTCCCCGCAAGgt............ : 213224 73 : Intron 8 >>>> GluGlyGlu{As} >>>> Target Intron 9 >>>> : 75 26 bp ||||||:!!{||} 25176 bp +-GluGlyGln{As}++ + 213225 : .............atGAAGGACAG{AA}gt.........................a : 288433 76 : {n}TyrLeuProGlnProIleTyrArgHisIleAlaSerPheLeuSerValPheL : 93 {|} !|||||||||! !:!!! !! !||| ||| ... : +{n}ArgAlaProGlnProThrHisThrLeuProPheSerProLeuProAlaValG 288434 : g{C}AGAGCCCCCCAGCCCACCCACACACTGCCGTTCTcccctctgcctgcagtgg : 288487 94 : ysLeuValLeu >>>> Target Intron 10 >>>> {Il} >>>> Targ : 97 :: !:!!||| 40616 bp {! } luGlnIleLeu++ ++{Se}++ 288488 : agcAGATCCTGgt..........................ag{AG}gt......... : 329119 98 : et Intron 11 >>>> {e}GlyLeuIleIleValGlyLysAspProPhe{A} : 108 124763 bp {!}||||||:!! !:!!||| !:!!||||||{ } ++{r}GlyLeuLeuGlyLeuGlyLeuAsnProPhe{P}+ 329120 : .................ag{T}GGATTGTTAGGATTGGGTCTAAACCCCTTT{T}g : 453912 109 : >>>> Target Intron 12 >>>> {la}PhePheGlyMetGlnAlaProSe : 116 23725 bp { !}|||.!.|||! !!:: !|||.! + ++{he}PheLeuGlyThrArgPheProGl 453913 : t..........................ag{TT}TTCCTGGGCACGCGTTTCCCTGG : 477660 117 : rIleTrpGlnTrp{G} >>>> Target Intron 13 >>>> {ly}GlnGlu : 123 ! !|||!!. !!{|} 10884 bp {||}:::::: yProTrpHisArg{G}++ ++{ly}GluGln 477661 : TCCCTGGCACAGG{G}gt..........................ag{GG}Gagcag : 488565 124 : AsnLys{V} >>>> Target Intron 14 >>>> {al}Tyr >>>> Tar : 128 ...:::{|} 50264 bp {||}||| GlyGlu{V}++ ++{al}Tyr++ 488566 : ggagaa{g}gt..........................ag{TG}TATgt........ : 538846 129 : get Intron 15 >>>> AlaCysMetMetValPhePheLeuSerAsnMetIle : 139 19713 bp |||..!:!!|||||| ! !:!! !!||| :!: ++AlaAlaLeuMetValValAsnIleProAsnCysLeu 538847 : ..................agGCTGCTTTGATGGTGGTAAACATCCCGAATTGCTTG : 558590 140 : Glu{A} >>>> Target Intron 16 >>>> {sn}GlnCysMetSerThrG : 147 |||{ } 31872 bp { }!!.||| !!!|||| Glu{A}++ ++{la}HisCysProArgThrG 558591 : GAA{G}gt..........................ag{CA}CATTGTCCCAGGACCG : 590486 148 : ly{A} >>>> Target Intron 17 >>>> {la}PheGluIleThrLeuAs : 154 ||{|} 36381 bp {||}|||:!!! ||||||:! ly{A}++ +-{la}PheLysLysThrLeuHi 590487 : GT{G}gt..........................aa{CA}TTCAAAAAGACTTTACA : 626888 155 : nAspValProValTrpSerLysLeuGluSerGlyHisLeuProSerMetGlnGlnL : 173 ! ! !! !:!!|||||||||!!! ! ::: |||::: :::...::: sCysLysGlnLeuTrpSerLysPheTyrAsnGluHisIleLysIleIleAsnLysT 626889 : CTGTAAGCAACTCTGGTCTAAGTTTTATaatgaacatataaaaattataaataaat : 626945 174 : euValGlnIle >>>> Target Intron 18 >>>> LeuAspAsn{Gl} : 180 ||| ||| 117675 bp ||||||!..{:!} yrValTyrIle+- ++LeuAspThr{Gl}++ 626946 : atgtgtatattgc..........................agCTGGACACA{CA}gt : 744643 181 : >>>> Target Intron 19 >>>> {u}MetLysLeuAsnValHis >>>> : 187 112853 bp {!}!!:!..|||::::!!!!. ++{n}IleSerLeuSerLeuGln++ 744644 : ..........................ag{A}ATCAGTCTGTCACTCCAGgt..... : 857517 188 : Target Intron 20 >>>> MetAspSerIlePro{H} >>>> Target I : 192 170664 bp ||||||:::|||{.} 1559 ++AlaAspSerLeuPro{G}-+ 857518 : .....................aggcagattctttacca{g}ct............. : 1028197 193 : ntron 21 >>>> {is}His : 193 23 bp {!.}||| ++{lu}His 1028198 : .............ag{aa}cat : 1184122 vulgar: SPP00000025_1.0 2 193 . NIVO01008816.1:subseq(494279,1406561) 46350 1184122 + 108 M 12 36 S 0 2 5 0 2 I 0 4709 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 34623 3 0 2 S 1 2 M 15 45 S 0 1 5 0 2 I 0 17426 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 6999 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 6317 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 11948 3 0 2 S 1 1 M 4 12 5 0 2 I 0 84614 3 0 2 M 18 54 5 0 2 I 0 50022 3 0 2 M 3 9 S 0 2 5 0 2 I 0 25172 3 0 2 S 1 1 M 21 63 5 0 2 I 0 40612 3 0 2 S 0 2 5 0 2 I 0 124759 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 23721 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 10880 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 50260 3 0 2 S 1 2 M 1 3 5 0 2 I 0 19709 3 0 2 M 13 39 S 0 1 5 0 2 I 0 31868 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 36377 3 0 2 S 1 2 M 28 84 5 0 2 I 0 117671 3 0 2 M 3 9 S 0 2 5 0 2 I 0 112849 3 0 2 S 1 1 M 6 18 5 0 2 I 0 170660 3 0 2 M 5 15 S 0 1 5 0 2 I 0 155919 3 0 2 S 1 2 M 1 3 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 46351 1184122 108 + . gene_id 19 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 46351 46388 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 46351 46388 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 46389 46390 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 46389 51101 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 51100 51101 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 51102 51115 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 51102 51115 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 51116 51117 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 51116 85742 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 85741 85742 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 85743 85790 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 85743 85790 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 85791 85792 . + . intron_id 3 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 85791 103220 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 103219 103220 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 103221 103239 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 103221 103239 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 103240 103241 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 103240 110242 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 110241 110242 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 110243 110248 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 110243 110248 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 110249 110250 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 110249 116569 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 116568 116569 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 116570 116584 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 116570 116584 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 116585 116586 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 116585 128536 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 128535 128536 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 128537 128549 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 128537 128549 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 128550 128551 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 128550 213167 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 213166 213167 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 213168 213221 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 213168 213221 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 213222 213223 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 213222 263247 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 263246 263247 . + . intron_id 7 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 263248 263258 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 263248 263258 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 263259 263260 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 263259 288434 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 288433 288434 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 288435 288498 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 288435 288498 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 288499 288500 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 288499 329114 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 329113 329114 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 329115 329116 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 329115 329116 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 329117 329118 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 329117 453879 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 453878 453879 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 453880 453911 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 453880 453911 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 453912 453913 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 453912 477636 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 477635 477636 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 477637 477675 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 477637 477675 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 477676 477677 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 477676 488559 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 488558 488559 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 488560 488574 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 488560 488574 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 488575 488576 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 488575 538838 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 538837 538838 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 538839 538843 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 538839 538843 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 538844 538845 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 538844 558556 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 558555 558556 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 558557 558596 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 558557 558596 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 558597 558598 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 558597 590468 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 590467 590468 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 590469 590489 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 590469 590489 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 590490 590491 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 590490 626870 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 626869 626870 . + . intron_id 16 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 626871 626956 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 626871 626956 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 626957 626958 . + . intron_id 18 ; splice_site "gc" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 626957 744631 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 744630 744631 . + . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 744632 744642 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 744632 744642 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 744643 744644 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 744643 857495 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 1028178 . + . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1028177 1028178 . + . intron_id 19 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1028179 1028194 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1028179 1028194 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1028195 1028196 . + . intron_id 21 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1028195 1184117 . + . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1184116 1184117 . + . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1184118 1184122 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1184118 1184122 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 46351 1184122 108 + . alignment_id 19 ; Query SPP00000025_1.0 ; Align 46351 3 36 ; Align 51103 16 12 ; Align 85745 21 45 ; Align 103223 37 15 ; Align 110244 43 3 ; Align 116571 45 12 ; Align 128538 50 12 ; Align 213168 54 54 ; Align 263248 72 9 ; Align 288436 76 63 ; Align 453881 98 30 ; Align 477639 109 36 ; Align 488562 122 12 ; Align 538841 127 3 ; Align 558557 128 39 ; Align 590471 142 18 ; Align 626873 149 84 ; Align 744632 177 9 ; Align 857497 181 18 ; Align 1028179 187 15 ; Align 1184120 193 3 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 107 Query range: 32 -> 192 Target range: 26333 -> 601314 33 : MetGlnTyrAlaThrGlyProLeuLeuLysPheGlnIleCysValSerUnkGlyTyrA : 52 .!.:!! ! !||| ! !!|||:!!:!!.!! !||| ! !||| !! ! PheGluValIleThrPheThrLeuIleGlnIleLeuIleIleGlnSerLeuTyrLeuS 26334 : TTTGAAGTTATTACATTTACATTGATACAGATTTTAATTATCCAGAGCTTATATTTAA : 26391 53 : rgArgValPheGluGluTyrMetArgValIleSerGlnArgTyrPro{A} >>>> T : 68 ||| |||::: ::: !:!!:!!!!!:!!|||||| !!{|} er***ValLysGluLysAsnLeuGlyIleLeu***GluArgTyrThr{A}++ 26392 : gctaagtaaaagaaaagaatttaggAATACTTTGAGAGAGATACACA{G}gt...... : 26442 69 : arget Intron 1 >>>> {sp}IleArgIle{G} >>>> Target Intron : 72 4922 bp {||}:!:..!:!:{|} 19728 bp ++{sp}LeuGluVal{G}++ 26443 : ...................ag{AT}CTGGAAGTG{G}gt................... : 31376 73 : 2 >>>> {lu}GlyGlu{A} >>>> Target Intron 3 >>>> {sn}TyrL : 77 {||}! !! {.} 8204 bp {..}|||| ++{lu}AspGly{G}++ ++{ly}TyrL 31377 : ......ag{aA}GACGGT{G}gt.........................ag{gg}tatc : 59320 78 : euProGlnPro{I} >>>> Target Intron 4 >>>> {le}TyrArg{H} : 84 ||||| |||{:} 15033 bp {!:}|||!:!{ } euProGlyPro{V}+- ++{al}TyrLys{A}++ 59321 : ttcctggccca{g}gg.........................ag{TG}TACAAG{G}gt : 74375 85 : >>>> Target Intron 5 >>>> {is}IleAlaSerPheLeuSerValPheLys : 93 13897 bp {!!}::: ||| ||||||:::||| ++{sp}Leu***SerThrLeuSerLeuPheLeu 74376 : .........................ag{at}ctttaatccactttgagtttatttttg : 88298 94 : LeuValLeuIleGlyLeuIleIleValGlyLysAspProPheAlaPhePheGly{Me} : 112 |||::::::||| ::::::|||.!! !! ! ...|||||| {!!} CysValValLeuGlySerValLeuValSerValHisIleLysValPhePheTyr{Il} 88299 : tgtgtagtgttaggaagtgttcttgTAAGTGTTCATATAAAAgtgttcttttac{at} : 88355 113 : >>>> Target Intron 6 >>>> {t}GlnAlaProSerIleTrpGlnTrpGl : 121 71331 bp {:}.!..!!||| ! !::! !:: ++ ++{e}HisThrProValGluTyrProPhePr 88356 : gt.........................ag{c}cATACTCCTGTGGAGTATCCCTTCCC : 159713 122 : yGlnGlu >>>> Target Intron 7 >>>> AsnLysValTyrAlaCysMetM : 131 !|||||| 37942 bp ||| !!! !||||||:!! oGlnGlu++ ++AlaLysPheSerAlaCysLeuA 159714 : TCAGGAGgt.........................agGCGAAGTTCTCCGCCTGCTTGC : 197685 132 : etValPhePheLeuSerAsnMetIleGluAsnGln{Cy} >>>> Target Intro : 143 ||| .!. !!!!!..||| !:!!||| {||} 45048 bp rgValProMetSerArgThrMetAlaLysAsnCys{Cy}++ 197686 : GAGTGCCGATGAGCAGGACGATGGCAAAGAACTGC{TG}gt................. : 197725 144 : n 8 >>>> {s}MetSerThrGlyAlaPheGluIleThrLeu{As} >>>> Targ : 154 {|}|||||| ! ! ! !! !|||! !|||{!.} 1 ++{s}MetSerTrpLeuHisGlyGlyIleArgLeu{Ar}++ 197726 : ........ag{T}ATGAGTTGGCTCCATGGTGGGATTAGGTTG{AG}gt......... : 242806 155 : et Intron 9 >>>> {n}AspValProValTrpSerLysLeuGluSer{G} >> : 165 37366 bp {.}:::||||||||||||! !:!!|||...|||{|} ++{g}GluValProValTrpLeuGluLeuSerSer{G}++ 242807 : ................ag{g}gaagtcccagtatggTTAGAACTTTCTTCT{G}gt.. : 380204 166 : >> Target Intron 10 >>>> {ly}HisLeuProSerMetGlnGln >>>> : 173 40222 bp {||}:::||||||::: :::::: ++{ly}AsnLeuProAsnProArgLys+- 380205 : ........................ag{ga}aatcttcccaacccaagaaaggc..... : 420449 174 : Target Intron 11 >>>> LeuValGlnIleLeuAspAsn >>>> Target : 180 19622 bp |||:!!||||||||| ! .!. 121 ++LeuMetGlnIleLeuLysGlu++ 420450 : .....................agTTAATGCAGATACTAAAGGAGgt............ : 440092 181 : Intron 12 >>>> GluMet >>>> Target Intron 13 >>>> LysLeu : 183 429 bp ::: 39757 bp !||| ++LeuLeu++ ++AlaLeu 440093 : ..............agcttctggt..........................agGCATTG : 601285 184 : AsnValHisMetAspSerIleProHis : 192 |||:!!|||||| !.!:!!|||||| AsnLeuHisMetIleLysValProHis 601286 : AACCTGCATATGATAAAGGTCCCTCAT : 601314 vulgar: SPP00000025_1.0 32 192 . NIVO01008816.1:subseq(494279,1406561) 26333 601314 + 107 M 35 105 S 0 1 5 0 2 I 0 4918 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 19724 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 8200 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 15029 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 13893 3 0 2 S 1 2 M 27 81 S 0 2 5 0 2 I 0 71327 3 0 2 S 1 1 M 11 33 5 0 2 I 0 37938 3 0 2 M 19 57 S 0 2 5 0 2 I 0 45044 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 137362 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 40218 3 0 2 S 1 2 M 7 21 5 0 2 I 0 19618 3 0 2 M 7 21 5 0 2 I 0 121425 3 0 2 M 2 6 5 0 2 I 0 39753 3 0 2 M 11 33 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 26334 601314 107 + . gene_id 20 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 26334 26439 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 26334 26439 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 26440 26441 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 26440 31361 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 31360 31361 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 31362 31373 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 31362 31373 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 31374 31375 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 31374 51101 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 51100 51101 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 51102 51110 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 51102 51110 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 51111 51112 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 51111 59314 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 59313 59314 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 59315 59332 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 59315 59332 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 59333 59334 . + . intron_id 4 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 59333 74365 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 74364 74365 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 74366 74374 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 74366 74374 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 74375 74376 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 74375 88271 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 88270 88271 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 88272 88356 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 88272 88356 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 88357 88358 . + . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 88357 159687 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159686 159687 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159688 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159688 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 197663 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 197662 197663 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 197664 197722 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 197664 197722 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 197723 197724 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 197723 242770 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 242769 242770 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 242771 242803 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 242771 242803 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 242804 242805 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 242804 380169 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 380168 380169 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 380170 380201 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 380170 380201 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 380202 380203 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 380202 420423 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 420422 420423 . + . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 420424 420446 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 420424 420446 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 420447 420448 . + . intron_id 11 ; splice_site "gc" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 420447 440068 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 440067 440068 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 440069 440089 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 440069 440089 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 440090 440091 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 440090 561518 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 601281 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 601280 601281 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 601282 601314 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 601282 601314 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 26334 601314 107 + . alignment_id 20 ; Query SPP00000025_1.0 ; Align 26334 33 105 ; Align 31364 69 9 ; Align 51104 73 6 ; Align 59317 76 15 ; Align 74368 82 6 ; Align 88274 85 81 ; Align 159689 113 33 ; Align 197664 124 57 ; Align 242772 144 30 ; Align 380171 155 30 ; Align 420426 166 21 ; Align 440069 173 21 ; Align 561519 180 6 ; Align 601282 182 33 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 107 Query range: 3 -> 168 Target range: 207920 -> 1264399 4 : LeuLeuLeuLeuLeuVal{A} >>>> Target Intron 1 >>>> {la}Al : 11 ...|||||||||||||||{ } 80545 bp { !} PheLeuLeuLeuLeuVal{L}++ ++{eu}Gl 207921 : tttttgttgttgctggtt{t}gt.........................ag{tg}ga : 288487 12 : aSerAlaMetValArgSerGluAlaSerAlaAsnLeuGlyGlyValProSerLysA : 30 ..! !:!!|||||||||||| !..!!.! :!! !! !||||||! ! ! uGlnIleLeuValArgSerGluLeuGluGlyProValGlnValValProLeuLeuA 288488 : gcAGATCCTGGTAAGGTCTGAACTGGAGGGTCCAGTCCAGGTGGTTCCCTTGTTAG : 288544 31 : rgLeuLysMetGlnTyrAla{T} >>>> Target Intron 2 >>>> {hr} : 37 !|||||| !||| !:!!{ } 179048 bp { !} laLeuLysGlyGlnProSer{A}++ ++{sp} 288545 : CCCTAAAAGGGCAGCCCTCT{G}gt.........................ag{at} : 467614 38 : GlyProLeuLeuLysPheGlnIle >>>> Target Intron 3 >>>> Cys : 46 ||| ... |||:::|||:!: 104557 bp ||| GlyMetPheTyrLysTyrGlnLeu-+ ++Cys 467615 : ggaatgttctataaatatcaacTGat.........................agTGC : 572197 47 : ValSerUnkGlyTyrArg >>>> Target Intron 4 >>>> ArgValPhe : 55 :!!!!! ||||||!:! 67034 bp :::||| LeuThrGlyGlyTyrGln++ ++GlyIlePhe 572198 : TTGACTGGAGGTTATCAGgt.........................aggggatcttc : 639258 56 : GluGluTyrMetArgValIleSer{G} >>>> Target Intron 5 >>>> : 64 ::: |||:::{ } 106926 bp ProThrGlnIleTyrCysIleAla{G}++ ++ 639259 : ccaacccagatttattgcattgca{g}gt.........................ag : 746210 65 : {ln}ArgTyrProAspIleArgIleGluGlyGluAsnTyrLeuProGlnProIleT : 82 { !} |||||| ...|||::: |||::::::::: ::: {ly}AspLeuProAspProGluIleLysValGluSerPheMetSerProAlaLeuA 746211 : {gg}gatcttcctgacccagagattaaagttgagtcttttatgtctcctgcattgg : 746265 83 : yr{A} >>>> Target Intron 6 >>>> {rg}HisIleAlaSerPhe{Le : 89 {.} 111227 bp {.!} :!!..! !! !{ la{G}++ ++{lu}SerValCysHisSer{Se 746266 : ca{g}gt.........................ag{AA}TCAGTCTGTCACTCC{AG : 857513 90 : } >>>> Target Intron 7 >>>> {u}SerValPheLysLeuValLeuIl : 97 } 10189 bp {!} ! ! ! ! ||||||!!!.! }++ ++{r}ValArgAsnHisLeuValPhePh 857514 : }gt.........................ag{T}GTACGCAATCATCTTGTGTTCTT : 867726 98 : eGlyLeuIleIle >>>> Target Intron 8 >>>> ValGlyLysAspPr : 106 !|||:!!|||:!! 52672 bp !!.!|||||||| eGlyIleIleLeu+- ++LysAlaLysAspPr 867727 : TGGAATAATACTAga.........................agAAAGCTAAAGATCC : 920425 107 : oPheAlaPhePheGlyMet{G} >>>> Target Intron 9 >>>> {ln}A : 114 | !|||.!!.!!..! {.} 1919 bp {!.} oHisAlaLeuIleSerGlu{A}+- +-{sp}L 920426 : TCATGCACTCATTTCAGAA{G}ga.........................ac{AT}C : 922368 115 : laProSerIleTrpGlnTrpGlyGlnGluAsn >>>> Target Intron 10 : 125 !||| ||| ||||||... !.!. 2662 bp euProTrpAlaTrpGlyTrpGlyHisMetGln+- 922369 : TGCcgtgggcgtgggggtgggggcataTGCAGgg...................... : 922403 126 : >>>> LysValTyrAlaCysMetMetValPhePheLeuSerAsnMetIleGluAs : 141 ! ! !||| ...:::||||||||| ::::::::::::.. ++AspGlyTyrMetGlyHisPheLeuPhePheLeuLeuSerValLeuLysLy 922404 : ....agGATGGTTACATgggtcattttttgttttttttgctgtcagttttaaaaaa : 925111 142 : nGlnCys{M} >>>> Target Intron 11 >>>> {et}SerThrGlyAla : 148 .... {:} 138342 bp {!:}|||!:!||| ! sAsnTyr{L}++ -+{eu}SerSerGlyAsn 925112 : gaactat{t}gt..........................tg{TA}AGTAGTGGCAAT : 1063474 149 : PheGluIleThrLeuAsnAsp{V} >>>> Target Intron 12 >>>> {a : 156 |||! :!:||| !.!.! {|} 83545 bp {| PheGlyValThrAlaGluGly{V}++ ++{a 1063475 : TTTGGTGTGACTGCAGAAGGA{G}gt..........................ag{T : 1147044 157 : l}ProValTrpSerLysLeuGluSer{G} >>>> Target Intron 13 >>> : 165 |}||||||! !! !!.. |||:::{|} 117318 bp l}ProValLeuPheSerThrGluThr{G}+- 1147045 : C}CCAGTTTTGTTTAgcacagaaaca{g}ga......................... : 1147073 166 : > {ly}HisLeuPro : 168 {||}||||||||| ++{ly}HisLeuPro 1147074 : .ag{gg}catcttcct : 1264399 vulgar: SPP00000025_1.0 3 168 . NIVO01008816.1:subseq(494279,1406561) 207920 1264399 + 107 M 6 18 S 0 1 5 0 2 I 0 80541 3 0 2 S 1 2 M 26 78 S 0 1 5 0 2 I 0 179044 3 0 2 S 1 2 M 8 24 5 0 2 I 0 104553 3 0 2 M 7 21 5 0 2 I 0 67030 3 0 2 M 11 33 S 0 1 5 0 2 I 0 106922 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 111223 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 10185 3 0 2 S 1 1 M 12 36 5 0 2 I 0 52668 3 0 2 M 11 33 S 0 1 5 0 2 I 0 1915 3 0 2 S 1 2 M 11 33 5 0 2 I 0 2658 3 0 2 M 19 57 S 0 1 5 0 2 I 0 138338 3 0 2 S 1 2 M 11 33 S 0 1 5 0 2 I 0 83541 3 0 2 S 1 2 M 8 24 S 0 1 5 0 2 I 0 117314 3 0 2 S 1 2 M 3 9 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 207921 1264399 107 + . gene_id 21 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 207921 207939 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 207921 207939 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 207940 207941 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 207940 288484 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 288483 288484 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 288485 288565 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 288485 288565 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 288566 288567 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 288566 467613 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 467612 467613 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 467614 467639 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 467614 467639 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 467640 467641 . + . intron_id 3 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 467640 572196 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 572195 572196 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 572197 572217 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 572197 572217 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 572218 572219 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 572218 639251 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 639250 639251 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 639252 639285 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 639252 639285 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 639286 639287 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 639286 746211 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746210 746211 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 746212 746268 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 746212 746268 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746269 746270 . + . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746269 857495 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 867703 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 867702 867703 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 867704 867740 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 867704 867740 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 867741 867742 . + . intron_id 8 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 867741 920412 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 920411 920412 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 920413 920446 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 920413 920446 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 920447 920448 . + . intron_id 9 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 920447 922365 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 922364 922365 . + . intron_id 8 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 922366 922400 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 922366 922400 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 922401 922402 . + . intron_id 10 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 922401 925062 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 925061 925062 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 925063 925120 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 925063 925120 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 925121 925122 . + . intron_id 11 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 925121 1063462 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1063461 1063462 . + . intron_id 10 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1063463 1063498 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1063463 1063498 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1063499 1063500 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1063499 1147043 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1147042 1147043 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1147044 1147070 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1147044 1147070 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1147071 1147072 . + . intron_id 13 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1147071 1264388 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1264387 1264388 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1264389 1264399 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1264389 1264399 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 207921 1264399 107 + . alignment_id 21 ; Query SPP00000025_1.0 ; Align 207921 4 18 ; Align 288487 11 78 ; Align 467616 38 24 ; Align 572197 46 21 ; Align 639252 53 33 ; Align 746214 65 54 ; Align 857498 84 15 ; Align 867705 90 36 ; Align 920413 102 33 ; Align 922368 114 33 ; Align 925063 125 57 ; Align 1063465 145 33 ; Align 1147046 157 24 ; Align 1264391 166 9 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 105 Query range: 0 -> 195 Target range: 141020 -> 1055201 1 : MetArgLeuLeuLeuLeuLeuLeuVal >>>> Target Intron 1 >>>> : 10 ::: ||||||||||||||||||::: 18640 bp LeuLeuLeuLeuLeuLeuLeuLeuLeu-+ ++ 141021 : ctgctgctgctgctgctgctgctgctgct.........................ag : 159686 11 : AlaAlaSerAlaMetValArgSerGluAlaSer{A} >>>> Target Intron : 21 ! !|||..! ||| ! ! :!!.!!{|} 55342 bp ProTyrSerCysGlyValSerLeuProSerGly{A}++ 159687 : ccATACTCCTGTGGAGTATCCCTTCCCTCAGGA{G}gt.................. : 159724 22 : 2 >>>> {la}AsnLeuGlyGlyValProSerLysArg{Le} >>>> Targe : 31 {||}...||| !|||!.!|||!!! !:!{ } 8 ++{la}ThrLeuProGlyAlaProThrCysGln{Gl}++ 159725 : .......ag{ct}acacTCCCCGGGGCTCCCACGTGTCAG{GG}gt.......... : 215097 32 : t Intron 3 >>>> {u}LysMetGlnTyrAlaThrGlyProLeuLeuLysPhe : 43 5353 bp {!}!:! ! ! ! !.!! !||||||:!! ! !! ++{y}ArgAlaLeuGluGlyArgGlyProValAlaGlyVal 215098 : ...............ag{A}AGAGCTCTAGAGGGAAGAGGGCCTGTGGCTGGTGTT : 300482 44 : GlnIleCysValSerUnkGlyTyr{Ar} >>>> Target Intron 4 >>>> : 52 !|||:!!||| !.! !{||} 28604 bp AlaHisCysIleSerLeuAlaPro{Ar}++ + 300483 : GCTCACTGTATCTCTCTAGCACCC{AG}gt.........................a : 329113 53 : {g}{A} >>>> Target Intron 5 >>>> {rg}ValPheGluGluTyrM : 59 {|}{ } 63858 bp { !} !!|||:!!||| ! +{g}{A}++ ++{sp}PhePheLysGluLysT 329114 : g{A}{G}gt.........................ag{AC}TTCTTCAAAGAGAAAT : 392992 60 : et >>>> Target Intron 6 >>>> ArgValIleSerGlnArgTyrPro{ : 68 959 bp ::: ...||| |||!:! !!{ yr++ ++LysPhePheSerPheArgPheAla{ 392993 : ATgt.........................agaaattttttagttttaggTTTGCA{ : 393978 69 : A} >>>> Target Intron 7 >>>> {sp}IleArgIleGlu >>>> Ta : 73 !} 108733 bp {!:} !..!:!!||| G}-+ ++{lu}AlaGluLeuGlu++ 393979 : G}tt.........................ag{AA}GCAGAGCTTGAGgt....... : 502728 74 : rget Intron 8 >>>> GlyGluAsnTyrLeuProGlnProIleTyrArg > : 84 42294 bp !.!!!:::!! !||||||||| ! !|||! ! ++AlaAspSerSerLeuProGlnGlySerTyrThr++ 502729 : ..................agGCTGACTCTTCTCTGCCCCAGGGCTCCTACACGgt. : 545055 85 : >>> Target Intron 9 >>>> HisIleAlaSerPheLeuSerValPheLys : 93 11325 bp ! .!! !|||!:::!!!:!:!! ! ++ProPheHisSerTrpIleAsnLeuThrGly 545056 : ........................agCCATTTCATTCATGGATTAATCTCACAGGG : 556405 94 : LeuVal{Le} >>>> Target Intron 10 >>>> {u}IleGlyLeuIleI : 101 |||:!!{ } 117241 bp {!}! !|||!!!:!!: LeuLeu{Ar}++ ++{g}ThrGlyPheValL 556406 : TTGTTG{AG}gt..........................ag{A}ACAGGATTTGTTT : 673670 102 : leValGlyLysAspProPheAlaPhePheGlyMetGlnAlaProSerIleTrpGln : 119 !:..!|||!.. ! ! !.!.|||||| ! ! !.!!.!!|||||| euThrGlySerCysAsnGluLeuLeuPheGlySerValTyrArgGlyPheTrpGln 673671 : TGACTGGCAGCTGTAATGAGCTTCTGTTTGGCTCTGTGTATAGGGGATTCTGGCAA : 673724 120 : Trp{G} >>>> Target Intron 11 >>>> {ly}GlnGluAsn >>>> : 125 !! {|} 35514 bp {||}::!|||||| Cys{G}++ ++{ly}ArgGluAsn++ 673725 : TGT{G}gt..........................ag{GC}AGAGAAAATgt..... : 709258 126 : Target Intron 12 >>>> LysValTyrAlaCysMetMetValPhePheLeu : 135 17186 bp :!!!:! ! :!!! |||!:!|||||| ++ValIlePhePheThrLeuAsnValTyrPheLeu 709259 : .....................agGTTATATTCTTCACATTGAATGTGTATTTTCTC : 726472 136 : Ser{As} >>>> Target Intron 13 >>>> {n}MetIleGluAsnGlnC : 143 !!!{||} 30052 bp {|}! !! !.. | Arg{As}++ ++{n}SerAlaGlyArgCysC 726473 : AGA{AA}gt..........................ag{T}AGTGCAGGTAGGTGTT : 756548 144 : ysMetSerThrGlyAlaPheGluIle >>>> Target Intron 14 >>>> : 152 ||:!:!!!:!! !! !|||.!.:!: 100921 bp ysLeuTrpSerArgLeuPheHisLeu++ ++ 756549 : GTCTTTGGTCTAGACTGTTCCATCTGgt..........................ag : 857494 153 : ThrLeuAsnAspValPro{V} >>>> Target Intron 15 >>>> {al}T : 159 !.!! !::!! !..!|||{|} 40112 bp {||}| AsnGlnSerValThrPro{V}++ ++{al}T 857495 : AATCAGTCTGTCACTCCA{G}gt..........................ag{TA}T : 897629 160 : rpSer{L} >>>> Target Intron 16 >>>> {ys}LeuGluSerGlyHi : 166 |||||{:} 2599 bp {::}||||||! ! !|| rpSer{A}++ +-{rg}LeuGluIleIleHi 897630 : GGAGC{C}gt..........................aa{gc}CTGGAAATAATTCA : 900249 167 : sLeu >>>> Target Intron 17 >>>> ProSerMetGlnGlnLeuValG : 175 |||| 66886 bp ||||||::: :::: sLeu+- -+ProSerIlePheProSerIleA 900250 : TCTGgc..........................tgccttcaatctttcccagcatca : 967162 176 : lnIleLeuAspAsnGluMetLysLeuAsnVal{Hi} >>>> Target Intron : 186 :::::......|||||| |||...:::{..} 87977 bp rgValPheSerAsnGluSerValLeuArgIle{Ar}++ 967163 : gggtcttttcaaatgagtcagttcttcgcatc{ag}gt.................. : 967199 187 : 18 >>>> {s}MetAspSerIleProHisHisArgSer : 195 {.} ...||| |||...:::|||::: ++{g}GlySerSer***ProArgAsnArgThr 967200 : ........ag{g}ggatcttcctgacccaggaatcgaacc : 1055201 vulgar: SPP00000025_1.0 0 195 . NIVO01008816.1:subseq(494279,1406561) 141020 1055201 + 105 M 9 27 5 0 2 I 0 18636 3 0 2 M 11 33 S 0 1 5 0 2 I 0 55338 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 85349 3 0 2 S 1 1 M 20 60 S 0 2 5 0 2 I 0 28600 3 0 2 S 1 2 5 0 2 I 0 63854 3 0 2 S 1 2 M 6 18 5 0 2 I 0 955 3 0 2 M 8 24 S 0 1 5 0 2 I 0 108729 3 0 2 S 1 2 M 4 12 5 0 2 I 0 42290 3 0 2 M 11 33 5 0 2 I 0 11321 3 0 2 M 12 36 S 0 2 5 0 2 I 0 117237 3 0 2 S 1 1 M 24 72 S 0 1 5 0 2 I 0 35510 3 0 2 S 1 2 M 3 9 5 0 2 I 0 17182 3 0 2 M 12 36 S 0 2 5 0 2 I 0 30048 3 0 2 S 1 1 M 14 42 5 0 2 I 0 100917 3 0 2 M 6 18 S 0 1 5 0 2 I 0 40108 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 2595 3 0 2 S 1 2 M 6 18 5 0 2 I 0 66882 3 0 2 M 18 54 S 0 2 5 0 2 I 0 87973 3 0 2 S 1 1 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 141021 1055201 105 + . gene_id 22 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 141021 141047 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 141021 141047 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 141048 141049 . + . intron_id 1 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 141048 159687 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159686 159687 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159688 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159688 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 215063 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 215062 215063 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 215064 215094 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 215064 215094 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 215095 215096 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 215095 300447 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 300446 300447 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 300448 300510 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 300448 300510 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 300511 300512 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 300511 329114 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 329113 329114 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 329115 329116 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 329115 329116 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 329117 329118 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 329117 392974 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 392973 392974 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 392975 392994 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 392975 392994 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 392995 392996 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 392995 393953 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 393952 393953 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 393954 393978 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 393954 393978 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 393979 393980 . + . intron_id 7 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 393979 502711 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 502710 502711 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 502712 502725 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 502712 502725 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 502726 502727 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 502726 545019 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 545018 545019 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 545020 545052 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 545020 545052 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 545053 545054 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 545053 556377 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 556376 556377 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 556378 556415 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 556378 556415 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 556416 556417 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 556416 673656 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 673655 673656 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 673657 673730 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 673657 673730 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 673731 673732 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 673731 709244 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 709243 709244 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 709245 709255 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 709245 709255 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 709256 709257 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 709256 726441 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 726440 726441 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 726442 726479 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 726442 726479 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 726480 726481 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 726480 756531 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 756530 756531 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 756532 756574 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 756532 756574 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 756575 756576 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 756575 857495 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 897626 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 897625 897626 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 897627 897635 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 897627 897635 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 897636 897637 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 897636 900234 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900233 900234 . + . intron_id 15 ; splice_site "aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900235 900254 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900235 900254 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900255 900256 . + . intron_id 17 ; splice_site "GC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900255 967140 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 967139 967140 . + . intron_id 16 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 967141 967196 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 967141 967196 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 967197 967198 . + . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 967197 1055173 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1055172 1055173 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1055174 1055201 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1055174 1055201 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 141021 1055201 105 + . alignment_id 22 ; Query SPP00000025_1.0 ; Align 141021 1 27 ; Align 159688 10 33 ; Align 215066 22 27 ; Align 300449 32 60 ; Align 392977 54 18 ; Align 393954 60 24 ; Align 502714 69 12 ; Align 545020 73 33 ; Align 556378 84 36 ; Align 673658 97 72 ; Align 709247 122 9 ; Align 726442 125 36 ; Align 756533 138 42 ; Align 857496 152 18 ; Align 897629 159 6 ; Align 900237 162 18 ; Align 967141 168 54 ; Align 1055175 187 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 110 Query range: 9 -> 164 Target range: 31380 -> 1357711 10 : AlaAlaSerAlaMetValArgSerGluAlaSerAlaAsnLeuGly{Gl} >>>> : 25 |||||||||:!!.!. !! ! ! !.!|||:!!:!: |||{.!} AlaAlaSerSerPheCysLeuLeuThrValSerSerHisSerGly{Se}++ 31381 : GCTGCTTCCTCGTTCTGTCTTCTTACTGTGTCCTCACAcagtggc{ag}gt..... : 31430 26 : Target Intron 1 >>>> {y}ValProSer{Ly} >>>> Target Intr : 29 24864 bp {!}:!!|||! !{!:} 103415 b ++{r}LeuProLeu{Ar}++ 31431 : ....................ag{T}TTGCCATTA{AG}gt................ : 56306 30 : on 2 >>>> {s}{Ar} >>>> Target Intron 3 >>>> {g}LeuLys : 32 p {!}{||} 90751 bp {|}:!! ! ++{g}{Ar}++ ++{g}ValLeu 56307 : .........ag{G}{AG}gt.........................ag{A}GTGTTG : 250477 33 : MetGlnTyrAlaThrGlyProLeuLeu{Ly} >>>> Target Intron 4 >> : 42 :!! ! !||| |||||| {!:} 183605 bp LeuCysLeuLysThrArgProLeuLys{Ar}++ 250478 : CTGTGTTTGAAGACaaggcctttaaag{ag}gt....................... : 250511 43 : >> {s}PheGlnIleCysValSerUnkGlyTyr{Ar} >>>> Target Intr : 52 {!} ||| |||::!||| ... {||} 17955 b ++{g}AspGlnSerCysIleSerHisAlaGly{Ar}++ 250512 : ..ag{g}gatcaatcctgcatCTCCcacgctggc{ag}gt................ : 434146 53 : on 5 >>>> {g}{A} >>>> Target Intron 6 >>>> {rg}ValPhe : 55 p {|}{|} 83799 bp {||}:!!||| ++{g}{A}++ ++{rg}IlePhe 434147 : .........ag{A}{A}gt.........................ag{GG}ATCTTT : 535905 56 : GluGluTyrMetArgValIleSerGlnArg{Ty} >>>> Target Intron 7 : 66 ||||||! !:!! !|||! !..!|||!:!{ } 41846 bp GluGluSerLeuAspValThrGlnGlnLys{Se}++ 535906 : GAGGAGTCCTTGGATGTGACCCAACAAAAA{AG}gt.................... : 535942 67 : >>>> {r}ProAspIle{A} >>>> Target Intron 8 >>>> {rg}I : 71 {!}||||||:!!{ } 66638 bp {!!}: ++{r}ProAspLeu{G}++ ++{ly}V 535943 : .....ag{C}CCAGATCTT{G}gt.........................ag{gG}G : 644437 72 : leGluGly >>>> Target Intron 9 >>>> GluAsnTyrLeuProGlnP : 80 !:||| ! 158559 bp :!!... |||||| !| alGluLys++ ++LysArgLeuLeuProLeuP 644438 : TGGAGAAGgt.........................agAAACGGCTACTGCCTTTGC : 803023 81 : roIle{Ty} >>>> Target Intron 10 >>>> {r}Arg{Hi} >>>> : 84 || {:!} 30757 bp {!}|||{..} ro***{Hi}++ ++{s}Arg{Ar}++ 803024 : CCTAG{CA}gt..........................ag{C}CGC{AG}gt..... : 833796 85 : Target Intron 11 >>>> {s}IleAlaSerPheLeuSer >>>> Targe : 91 23702 bp {.}|||::! !! |||..! 1 ++{g}IleSerLeuSerLeuGln++ 833797 : .....................ag{A}ATCAGTCTGTCACTCCAGgt.......... : 857517 92 : t Intron 12 >>>> ValPheLysLeuValLeuIleGlyLeuIleIleVal{G : 103 99076 bp :::||| ::::::|||||| !||||||:::...{| +-LeuPheValValIleLeuIleThrLeuIleLeuThr{G 857518 : ................aattgtttgttgttattttgaTTACActcattttgact{g : 1056627 104 : } >>>> Target Intron 13 >>>> {ly}LysAspProPheAlaPhePhe : 110 } 46847 bp {||} :::|||... ...... }++ ++{ly}ValGluProMetProLeuMet 1056628 : }gt..........................ag{gg}gtcgaacccatgcctcttatg : 1103495 111 : GlyMetGlnAlaPro{S} >>>> Target Intron 14 >>>> {er}Ile{ : 118 ... {:} 94697 bp {!!}|||{ SerProAlaLeuGly{A}++ ++{la}Ile{ 1103496 : tctcctgcattggga{g}gt..........................ag{ct}att{ : 1198216 119 : T} >>>> Target Intron 15 >>>> {rp}GlnTrpGlyGlnGlu >>> : 124 |} 31286 bp {||}...|||... ::: T}++ ++{rp}AspTrpAsnAlaLys++ 1198217 : t}gt..........................ag{gg}gactggaatgcaaaagt... : 1229522 125 : > Target Intron 16 >>>> AsnLysValTyrAlaCysMetMetValPheP : 134 101301 bp ..!|||:!!||| ::: |||| ++GlyLysIleTyrIleIleTyrLeuLysPheP 1229523 : .......................agGGTAAGATCTAcatcatttatttgaaattct : 1330851 135 : he{L} >>>> Target Intron 17 >>>> {eu}SerAsnMetIleGluAs : 141 ||{|} 26768 bp {||}|||...:::...|||:: he{L}++ ++{eu}SerArgLeuPheGluSe 1330852 : tc{t}gt..........................ag{tg}agtcggctctttgaatc : 1357640 142 : nGlnCysMetSerThrGlyAlaPheGluIleThrLeuAsnAspValProValTrpS : 160 :... ... |||||| ...::::::::: :::| rSerGlyGlnCysIleGlyAlaSerAlaPheSerIleSerHisSerAsnGluTyrS 1357641 : aagtggccaatgtattggagcttcagctttcagcatcagtcattctaatgaatatt : 1357697 161 : erLysLeuGluSer : 164 ||:::||| ||| erArgLeuIleSer 1357698 : caaggttgatttcc : 1357711 vulgar: SPP00000025_1.0 9 164 . NIVO01008816.1:subseq(494279,1406561) 31380 1357711 + 110 M 15 45 S 0 2 5 0 2 I 0 24860 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 103411 3 0 2 S 1 3 5 0 2 I 0 90747 3 0 2 S 1 1 M 11 33 S 0 2 5 0 2 I 0 183601 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 17951 3 0 2 S 1 2 5 0 2 I 0 83795 3 0 2 S 1 2 M 12 36 S 0 2 5 0 2 I 0 41842 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 66634 3 0 2 S 1 2 M 3 9 5 0 2 I 0 158555 3 0 2 M 8 24 S 0 2 5 0 2 I 0 30753 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 23698 3 0 2 S 1 1 M 6 18 5 0 2 I 0 199072 3 0 2 M 12 36 S 0 1 5 0 2 I 0 46843 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 94693 3 0 2 S 1 2 M 1 3 S 0 1 5 0 2 I 0 31282 3 0 2 S 1 2 M 5 15 5 0 2 I 0 101297 3 0 2 M 11 33 S 0 1 5 0 2 I 0 26764 3 0 2 S 1 2 M 29 87 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 31381 1357711 110 + . gene_id 23 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 31381 31427 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 31381 31427 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 31428 31429 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 31428 56291 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 56290 56291 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 56292 56303 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 56292 56303 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 56304 56305 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 56304 159718 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 250472 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 250471 250472 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 250473 250508 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 250473 250508 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 250509 250510 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 250509 434113 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 434112 434113 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 434114 434143 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 434114 434143 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 434144 434145 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 434144 452098 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 452097 452098 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 452099 452100 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 452099 452100 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 452101 452102 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 452101 535899 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 535898 535899 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 535900 535939 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 535900 535939 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 535940 535941 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 535940 577785 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 577784 577785 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 577786 577796 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 577786 577796 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 577797 577798 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 577797 644434 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 644433 644434 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 644435 644445 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 644435 644445 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 644446 644447 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 644446 803004 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 803003 803004 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 803005 803030 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 803005 803030 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 803031 803032 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 803031 833787 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833786 833787 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833788 833793 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833788 833793 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833794 833795 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833794 857495 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 1056590 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1056589 1056590 . + . intron_id 11 ; splice_site "Aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1056591 1056627 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1056591 1056627 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1056628 1056629 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1056628 1103474 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1103473 1103474 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1103475 1103513 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1103475 1103513 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1103514 1103515 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1103514 1198210 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1198209 1198210 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1198211 1198216 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1198211 1198216 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1198217 1198218 . + . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1198217 1229502 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1229501 1229502 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1229503 1229519 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1229503 1229519 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1229520 1229521 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1229520 1330820 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1330819 1330820 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1330821 1330854 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1330821 1330854 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1330855 1330856 . + . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1330855 1357622 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1357621 1357622 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1357623 1357711 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1357623 1357711 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 31381 1357711 110 + . alignment_id 23 ; Query SPP00000025_1.0 ; Align 31381 10 45 ; Align 56293 26 9 ; Align 250474 31 33 ; Align 434115 43 27 ; Align 535902 54 36 ; Align 577787 67 9 ; Align 644437 71 9 ; Align 803005 74 24 ; Align 833789 83 3 ; Align 857497 85 18 ; Align 1056591 91 36 ; Align 1103477 104 36 ; Align 1198213 117 3 ; Align 1229505 119 15 ; Align 1330821 124 33 ; Align 1357625 136 87 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 103 Query range: 1 -> 190 Target range: 356388 -> 1361210 2 : ArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetVal{A} >>>> Targ : 16 |||||||||:::||| ||| ::: ||||||::::::{.} ArgLeuLeuIleLeuTrpLeuGlnSerProSerAlaValIle{G}++ 356389 : cgtcttttaattttatggctgcagtcaccatctgcagtgatt{g}gt......... : 356434 17 : et Intron 1 >>>> {rg}SerGluAlaSer{A} >>>> Target Intro : 21 1937 bp {.!}:!!..!! !|||{!} 17396 bp ++{lu}AlaSerGluSer{V}++ 356435 : ................ag{AA}GCCTCAGAGTCA{G}gt................. : 358386 22 : n 2 >>>> {la}AsnLeuGlyGlyValProSerLysArgLeuLysMetGlnTyr : 35 {.!}::: !|||..! !||||||::: |||:::...::: ++{al}AspAlaGlySerSerProSerArgGlyThrLysIleSerHis 358387 : ........ag{tg}gacGCGGGTTCGAGCCctagtaggggaactaagatctcacat : 375821 36 : AlaThrGlyPro >>>> Target Intron 3 >>>> LeuLeu >>>> Ta : 42 |||...|||! ! 185683 bp |||||| AlaValGlyGln-+ ++LeuLeu++ 375822 : gccgtgggACAAct.........................agcttctggt....... : 561527 43 : rget Intron 4 >>>> LysPheGlnIleCysValSerUnkGlyTyr{A} > : 52 2107 bp :!! !||||||||| ! ! ! { } ++GlnProGlnIleCysSerLeuCysPheIle{L}++ 561528 : ..................agCAGCCTCAGATCTGTTCTCTCTGTTTCATA{T}gt. : 563665 53 : >>> Target Intron 5 >>>> {rg}ArgValPheGluGluTyrMetArgVa : 61 44458 bp { !}!:! !|||:!!:!! :!:|||:! ++{eu}LysTyrPheLysGlnAlaLeuArgIl 563666 : ........................ag{TA}AAGTATTTCAAGCAAGCATTAAGAAT : 608147 62 : l{Il} >>>> Target Intron 6 >>>> {e}SerGlnArgTyrProAspI : 69 !{||} 9325 bp {|}..!|||!.!!::|||..!. e{Il}++ ++{e}AspGlnHisTrpProSerP 608148 : T{AT}gt.........................ag{T}GATCAACATTGGCCAAGTT : 617496 70 : leArg{Il} >>>> Target Intron 7 >>>> {e}GluGlyGlu{A} > : 75 !!! !{:!} 26931 bp {:}! ||||||{.} heLeu{Le}++ ++{u}GlyGlyGlu{G}++ 617497 : TCCTC{CT}gt.........................ag{g}GGTGGAGAA{G}gt. : 644448 76 : >>> Target Intron 8 >>>> {sn}TyrLeuProGlnPro{I} >>>> T : 81 124911 bp {..} ||||||...|||{:} ++{ly}AspLeuProAsnPro{V}++ 644449 : ........................ag{gg}gatcttcccaaccca{g}gt...... : 769377 82 : arget Intron 9 >>>> {le}TyrArgHisIle{Al} >>>> Target I : 86 33392 bp {!!}!:!||||||:!!{!.} 337 ++{al}PheArgHisLeu{Va}++ 769378 : ...................ag{tC}TTCCGACACCTA{GT}gt............. : 802785 87 : ntron 10 >>>> {a}SerPheLeuSerValPheLysLeuValLeuIle{G} : 98 0 bp {!}|||.!.||||||! !||| |||:!! !:!:{|} ++{l}SerLeuLeuSerAspPheAlaLeuIleAlaVal{G}++ 802786 : .............ag{G}TCCCTGCTGTCTGATTTTGCCCTCATCGCTGTG{G}gt : 806188 99 : >>>> Target Intron 11 >>>> {ly}LeuIleIleValGly{Ly} >>> : 104 91402 bp {||}!!! !:!: !|||{::} ++{ly}PheHisLeuCysGly{Ar}++ 806189 : ..........................ag{GG}TTCCATTTGTGTGGA{CG}gt... : 897611 105 : > Target Intron 12 >>>> {s}AspProPheAlaPhePheGlyMetGlnA : 114 101771 bp {!}!!:||| !.!!|||! !:!:! ++{g}GluProLys***LeuPheGluValLeuL 897612 : .......................ag{A}GAGCCTAAATAACTCTTTGAGGTCCTTC : 999408 115 : laProSerIleTrpGlnTrpGlyGlnGluAsnLysVal >>>> Target Intr : 127 ! ! ! !!::!!.|||||| !|||:!! ! ! 117307 euGlyLeuAspTyrHisTrpGlyLeuGluAspAlaGlu++ 999409 : TGGGACTGGATTATCACTGGGGCTTGGAAGATGCTGAGgt................ : 999449 128 : on 13 >>>> TyrAlaCysMet >>>> Target Intron 14 >>>> Me : 131 bp |||:::|||::: 40679 bp ! ++TyrSerCysLeu++ ++Th 999450 : ..........agtactcttgcctggt..........................agAC : 1157445 132 : tValPhePheLeuSerAsnMetIleGluAsn >>>> Target Intron 15 > : 142 :!!.!!|||:!!||||||!!::!!:!!! 78591 bp rIleLeuPheIleSerAsnIleLeuLysMet++ 1157446 : CATTCTCTTCATTAGTAATATCTTAAAGATGgt....................... : 1157480 143 : >>> GlnCysMetSerThrGlyAlaPheGluIleThr{Le} >>>> Target : 153 ...|||! !..! !!||| !||| ! !|||{ } 319 ++SerCysLysAspProGlyTrpPheThrSerThr{Ar}++ 1157481 : ...agTCTTGCAAGGATCCTGGATGGTTCACATCCACC{AG}gt............ : 1236106 154 : Intron 16 >>>> {u}AsnAspValProValTrpSerLysLeuGluSerGlyH : 166 92 bp {!}|||! !! ! !..!!! .!!|||:!!.!.!!!! !! ++{g}AsnValGluAsnThrCysGlyLysIleHisThrGluG 1236107 : ..............ag{A}AACGTTGAAAATACATGTGGAAAGATTCACACAGAAC : 1268133 167 : isLeuProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsn : 184 !.|||! !|||!!:.!.::! ! !|||||| :::... |||||| lnLeuLeuSerIleAspArgArgProGlnIleSerGluLysThrArgLysLeuPro 1268134 : AGCTACTGAGCATTGACAGAAGACCTCAGATCtctgaaaagacaagaaaacttcCA : 1268187 185 : ValHisMet >>>> Target Intron 17 >>>> AspSerIle : 190 !:!!..! 93003 bp ||||||||| CysAsnGln+- ++AspSerIle 1268188 : TGTAATCAGga..........................agGACAGTATT : 1361210 vulgar: SPP00000025_1.0 1 190 . NIVO01008816.1:subseq(494279,1406561) 356388 1361210 + 103 M 14 42 S 0 1 5 0 2 I 0 1933 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 17392 3 0 2 S 1 2 M 18 54 5 0 2 I 0 185679 3 0 2 M 2 6 5 0 2 I 0 2103 3 0 2 M 10 30 S 0 1 5 0 2 I 0 44454 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 9321 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 26927 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 124907 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 33388 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 3366 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 91398 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 101767 3 0 2 S 1 1 M 22 66 5 0 2 I 0 117303 3 0 2 M 4 12 5 0 2 I 0 40675 3 0 2 M 11 33 5 0 2 I 0 78587 3 0 2 M 11 33 S 0 2 5 0 2 I 0 31988 3 0 2 S 1 1 M 34 102 5 0 2 I 0 92999 3 0 2 M 3 9 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 356389 1361210 103 + . gene_id 24 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 356389 356431 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 356389 356431 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 356432 356433 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 356432 358368 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 358367 358368 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 358369 358383 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 358369 358383 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 358384 358385 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 358384 375779 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 375778 375779 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 375780 375835 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 375780 375835 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 375836 375837 . + . intron_id 3 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 375836 561518 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 563631 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 563630 563631 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 563632 563662 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 563632 563662 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 563663 563664 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 563663 608120 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 608119 608120 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 608121 608151 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 608121 608151 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 608152 608153 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 608152 617476 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 617475 617476 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 617477 617503 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 617477 617503 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 617504 617505 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 617504 644434 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 644433 644434 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 644435 644445 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 644435 644445 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 644446 644447 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 644446 769356 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 769355 769356 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 769357 769374 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 769357 769374 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 769375 769376 . + . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 769375 802766 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 802765 802766 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 802767 802782 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 802767 802782 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 802783 802784 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 802783 806152 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 806151 806152 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 806153 806187 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 806153 806187 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 806188 806189 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 806188 897589 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 897588 897589 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 897590 897608 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 897590 897608 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 897609 897610 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 897609 999379 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 999378 999379 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 999380 999446 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 999380 999446 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 999447 999448 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 999447 1116753 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1116752 1116753 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1116754 1116765 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1116754 1116765 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1116766 1116767 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1116766 1157444 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1157443 1157444 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1157445 1157477 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1157445 1157477 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1157478 1157479 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1157478 1236068 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1236067 1236068 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1236069 1236103 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1236069 1236103 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1236104 1236105 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1236104 1268095 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1268094 1268095 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1268096 1268198 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1268096 1268198 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1268199 1268200 . + . intron_id 17 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1268199 1361201 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1361200 1361201 . + . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1361202 1361210 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1361202 1361210 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 356389 1361210 103 + . alignment_id 24 ; Query SPP00000025_1.0 ; Align 356389 2 42 ; Align 358371 17 12 ; Align 375782 22 54 ; Align 561519 40 6 ; Align 563632 42 30 ; Align 608123 53 27 ; Align 617478 63 24 ; Align 644436 72 9 ; Align 769359 76 15 ; Align 802769 82 12 ; Align 806154 87 33 ; Align 897592 99 15 ; Align 999381 105 66 ; Align 1116754 127 12 ; Align 1157445 131 33 ; Align 1236069 142 33 ; Align 1268097 154 102 ; Align 1361202 188 9 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 104 Query range: 2 -> 146 Target range: 576687 -> 1371403 3 : LeuLeuLeuLeuLeuLeu{V} >>>> Target Intron 1 >>>> {al}Al : 10 ||||||||||||!!!|||{|} 106162 bp {||}!. LeuLeuLeuLeuPheLeu{V}++ ++{al}Gl 576688 : CTACTTCTGCTTTTCCTT{G}gt.........................ag{TT}GG : 682871 11 : aAlaSer{A} >>>> Target Intron 2 >>>> {la}MetValArgSerG : 18 !.!!|||{|} 53039 bp {||}:!: !||||||! yThrSer{A}++ ++{la}ValSerArgSerA 682872 : GACTTCA{G}gt.........................ag{CT}GTAAGCAGATCTG : 735934 19 : luAlaSerAlaAsn >>>> Target Intron 3 >>>> LeuGlyGlyVal : 27 !:!.!..!.!!.!. 35785 bp :!! !!|||:!! spGlyGlnThrGln++ ++ValArgGlyLeu+ 735935 : ATGGGCAAACACAGgt.........................agGTTAGAGGCCTGg : 771746 28 : >>>> Target Intron 4 >>>> ProSerLysArgLeuLysMetGln{T} : 35 183977 bp !||| ||||||||| :::{|} + ++GlySerLeuArgLeuLysSerArg{T}+ 771747 : t.........................agGGTTCCctaaggctgaaatcaaga{t}g : 955748 36 : >>>> Target Intron 5 >>>> {yr}AlaThrGlyProLeuLeu >>>> : 42 6029 bp {||} !|||..!||||||||| + ++{yr}ArgThrAsnProLeuLeu++ 955749 : t.........................ag{AC}AGAACAAATCCCTTGCTGgt.... : 961799 43 : Target Intron 6 >>>> LysPheGlnIleCysVal{Se} >>>> Targ : 48 14183 bp |||.!.:!!|||! :!!{||} 1 ++LysLeuGluIleLeuLeu{Se}++ 961800 : .....................agAAGCTAGAGATATTGCTA{AG}gt......... : 976002 49 : et Intron 7 >>>> {r}UnkGlyTyrArgArgValPheGluGlu{Ty} >> : 58 59523 bp {|} |||::: ||||||::: :::{||} ++{r}TyrGlyPheLeuArgValTyrThrGln{Ty}++ 976003 : ................ag{t}tatggtttcctaagggtatatacccag{ta}gt.. : 1135555 59 : >> Target Intron 8 >>>> {r}MetArgValIleSer{G} >>>> Tar : 64 25147 bp {|}:::||||||:::|||{:} ++{r}IleArgValLeuSer{L}++ 1135556 : .......................ag{c}atcagggtcctttcc{a}gt........ : 1160719 65 : get Intron 9 >>>> {ln}ArgTyrPro{A} >>>> Target Intron : 68 14946 bp {!!}! ! !{|} 1074 bp ++{ys}LeuValLys{A}++ 1160720 : .................ag{AA}CTGGTGAAA{G}gt................... : 1175677 69 : 10 >>>> {sp}IleArgIleGlu{G} >>>> Target Intron 11 >>>> : 73 {||}||| !!||||||{|} 9896 bp ++{sp}IleGlyIleGlu{G}++ 1175678 : .......ag{AC}ATAGGAATAGAA{G}gt.......................... : 1176766 74 : {ly}GluAsnTyrLeuProGlnProIleTyr{A} >>>> Target Intron : 83 {||} ! ! !!!!|||||| ! ! { } 6056 bp ++{ly}LeuCysThrPheProGlnIleTyrArg{G}-+ 1176767 : ag{GT}TTGTGTACTTTTCCCCAAATCTACAGA{G}tt.................. : 1186692 84 : 12 >>>> {rg}HisIleAlaSerPheLeuSerValPheLys{Le} >>>> T : 94 {!!}||| ||||||...||| ||||||...{ } ++{ly}HisGlnAlaSerLeuLeuMetValPheSer{Se}+- 1186693 : ........ag{gc}caccaggcttctctgctcatggtattttcc{ag}gc...... : 1192782 95 : arget Intron 13 >>>> {u}ValLeuIleGlyLeuIleIleValGlyLysA : 105 1471 bp {!}:!! :::||||||:::... ... ++{r}IleTyrLeuGlyLeuValPheGluProAsnL 1192783 : ....................ag{C}ATAtatttgggtcttgtttttgagccaaatt : 1194282 106 : spProPheAlaPhePheGly >>>> Target Intron 14 >>>> MetGln : 113 |||...|||::: 8131 bp ... euLysPheValPheTyr***-+ ++SerMet 1194283 : taaaatttgttttttattaaat..........................agagcatg : 1202437 114 : AlaProSerIle{T} >>>> Target Intron 15 >>>> {rp}GlnTrpG : 121 ...||||||:!:{|} 32391 bp {||}...|||. GlyProSerVal{T}++ ++{rp}AspTrpA 1202438 : ggccctagtGTG{T}gt..........................ag{gg}gactgga : 1234852 122 : lyGlnGlu >>>> Target Intron 16 >>>> AsnLysValTyrAlaCys : 129 .. ||| 92757 bp !!.::::!! !!.!||| snAlaGlu++ +-LysArgIleGlyGlyCys 1234853 : atgcagaagt..........................aaAAACGTATTGGTGGATGT : 1327633 130 : MetMetValPhePheLeuSerAsn{M} >>>> Target Intron 17 >>>> : 138 |||:!! !|||.!.||||||.!.{ } 43717 bp MetLeuSerPheLeuLeuSerGln{G}++ + 1327634 : ATGTTGTCCTTCCTGTTATCACAA{G}gt..........................a : 1371376 139 : {et}IleGluAsnGlnCysMetSerThr : 146 { } :::||| |||:!:!!!||| +{lu}LysGlnAsnThrCysLeuArgThr 1371377 : g{aa}aaacaaaatacatgcCTAAGAACA : 1371403 vulgar: SPP00000025_1.0 2 146 . NIVO01008816.1:subseq(494279,1406561) 576687 1371403 + 104 M 6 18 S 0 1 5 0 2 I 0 106158 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 53035 3 0 2 S 1 2 M 9 27 5 0 2 I 0 35781 3 0 2 M 4 12 5 0 2 I 0 183973 3 0 2 M 8 24 S 0 1 5 0 2 I 0 6025 3 0 2 S 1 2 M 6 18 5 0 2 I 0 14179 3 0 2 M 6 18 S 0 2 5 0 2 I 0 159519 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 25143 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 14942 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 1070 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 9892 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 6052 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 1467 3 0 2 S 1 1 M 17 51 5 0 2 I 0 8127 3 0 2 M 6 18 S 0 1 5 0 2 I 0 32387 3 0 2 S 1 2 M 5 15 5 0 2 I 0 92753 3 0 2 M 14 42 S 0 1 5 0 2 I 0 43713 3 0 2 S 1 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 576688 1371403 104 + . gene_id 25 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 576688 576706 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 576688 576706 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 576707 576708 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 576707 682868 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 682867 682868 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 682869 682880 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 682869 682880 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 682881 682882 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 682881 735919 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 735918 735919 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 735920 735948 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 735920 735948 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 735949 735950 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 735949 771733 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 771732 771733 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 771734 771745 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 771734 771745 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 771746 771747 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 771746 955722 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 955721 955722 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 955723 955747 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 955723 955747 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 955748 955749 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 955748 961776 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 961775 961776 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 961777 961796 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 961777 961796 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 961797 961798 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 961797 975979 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 975978 975979 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 975980 975999 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 975980 975999 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 976000 976001 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 976000 1135522 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1135521 1135522 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1135523 1135552 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1135523 1135552 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1135553 1135554 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1135553 1160699 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1160698 1160699 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1160700 1160716 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1160700 1160716 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1160717 1160718 . + . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1160717 1175662 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1175661 1175662 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1175663 1175674 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1175663 1175674 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1175675 1175676 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1175675 1176748 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1176747 1176748 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1176749 1176763 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1176749 1176763 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1176764 1176765 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1176764 1186659 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1186658 1186659 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1186660 1186689 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1186660 1186689 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1186690 1186691 . + . intron_id 12 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1186690 1192745 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1192744 1192745 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1192746 1192779 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1192746 1192779 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1192780 1192781 . + . intron_id 13 ; splice_site "gc" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1192780 1194250 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1194249 1194250 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1194251 1194302 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1194251 1194302 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1194303 1194304 . + . intron_id 14 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1194303 1202433 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1202432 1202433 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1202434 1202452 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1202434 1202452 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1202453 1202454 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1202453 1234843 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1234842 1234843 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1234844 1234860 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1234844 1234860 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1234861 1234862 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1234861 1327617 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1327616 1327617 . + . intron_id 15 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1327618 1327660 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1327618 1327660 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1327661 1327662 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1327661 1371377 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1371376 1371377 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1371378 1371403 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1371378 1371403 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 576688 1371403 104 + . alignment_id 25 ; Query SPP00000025_1.0 ; Align 576688 3 18 ; Align 682871 10 9 ; Align 735922 14 27 ; Align 771734 23 12 ; Align 955723 27 24 ; Align 961779 36 18 ; Align 975980 42 18 ; Align 1135524 49 27 ; Align 1160701 59 15 ; Align 1175665 65 9 ; Align 1176751 69 12 ; Align 1186662 74 27 ; Align 1192748 84 30 ; Align 1194252 95 51 ; Align 1202434 112 18 ; Align 1234846 119 15 ; Align 1327618 124 42 ; Align 1371380 139 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 103 Query range: 20 -> 193 Target range: 35331 -> 733905 21 : AlaAsnLeuGlyGlyValProSerLysArgLeuLysMetGlnTyrAlaThrGlyPro : 40 ...::: ......:::|||...:::||| |||::: :::|||||| GlyAspThrAsnSerIleProGlyGlnArgThrLysIleProHisAlaThrArgGln- 35332 : ggggacacaaactcgattcctggtcagagaactaagatcccacatgccacaaggcaac : 35389 41 : >>>> Target Intron 1 >>>> LeuLeuLysPheGlnIleCysValSerUnk : 49 20877 bp !:!!!:!.!. !.!! ! !||| + ++LysIleArgIleLeuPheProTyrSerLeu 35390 : t.........................agAAAATTAGAATATTGTTTCCTTATAGTTTG : 56293 50 : GlyTyr{Ar} >>>> Target Intron 2 >>>> {g}ArgValPheGluGluT : 58 !! {||} 13549 bp {|}..! !||| :!!| ProLeu{Ar}++ ++{g}GluGlnPheCysLysT 56294 : CCATTA{AG}gt.........................ag{A}GAACAGTTTTGTAAAT : 69869 59 : yrMetArgValIle{Se} >>>> Target Intron 3 >>>> {r}GlnArgTy : 66 ||...|||:!!.!!{ } 49210 bp {!} !|| yrGlnArgIlePhe{Le}++ ++{u}GlyAspTy 69870 : ACCAAAGAATTTTT{CT}gt.........................ag{A}GGTGATTA : 119103 67 : rProAspIleArgIleGluGlyGluAsnTyrLeuProGln >>>> Target Intr : 80 | ! !|||!:!|||.!.|||! :!!:!! !:!! 7886 bp rIleThrIleLysIleAsnGlyAlaValHisIleLysLys++ 119104 : TATAACTATCAAAATTAATGGAGCTGTACATATAAAAAAGgt................ : 119147 81 : on 4 >>>> ProIleTyrArg >>>> Target Intron 5 >>>> His > : 85 ||| !:! 32676 bp .!. ++Pro***MetLys++ ++Glu++ 119148 : .........agcCCTAGATGAAGgt.........................agGAGgt. : 159724 86 : >>> Target Intron 6 >>>> IleAlaSerPheLeuSerValPheLysLeuVa : 95 108000 bp |||...|||||||||||| |||:::... ++IleGlySerPheLeuSerCysPheArgPheHi 159725 : ........................agataggttcatttctgtcatgttttagattcca : 267752 96 : lLeuIle >>>> Target Intron 7 >>>> GlyLeuIleIleValGlyLysA : 105 ::: 89351 bp ..!:!! ! !:!!||| !. sIle***++ ++SerValTyrAspLeuGlyLeuS 267753 : catataagt.........................agTCTGTCTATGATCTTGGGTTAA : 357133 106 : spProPheAlaPhe >>>> Target Intron 8 >>>> PheGlyMetGlnAla : 114 .!|||.!.::!||| 25051 bp |||..!|||||| erProLeuSerPhe++ ++GlyGlyGlnGlnAla 357134 : GTCCACTAAGCTTTgt.........................agGGAGGGCAGCAGGCA : 382211 115 : Pro{Se} >>>> Target Intron 9 >>>> {r}IleTrpGlnTrpGlyGlnG : 123 !{!.} 16280 bp {!}:!: ! :!!||||||:!! Gly{Ly}++ ++{s}ValGlyGluTrpGlyLysT 382212 : GGG{AA}gt.........................ag{G}GTGGGAGAATGGGGGAAAA : 398518 124 : luAsnLysValTyrAlaCysMet{M} >>>> Target Intron 10 >>>> {e : 131 !:!! ::: |||...{ } 66053 bp { hrAspLeuLeuSerLeuCysPhe{S}++ ++{e 398519 : CGGACTTgctctctctgtgtttc{t}gt..........................ag{C : 464596 132 : t}ValPhePheLeuSerAsnMetIleGlu >>>> Target Intron 11 >>>> : 141 }:!!||||||:!!:!!!!.:!::!::!! 38087 bp r}LeuPhePheMetAlaLysValLeuGln++ + 464597 : A}TTGTTTTTCATGGCAAAAGTACTGCAAgt..........................a : 502710 142 : AsnGlnCysMet{Se} >>>> Target Intron 12 >>>> {r}ThrGlyAl : 148 !!.||| !!:!!{||} 532 bp {|}||| || +LysGlnSerLeu{Se}++ ++{r}ThrLeuAl 502711 : gAAGCAGAGCTTG{AG}gt..........................ag{t}actcttgc : 503265 149 : aPheGluIleThrLeuAsnAspValPro{V} >>>> Target Intron 13 >>> : 158 |::::::||| ...::: |||{!} 51486 bp aTrpLysIleProTrpThrGluGluPro{G}++ 503266 : ctggaaaatcccatggacagaggagcct{g}gt......................... : 503298 159 : > {al}TrpSer{L} >>>> Target Intron 14 >>>> {ys}LeuGluSe : 164 { !}|||..!{:} 20492 bp {!!}! !|||!! ++{ly}TrpGlu{G}++ ++{lu}SerGluTh 503299 : .ag{GG}TGGGAA{G}gt..........................ag{AG}TCTGAGAC : 575291 165 : rGlyHisLeuProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeu : 183 !!.!.!.:!! !||||||! ||| !!|||:!: !|||!.! :!!! ! ! rAlaGluIleValSerMetLeuAlaLeuPheGlnLeuThrAspThrPheLeuThr*** 575292 : TGCAGAAATCGTTAGCATGCTTGCTTTATTTCAGTTGACTGACACCTTTCTGACTTAA : 575348 184 : AsnValHisMet >>>> Target Intron 15 >>>> Asp{S} >>>> Tar : 189 |||:!!||| 145112 bp |||{|} AsnLeuHisTyr++ ++Asp{S}++ 575349 : AATTTGCATTATgt..........................agGAC{T}gt........ : 720481 190 : get Intron 16 >>>> {er}IleProHisHis : 193 13413 bp {||}:!:|||!.!||| ++{er}LeuProArgHis 720482 : ..................ag{ca}tTGCCACGTCAT : 733905 vulgar: SPP00000025_1.0 20 193 . NIVO01008816.1:subseq(494279,1406561) 35331 733905 + 103 M 19 57 5 0 2 I 0 20873 3 0 2 M 12 36 S 0 2 5 0 2 I 0 13545 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 49206 3 0 2 S 1 1 M 16 48 5 0 2 I 0 7882 3 0 2 M 4 12 5 0 2 I 0 32672 3 0 2 M 1 3 5 0 2 I 0 107996 3 0 2 M 13 39 5 0 2 I 0 89347 3 0 2 M 12 36 5 0 2 I 0 25047 3 0 2 M 6 18 S 0 2 5 0 2 I 0 16276 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 66049 3 0 2 S 1 2 M 9 27 5 0 2 I 0 38083 3 0 2 M 4 12 S 0 2 5 0 2 I 0 528 3 0 2 S 1 1 M 12 36 S 0 1 5 0 2 I 0 51482 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 20488 3 0 2 S 1 2 M 26 78 5 0 2 I 0 145108 3 0 2 M 1 3 S 0 1 5 0 2 I 0 13409 3 0 2 S 1 2 M 4 12 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 35332 733905 103 + . gene_id 26 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 35332 35388 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 35332 35388 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 35389 35390 . + . intron_id 1 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 35389 56265 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 56264 56265 . + . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 56266 56303 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 56266 56303 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 56304 56305 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 56304 69852 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 69851 69852 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 69853 69885 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 69853 69885 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 69886 69887 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 69886 119095 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 119094 119095 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 119096 119144 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 119096 119144 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 119145 119146 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 119145 127030 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 127029 127030 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 127031 127042 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 127031 127042 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 127043 127044 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 127043 159718 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 267721 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 267720 267721 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 267722 267760 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 267722 267760 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 267761 267762 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 267761 357111 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357110 357111 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 357112 357147 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 357112 357147 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357148 357149 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357148 382198 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 382197 382198 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 382199 382218 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 382199 382218 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 382219 382220 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 382219 398498 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 398497 398498 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 398499 398542 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 398499 398542 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 398543 398544 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 398543 464595 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 464594 464595 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 464596 464624 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 464596 464624 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 464625 464626 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 464625 502711 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 502710 502711 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 502712 502725 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 502712 502725 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 502726 502727 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 502726 503257 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 503256 503257 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 503258 503295 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 503258 503295 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 503296 503297 . + . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 503296 554781 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 554780 554781 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 554782 554790 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 554782 554790 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 554791 554792 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 554791 575282 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 575281 575282 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 575283 575362 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 575283 575362 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 575363 575364 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 575363 720474 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 720473 720474 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 720475 720478 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 720475 720478 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 720479 720480 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 720479 733891 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 733890 733891 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 733892 733905 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 733892 733905 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 35332 733905 103 + . alignment_id 26 ; Query SPP00000025_1.0 ; Align 35332 21 57 ; Align 56266 40 36 ; Align 69854 53 30 ; Align 119097 64 48 ; Align 127031 80 12 ; Align 159719 84 3 ; Align 267722 85 39 ; Align 357112 98 36 ; Align 382199 110 18 ; Align 398500 117 42 ; Align 464598 132 27 ; Align 502712 141 12 ; Align 503259 146 36 ; Align 554784 159 6 ; Align 575285 162 78 ; Align 720475 188 3 ; Align 733894 190 12 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 104 Query range: 13 -> 190 Target range: 57047 -> 1212573 14 : MetValArgSerGluAlaSerAlaAsnLeu{G} >>>> Target Intron 1 : 24 ::::::...|||...||||||...:::|||{|} 7846 bp LeuIleHisSerSerAlaSerGlyHisLeu{G}++ 57048 : cttatccattcgtctgctagtgggcatcta{g}gt..................... : 57081 25 : >>>> {ly}GlyValProSerLysArgLeuLysMetGlnTyrAlaThrGlyProL : 40 {||} :::|||::: ...:::||| ... ||| ++{ly}AspLeuProAsnProGluIleLysProThrSerProValLeuProA 57082 : ....ag{gg}gatcttcccaatccagaaatcaaacccacatctcctgtgcttcctg : 64972 41 : euLeuLys >>>> Target Intron 2 >>>> Phe >>>> Target In : 44 |||::: 94738 bp 28517 laLeuGln++ ++Glu++ 64973 : cactgcaggt.........................agGAGgt.............. : 159724 45 : tron 3 >>>> GlnIleCysValSerUnkGlyTyrArgArgValPheGluGlu : 58 bp !!||| :!!!:! !||||||:::|||||| ++***IleGlnIleAsnMetGlnTyrArgLysValPhePheLeu+ 159725 : ...........agTAAATACAGATAAACATGCAGTacagaaaagtgttttttttgg : 188281 59 : >>>> Target Intron 4 >>>> TyrMetArgValIleSer{G} >>>> : 64 94276 bp ! |||..!|||||||||{:} + ++LysMetGluValIleSer{L}++ 188282 : t.........................agAAAATGGAGGTGATATCA{A}gt..... : 282578 65 : Target Intron 5 >>>> {ln}ArgTyrProAspIleArgIleGluGlyGlu : 74 175876 bp {!!}|||:!!|||!!::!! !!:!!|||.!!! ++{ys}ArgHisProGluLeu***ValGluSerAla 282579 : ....................ag{AG}AGGCATCCAGAGCTTTGAGTTGAAAGTGCC : 458481 75 : AsnTyrLeuProGlnProIleTyr >>>> Target Intron 6 >>>> Arg : 83 :!! !||||||||| ! ! ! 44204 bp !:! HisValLeuProGln***ProGln++ ++Lys 458482 : CATGTTCTACCACAATAACCACAGgt.........................agAAG : 502712 84 : HisIleAla{Se} >>>> Target Intron 7 >>>> {r}Phe{Le} >> : 89 !!.! ! !{||} 58793 bp {|}|||{! } GlnSerLeu{Se}++ ++{r}Phe{Cy}++ 502713 : CAGAGCTTG{AG}gt.........................ag{c}ttc{tg}gt.. : 561527 90 : >> Target Intron 8 >>>> {u}SerValPheLysLeuValLeuIleGlyL : 99 39344 bp {!}..!|||!:! |||:!!:!! !|||| ++{s}GlnValTyrLeuLeuLeuIleSerGlyL 561528 : .......................ag{C}CAAGTTTATCTCCTCCTCATCTCTGGGC : 600897 100 : euIleIleValGlyLysAspProPhe{A} >>>> Target Intron 9 >>>> : 108 ||:!: !!.! !!... !! !!!.{.} 6060 bp euLeuAlaAlaTrpSerCysGlnLeu{C}++ 600898 : TCCTGGCTGCCTGGTCCTGTCAGTTA{T}gt......................... : 600927 109 : {la}PhePheGlyMet{Gl} >>>> Target Intron 10 >>>> {n}A : 114 {.!}||| |||:::{::} 22153 bp {!}| ++{ys}PheSerGlyVal{Ar}++ ++{g}A 600928 : ag{gt}ttctcaggagtc{ag}gt..........................ag{g}G : 629155 115 : laPro{Se} >>>> Target Intron 11 >>>> {r}IleTrp{Gl} >> : 119 |||||{!!} 19873 bp {!}:!!|||{..} laPro{Ar}-+ ++{g}ValTrp{Se}++ 629156 : CCCCC{AG}at..........................ag{A}GTTTGG{AG}gt.. : 649047 120 : >> Target Intron 12 >>>> {n}TrpGlyGln{Gl} >>>> Target : 123 33824 bp {.}|||! ! {..} 322 ++{r}TrpAspPhe{Ar}++ 649048 : ........................ag{T}TGGGACTTC{AG}gt............ : 682883 124 : Intron 13 >>>> {u}AsnLysValTyrAlaCysMetMetValPhePheLeu{ : 136 50 bp {!} ! ! !! ! !|||||| :!!|||||||||{ +-{g}PheLeuPheGlyLeuCysMetCysMetPhePheLeu{ 682884 : ..............ac{G}TTTTTATTTGGCCTGTGCATGTGTATGTTCTTCTTA{ : 715168 137 : Se} >>>> Target Intron 14 >>>> {r}AsnMetIleGluAsnGlnCy : 143 !.} 157700 bp {!}!.!! !:!! :::|| Ly}++ ++{s}ThrLysArgLysAlaLysCy 715169 : aa}gt..........................ag{A}ACCAAACGTAAAGCAaagtg : 872889 144 : sMetSerThrGlyAla >>>> Target Intron 15 >>>> PheGluIleT : 152 |:::...|||... 153080 bp ::: sLeuLysThrAsnMet++ ++AlaAspSerL 872890 : tttaaaaacaaacatggt..........................aggcagattcct : 1025996 153 : hrLeuAsnAspValPro{V} >>>> Target Intron 16 >>>> {al}{T : 159 |||...::: |||{|} 35878 bp {||}{| euLeuThrGluProPro{V}++ ++{al}{T 1025997 : tactgactgagccacca{g}gt..........................ag{TT}{T : 1061895 160 : r} >>>> Target Intron 17 >>>> {p}SerLysLeuGluSerGlyHis : 166 |} 41578 bp {|}...::: ...:::...::: r}++ ++{p}GlyArgThrHisAlaSerTyr 1061896 : G}gt..........................ag{g}ggtcgaacccatgcctcttat : 1103494 167 : LeuProSerMetGln{Gl} >>>> Target Intron 18 >>>> {n}LeuV : 174 ::: ::: {::} 5005 bp {!} ValSerCysIleGly{Ar}++ ++{g}SerG 1103495 : gtctcctgcattggg{ag}gt..........................ag{a}agcC : 1108523 175 : alGlnIleLeuAspAsnGluMet >>>> Target Intron 19 >>>> Lys : 182 !:!!! !||| ! |||:!!||| 104000 bp ||| lnGluSerLeu***AsnLysMet++ ++Lys 1108524 : AGGAGAGCTTGTAAAATAAAATGgt..........................agaag : 1212547 183 : LeuAsnValHisMetAspSerIle : 190 |||||| ... |||:::||| LeuAsnLysGlnGlyAspAsnIle 1212548 : ttaaataagcagggtgacaatata : 1212573 vulgar: SPP00000025_1.0 13 190 . NIVO01008816.1:subseq(494279,1406561) 57047 1212573 + 104 M 10 30 S 0 1 5 0 2 I 0 7842 3 0 2 S 1 2 M 18 54 5 0 2 I 0 94734 3 0 2 M 1 3 5 0 2 I 0 28513 3 0 2 M 14 42 5 0 2 I 0 94272 3 0 2 M 6 18 S 0 1 5 0 2 I 0 175872 3 0 2 S 1 2 M 18 54 5 0 2 I 0 44200 3 0 2 M 4 12 S 0 2 5 0 2 I 0 58789 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 39340 3 0 2 S 1 1 M 18 54 S 0 1 5 0 2 I 0 6056 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 22149 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 19869 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 33820 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 32246 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 157696 3 0 2 S 1 1 M 12 36 5 0 2 I 0 153076 3 0 2 M 9 27 S 0 1 5 0 2 I 0 35874 3 0 2 S 1 4 5 0 2 I 0 41574 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 5001 3 0 2 S 1 1 M 9 27 5 0 2 I 0 103996 3 0 2 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 57048 1212573 104 + . gene_id 27 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 57048 57078 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 57048 57078 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 57079 57080 . + . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 57079 64924 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 64923 64924 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 64925 64980 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 64925 64980 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 64981 64982 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 64981 159718 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 188238 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 188237 188238 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 188239 188280 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 188239 188280 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 188281 188282 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 188281 282556 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 282555 282556 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 282557 282575 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 282557 282575 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 282576 282577 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 282576 458451 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 458450 458451 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 458452 458507 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 458452 458507 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 458508 458509 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 458508 502711 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 502710 502711 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 502712 502725 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 502712 502725 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 502726 502727 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 502726 561518 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 600868 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 600867 600868 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 600869 600924 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 600869 600924 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 600925 600926 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 600925 606984 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 606983 606984 . + . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 606985 607000 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 606985 607000 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 607001 607002 . + . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 607001 629153 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 629152 629153 . + . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 629154 629162 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 629154 629162 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 629163 629164 . + . intron_id 11 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 629163 649035 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 649034 649035 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 649036 649044 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 649036 649044 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 649045 649046 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 649045 682868 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 682867 682868 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 682869 682880 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 682869 682880 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 682881 682882 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 682881 715130 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 715129 715130 . + . intron_id 12 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 715131 715169 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 715131 715169 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 715170 715171 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 715170 872869 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 872868 872869 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 872870 872906 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 872870 872906 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 872907 872908 . + . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 872907 1025986 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1025985 1025986 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1025987 1026014 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1025987 1026014 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026015 1026016 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026015 1061892 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1061891 1061892 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1061893 1061896 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1061893 1061896 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1061897 1061898 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1061897 1103474 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1103473 1103474 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1103475 1103513 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1103475 1103513 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1103514 1103515 . + . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1103514 1108518 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1108517 1108518 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1108519 1108546 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1108519 1108546 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1108547 1108548 . + . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1108547 1212546 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1212545 1212546 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1212547 1212573 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1212547 1212573 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 57048 1212573 104 + . alignment_id 27 ; Query SPP00000025_1.0 ; Align 57048 14 30 ; Align 64927 25 54 ; Align 159719 43 3 ; Align 188239 44 42 ; Align 282557 58 18 ; Align 458454 65 54 ; Align 502712 83 12 ; Align 561520 88 3 ; Align 600870 90 54 ; Align 606987 109 12 ; Align 629155 114 6 ; Align 649037 117 6 ; Align 682870 120 9 ; Align 715132 124 36 ; Align 872871 137 36 ; Align 1025987 149 27 ; Align 1103476 160 36 ; Align 1108520 173 27 ; Align 1212547 182 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 101 Query range: 34 -> 193 Target range: 20761 -> 865125 35 : TyrAlaThrGlyProLeuLeuLysPheGlnIleCys{Va} >>>> Target Intr : 47 |||!.!||| !|||:!! !..!! ! ||||||{..} 16448 b TyrGlyThrTyrProValAlaSerSerValIleCys{Th}-+ 20762 : TATGGTACTTACCCTGTAGCATCATCTGTTATATGT{AC}tt................ : 20802 48 : on 1 >>>> {l}SerUnkGlyTyr{Ar} >>>> Target Intron 2 >>>> : 52 p {!} ...|||:::{||} 13839 bp ++{r}MetSerGlyPhe{Ar}++ + 20803 : .........ag{a}atgtctggcttt{ag}gt.........................a : 51100 53 : {g}ArgValPheGlu{G} >>>> Target Intron 3 >>>> {lu}TyrMet : 59 {|}||| !!::..!{|} 33230 bp {||}|||||| +{g}ArgArgTrpSer{G}++ ++{lu}TyrMet 51101 : g{a}AGACGGTGGTCA{G}gt.........................ag{AG}TACATG : 84351 60 : ArgValIle >>>> Target Intron 4 >>>> Ser >>>> Target Int : 64 !:! !!||| 75356 bp ..! 11151 LysPheIle++ ++Glu++ 84352 : AAATTCATTgt.........................agGAGgt............... : 159724 65 : ron 5 >>>> GlnArgTyrProAspIleArgIleGluGlyGlu{As} >>>> Ta : 75 bp ...::::::|||::: ...::: |||!!:{..} ++AspLysPheProGluAlaGluLeuLeuGlyAsp{Gl}++ 159725 : ..........aggataaattcccagaagcagaattgctgggtGAT{GG}gt....... : 170910 76 : rget Intron 6 >>>> {n}TyrLeuProGlnProIleTyrArg{Hi} >>>> : 84 128178 bp {.} ||||||...|||::: ! !{ } ++{y}AspLeuProAspProLeuLeuSer{Gl}-+ 170911 : ..................ag{g}gatcttcctgacccccttCTTTCT{GG}tt..... : 299115 85 : Target Intron 7 >>>> {s}IleAlaSerPheLeuSerValPheLysLeuVal : 95 134562 bp { } |||...:::... :::|||:::::: ++{y}TyrPheSerIleIleGlyTyrTyrLysIleLeu 299116 : ....................ag{a}tacttttccattataggttattacaagatattg : 433706 96 : LeuIleGlyLeuIleIleValGly{L} >>>> Target Intron 8 >>>> {y : 104 ||| ... :::::: {!} 86832 bp {: CysIleValPheProValLeuTyr{A}++ +-{r 433707 : tgtattgtgttccctgtgctatat{a}gt.........................ac{G : 520566 105 : s}AspProPheAlaPhePheGlyMetGlnAlaProSerIleTrpGlnTrpGlyGlnGl : 123 !}|||||| !! ! !|||! ! |||!.!||||||! ! ::! ! !!:!!:! g}AspProGlyGluAlaPheAspArgGlnGlyProSerArgValArgLeuArgGluGl 520567 : G}GACCCTGGTGAAGCCTTTGATCGTCAAGGCCCCTCAAGAGTTAGGCTGAGAGAGCA : 520622 124 : uAsnLysValTyrAlaCysMetMet{Va} >>>> Target Intron 9 >>>> : 132 !::: ! !!::!.!||| !|||{ } 41756 bp nSerProSerTrpGlyCysArgMet{Cy}++ ++ 520623 : GTCACCATCCTGGGGTTGCCGGATG{TG}gt.........................ag : 562405 133 : {l}PhePheLeuSerAsnMetIleGluAsnGlnCysMetSerThrGlyAlaPhe{G} : 150 {!}|||||||||! |||...::: ||| ...::: !.!.{:} {s}PhePheLeuPheAsnPheValTyrPheGlyCysAlaGlySerProLeuLeu{G}+ 562406 : {C}TTTTTTTTGTTtaactttgtttattttggctgcgctgggtctcctTTGCTG{C}g : 562460 151 : >>>> Target Intron 10 >>>> {lu}IleThrLeuAsnAspValProVal : 159 28818 bp {!!}:!! !:!!:::|||||| !! ! + ++{ln}LeuGlnIleSerAspValAspGlu+ 562461 : t..........................ag{AG}TTACAGATCTCAGATGTAGATGAAg : 591304 160 : >>>> Target Intron 11 >>>> TrpSer{L} >>>> Target Intron : 161 15136 bp ||||||{ } 70714 bp + ++TrpSer{*}++ 591305 : t..........................agtggtca{t}gt.................. : 606449 162 : 12 >>>> {ys}LeuGluSerGlyHisLeuProSerMetGlnGlnLeuValGln : 176 { !}:::||| ||| ||| ||| ||| ||| ++{**}IleGluLeuGlyPheLeuHisCysLysGlnIleLeuTyrGln-+ 606450 : ........ag{ga}atcgaactggggttcttacattgcaagcagattctttaccagct : 677205 177 : >>>> Target Intron 13 >>>> IleLeuAspAsnGlu{Me} >>>> Targ : 181 47574 bp !! !!!:||||||{! } ++His***GluAsnGlu{Se}++ 677206 : ..........................agcACTAAGAAAATGAA{AG}gt......... : 724798 182 : et Intron 14 >>>> {t}Lys{Le} >>>> Target Intron 15 >>>> : 183 108992 bp { }:::{ } 31301 bp ++{r}Arg{Ar}++ + 724799 : .................ag{C}CGC{AG}gt..........................a : 865093 184 : {u}AsnValHisMetAspSerIleProHisHis : 193 {!}::: |||... :::||||||||| +{g}SerArgHisPhePhePheLeuProHisHis 865094 : g{a}agcaggcatttttttttcctacctcatcAT : 865125 vulgar: SPP00000025_1.0 34 193 . NIVO01008816.1:subseq(494279,1406561) 20761 865125 + 101 M 12 36 S 0 2 5 0 2 I 0 16444 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 13835 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 33226 3 0 2 S 1 2 M 5 15 5 0 2 I 0 75352 3 0 2 M 1 3 5 0 2 I 0 11147 3 0 2 M 11 33 S 0 2 5 0 2 I 0 128174 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 134558 3 0 2 S 1 1 M 19 57 S 0 1 5 0 2 I 0 86828 3 0 2 S 1 2 M 27 81 S 0 2 5 0 2 I 0 41752 3 0 2 S 1 1 M 17 51 S 0 1 5 0 2 I 0 28814 3 0 2 S 1 2 M 8 24 5 0 2 I 0 15132 3 0 2 M 2 6 S 0 1 5 0 2 I 0 70710 3 0 2 S 1 2 M 14 42 5 0 2 I 0 47570 3 0 2 M 5 15 S 0 2 5 0 2 I 0 108988 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 31297 3 0 2 S 1 1 M 10 30 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 20762 865125 101 + . gene_id 28 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 20762 20799 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 20762 20799 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 20800 20801 . + . intron_id 1 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 20800 37247 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 37246 37247 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 37248 37262 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 37248 37262 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 37263 37264 . + . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 37263 51101 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 51100 51101 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 51102 51115 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 51102 51115 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 51116 51117 . + . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 51116 84345 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 84344 84345 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 84346 84362 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 84346 84362 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 84363 84364 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 84363 159718 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159717 159718 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159719 159721 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159719 159721 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159722 159723 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159722 170872 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 170871 170872 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 170873 170907 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 170873 170907 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 170908 170909 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 170908 299085 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 299084 299085 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 299086 299112 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 299086 299112 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 299113 299114 . + . intron_id 7 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 299113 433674 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 433673 433674 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 433675 433733 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 433675 433733 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 433734 433735 . + . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 433734 520565 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 520564 520565 . + . intron_id 7 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 520566 520650 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 520566 520650 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 520651 520652 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 520651 562406 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 562405 562406 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 562407 562459 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 562407 562459 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 562460 562461 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 562460 591277 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 591276 591277 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 591278 591303 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 591278 591303 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 591304 591305 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 591304 606439 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 606438 606439 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 606440 606446 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 606440 606446 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 606447 606448 . + . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 606447 677160 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 677159 677160 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 677161 677204 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 677161 677204 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 677205 677206 . + . intron_id 13 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 677205 724778 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 724777 724778 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 724779 724795 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 724779 724795 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 724796 724797 . + . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 724796 833787 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833786 833787 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833788 833793 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833788 833793 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833794 833795 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833794 865094 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 865093 865094 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 865095 865125 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 865095 865125 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 20762 865125 101 + . alignment_id 28 ; Query SPP00000025_1.0 ; Align 20762 35 36 ; Align 37249 48 12 ; Align 51103 53 12 ; Align 84348 58 15 ; Align 159719 63 3 ; Align 170873 64 33 ; Align 299087 76 24 ; Align 433676 85 57 ; Align 520568 105 81 ; Align 562408 133 51 ; Align 591280 151 24 ; Align 606440 159 6 ; Align 677163 162 42 ; Align 724779 176 15 ; Align 833789 182 3 ; Align 865096 184 30 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 102 Query range: 0 -> 163 Target range: 190068 -> 1364273 1 : MetArgLeuLeuLeuLeuLeuLeu >>>> Target Intron 1 >>>> Val : 9 ||| |||||||||||||||||| 12275 bp ..! MetLeuLeuLeuLeuLeuLeuLeu-+ -+Ala 190069 : atgctgctgctgctactgctgctgct.........................tggcA : 202368 10 : AlaAlaSerAlaMetValArgSerGluAlaSerAlaAsnLeuGlyGlyValProSe : 28 :!!!.!!.! !:!::!!|||||| :!!||| !::! ! !! !:!!|||!! SerGlyLysLysValLeuArgSerProSerSerArgSerGlyGlnAspLeuProTh 202369 : TCTGGCAAGAAAGTCCTAAGGTCTCCCTCCTCTCGCTCTGGCCAGGACCTGCCCAC : 202425 29 : r{Ly} >>>> Target Intron 2 >>>> {s}ArgLeuLysMetGln >> : 35 !{::} 119853 bp {!} |||::: ||| r{Ar}++ ++{g}PheLeuArgArgGln++ 202426 : C{CG}gt.........................ag{a}tttctcaggaggcaggt.. : 322301 36 : >> Target Intron 3 >>>> TyrAlaThrGlyProLeuLeuLysPheGlnI : 45 52606 bp !.!|||||||||:!!! !!!.|||.... ++ArgValThrGlyProIleSerAsnPheSerP 322302 : .......................agAGAGTTACAGGGCCCATATCTAACTTCAGTT : 374935 46 : leCysValSer{Un} >>>> Target Intron 4 >>>> {k}GlyTyrArg : 52 !! ! ! !{..} 113611 bp {.}||| heIleAspVal{Th}++ ++{r}GlyAlaGly 374936 : TTATAGATGTC{AC}gt.........................ag{G}GGagcaggg : 488567 53 : Arg{Va} >>>> Target Intron 5 >>>> {l}Phe{Gl} >>>> Tar : 56 |||{ } 72944 bp {!}|||{ } Arg{Se}++ ++{r}Phe{Cy}++ 488568 : aga{ag}gt.........................ag{c}ttc{tg}gt........ : 561527 57 : get Intron 6 >>>> {u}GluTyrMetArgValIleSerGlnArgTyr >> : 67 2107 bp { }... !! !|||:!!||| !||| ++{s}SerLeuArgSerValLeuSerValSerTyr++ 561528 : .................ag{C}AGCCTCAGATCTGTTCTCTCTGTTTCATATgt.. : 563665 68 : >> Target Intron 7 >>>> ProAspIleArgIleGlu >>>> Target : 73 180969 bp ! !|||! !!:! ||| 112 ++LeuAspThrGlnTrpGlu++ 563666 : .......................agCTGGACACACAGTGGGAGgt........... : 744652 74 : Intron 8 >>>> GlyGluAsnTyrLeuPro{G} >>>> Target Intro : 79 846 bp ..!:!!::! ! !|||{:} 15355 bp ++AsnGlnSerValThrPro{G}++ 744653 : ..............agAATCAGTCTGTCACTCCA{G}gt................. : 857517 80 : n 9 >>>> {ln}ProIle >>>> Target Intron 10 >>>> TyrArg : 83 {!!}|||! ! 146588 bp !! ! ++{lu}ProAsn++ ++ThrPro 857518 : ........ag{AA}CCAAACgt..........................agACTCCC : 1019469 84 : HisIleAlaSerPheLeuSerValPheLysLeu{V} >>>> Target Intron : 95 |||:!!..!..!||||||..! ! ! |||{|} 185723 bp HisLeuCysAspPheLeuGluSerHisPheLeu{V}++ 1019470 : CACCTCTGTGACTTCCTGGAGAGCCACTTCCTA{G}gt.................. : 1019508 96 : 11 >>>> {al}LeuIleGlyLeuIleIle{Va} >>>> Target Intron : 102 {||}||| !..!||| ! !{ } 62061 bp ++{al}LeuTyrSerLeuCysSer{Se}++ 1019509 : ........ag{TC}CTTTATTCTCTGTGTTCC{AG}gt.................. : 1205253 103 : 12 >>>> {l}GlyLysAspPro >>>> Target Intron 13 >>>> P : 107 {!}||||||||| ! 27952 bp | ++{r}GlyLysAspLys++ +-P 1205254 : ........ag{t}ggaAAGGACAAGgt..........................att : 1295277 108 : heAlaPhePheGly{Me} >>>> Target Intron 14 >>>> {t}GlnAl : 114 || ::: |||{! } 2011 bp { }::: heGlnTyrSerGly{Ar}++ ++{g}GluAs 1295278 : tccagtattctggg{ag}gt..........................ag{a}gaaga : 1297309 115 : aProSerIleTrpGlnTrpGly >>>> Target Intron 15 >>>> GlnG : 123 ||| |||::: ||| 25771 bp :!!| pProLeuIlePheLeuLeuGly++ ++GluG 1297310 : ccctttaatatttcttttgggGgt..........................agGAGG : 1323107 124 : luAsnLysValTyrAlaCysMetMet >>>> Target Intron 16 >>>> : 132 || ! ! :!!:!! !!|||:!:..! 7687 bp luAlaHisLeuHisProCysLeuGln++ ++ 1323108 : AGGCTCATTTACACCCTTGCCTTCAGgt..........................ag : 1330819 133 : {V} >>>> Target Intron 17 >>>> {al}PhePheLeuSerAsnMetI : 139 {|} 7133 bp {||} :::||| :::. {V}++ ++{al}ThrSerIleSerLeuLeuP 1330820 : {G}gt..........................ag{tc}acctctatctccctcctct : 1337975 140 : leGluAsnGln{C} >>>> Target Intron 18 >>>> {ys}MetSerTh : 146 .....::: {|} 23677 bp {||} ||||| heSerSerPro{C}++ ++{ys}LysSerTh 1337976 : tctcttctcca{t}gt..........................ag{gc}aagagtac : 1361673 147 : rGly >>>> Target Intron 19 >>>> AlaPheGluIleThrLeuAsnA : 155 |||| 2547 bp ! !!!!: !!.!||| ! rGly++ ++IleValAspGlyAsnLeuProL 1361674 : tggagt..........................agATCGTTGATGGTAATCTTCCCC : 1364247 156 : spValProValTrpSerLysLeuGlu : 163 !||||||:!!|||:!! ! |||:!! euValProLeuTrpAlaHisLeuGln 1364248 : TTGTCCCTTTATGGGCCCATCTCCAG : 1364273 vulgar: SPP00000025_1.0 0 163 . NIVO01008816.1:subseq(494279,1406561) 190068 1364273 + 102 M 8 24 5 0 2 I 0 12271 3 0 2 M 20 60 S 0 2 5 0 2 I 0 119849 3 0 2 S 1 1 M 5 15 5 0 2 I 0 52602 3 0 2 M 14 42 S 0 2 5 0 2 I 0 113607 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 72940 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 2103 3 0 2 S 1 1 M 10 30 5 0 2 I 0 180965 3 0 2 M 6 18 5 0 2 I 0 112842 3 0 2 M 6 18 S 0 1 5 0 2 I 0 15351 3 0 2 S 1 2 M 2 6 5 0 2 I 0 146584 3 0 2 M 13 39 S 0 1 5 0 2 I 0 185719 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 62057 3 0 2 S 1 1 M 4 12 5 0 2 I 0 27948 3 0 2 M 5 15 S 0 2 5 0 2 I 0 2007 3 0 2 S 1 1 M 9 27 5 0 2 I 0 25767 3 0 2 M 10 30 5 0 2 I 0 7683 3 0 2 S 0 1 5 0 2 I 0 7129 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 23673 3 0 2 S 1 2 M 4 12 5 0 2 I 0 2543 3 0 2 M 16 48 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 190069 1364273 102 + . gene_id 29 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 190069 190092 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 190069 190092 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 190093 190094 . + . intron_id 1 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 190093 202367 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 202366 202367 . + . intron_id 0 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 202368 202429 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 202368 202429 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 202430 202431 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 202430 322282 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 322281 322282 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 322283 322298 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 322283 322298 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 322299 322300 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 322299 374904 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 374903 374904 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 374905 374948 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 374905 374948 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 374949 374950 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 374949 488559 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 488558 488559 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 488560 488574 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 488560 488574 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 488575 488576 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 488575 561518 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561517 561518 . + . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561519 561524 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561519 561524 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561525 561526 . + . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561525 563631 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 563630 563631 . + . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 563632 563662 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 563632 563662 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 563663 563664 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 563663 744631 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 744630 744631 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 744632 744649 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 744632 744649 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 744650 744651 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 744650 857495 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 857494 857495 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 857496 857514 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 857496 857514 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 857515 857516 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 857515 872869 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 872868 872869 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 872870 872877 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 872870 872877 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 872878 872879 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 872878 1019465 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1019464 1019465 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1019466 1019505 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1019466 1019505 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1019506 1019507 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1019506 1205228 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1205227 1205228 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1205229 1205250 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1205229 1205250 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1205251 1205252 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1205251 1267311 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1267310 1267311 . + . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1267312 1267324 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1267312 1267324 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1267325 1267326 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1267325 1295276 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1295275 1295276 . + . intron_id 12 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1295277 1295293 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1295277 1295293 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1295294 1295295 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1295294 1297304 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1297303 1297304 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1297305 1297332 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1297305 1297332 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1297333 1297334 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1297333 1323103 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1323102 1323103 . + . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1323104 1323133 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1323104 1323133 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1323134 1323135 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1323134 1330820 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1330819 1330820 . + . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1330821 1330821 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1330821 1330821 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1330822 1330823 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1330822 1337954 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1337953 1337954 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1337955 1337987 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1337955 1337987 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1337988 1337989 . + . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1337988 1361664 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1361663 1361664 . + . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1361665 1361678 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1361665 1361678 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1361679 1361680 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1361679 1364225 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1364224 1364225 . + . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1364226 1364273 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1364226 1364273 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 190069 1364273 102 + . alignment_id 29 ; Query SPP00000025_1.0 ; Align 190069 1 24 ; Align 202368 9 60 ; Align 322284 30 15 ; Align 374905 35 42 ; Align 488561 50 12 ; Align 561520 55 3 ; Align 563633 57 30 ; Align 744632 67 18 ; Align 857496 73 18 ; Align 872872 80 6 ; Align 1019466 82 39 ; Align 1205231 96 18 ; Align 1267313 103 12 ; Align 1295277 107 15 ; Align 1297306 113 27 ; Align 1323104 122 30 ; Align 1337957 133 30 ; Align 1361667 144 12 ; Align 1364226 148 48 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 100 Query range: 17 -> 192 Target range: 48634 -> 878835 18 : GluAlaSerAlaAsnLeuGlyGlyValProSerLysArgLeu{Ly} >>>> Targe : 32 ||| ::: |||||||||::: ...:::||| {!:} 2 GluLysThrLeuMetLeuGlyGlyIleGlyGlyArgArgLys{Ar}+- 48635 : gaaaagactctgatgctgggagggattgggggcaggaggaaa{ag}gg.......... : 48681 33 : t Intron 1 >>>> {s}MetGlnTyrAla{T} >>>> Target Intron 2 : 37 423 bp {!}! !:!!:::!!{ } 96459 bp ++{g}ArgArgTrpSer{G}++ 48682 : ...............ag{a}AGACGGTGGTCA{G}gt..................... : 51118 38 : >>>> {hr}GlyPro{L} >>>> Target Intron 3 >>>> {eu}LeuLys : 42 { !}||||||{ } 160641 bp { !}|||||| ++{ly}GlyPro{G}++ ++{lu}LeuLys 51119 : ....ag{ga}ggtcct{g}gt.........................ag{AG}TTGAAA : 308230 43 : PheGlnIleCys{Va} >>>> Target Intron 4 >>>> {l}SerUnkGlyT : 51 ||| ! !|||{! } 180313 bp {!}.!....||| PhePheSerCys{Gl}++ ++{y}GlyAlaGlyA 308231 : TTCTTCAGTTGT{GG}gt.........................ag{G}GGagcaggga : 488570 52 : yr{Ar} >>>> Target Intron 5 >>>> {g}ArgValPheGluGluTyrMe : 59 {||} 39754 bp {|} !!:!!||| !:!! !:! rg{Ar}++ -+{g}CysLeuPheIleLysLeuLe 488571 : ga{ag}gt.........................tg{G}TGCCTTTTCATAAAGCTTCT : 528348 60 : tArgValIleSerGlnArgTyrProAspIleArgIleGluGlyGlu{As} >>>> T : 75 :!:!!.! ..!! ! !!:!||| :!:||||||::: |||{!.} uLysAlaTrpGlnLeuAlaPheProArgValArgIleGlnArgGlu{Ar}+- 528349 : TAAAGCATGGCAGCTGGCTTTCCCCAGAGTGAGAattcagagagag{ag}ga...... : 528400 76 : arget Intron 6 >>>> {n}TyrLeuProGlnProIleTyrArgHisIleAlaS : 87 30838 bp {.} |||||| ||| ...| ++{g}GluSerSerGlnProArgAspArgThrGlnValS 528401 : ...................ag{g}gaatcttcccaacccagggatcgaactcaggtct : 559270 88 : erPheLeuSer{V} >>>> Target Intron 7 >>>> {al}PheLysLeuVa : 95 ||:::::::::{|} 2531 bp {||}||| ||| erTyrIleAla{V}++ ++{al}PheLeuLeuCy 559271 : cttacattgca{g}gt.........................ag{tc}ttccttctgtg : 561825 96 : lLeu{Il} >>>> Target Intron 8 >>>> {e}GlyLeuIleIleValGly : 103 |||{ } 12303 bp {!} !! !:!::!:|||||| sLeu{Se}++ ++{r}PheTyrLeuLeuValGly 561826 : tctt{tC}gt.........................ag{A}TTTTACCTGCTGGTGGGG : 574152 104 : >>>> Target Intron 9 >>>> LysAspProPheAlaPhePheGlyMetGl : 113 7957 bp :!!..!||||||:!! !!.!! !.!... ++ ++GluSerProPheSerValLeuLysPheSe 574153 : gt.........................agGAGAGCCCATTTTCCGTTCTCAAATTTTC : 582139 114 : nAlaProSerIleTrpGlnTrpGlyGlnGluAsnLysValTyrAlaCysMetMetVal : 132 ! ! !:!! !! ::! !! !|||.!.!.. !!:!!.. ::::::||| rArgMetAlaGlyCysArgLeuArg***GluGluSerSerPheValTyrLeuLeuVal 582140 : ACGAATGGCTGGGTGCAGGCTCAGGTGAGAGGAGAGCTCCTTTGtgtatttacttgtt : 582196 133 : PhePheLeuSerAsnMetIleGluAsn{G} >>>> Target Intron 10 >>>> : 142 ||||||......:!::!:||||||{.} 22018 bp CysPheLeuLysGlnLeuLeuGluAsn{S}++ 582197 : tgttttctaaagcaACTCTTGGAAAAT{A}gt.......................... : 582229 143 : {ln}CysMetSerThrGlyAlaPheGluIleThrLeuAsn{As} >>>> Targe : 155 {..}||| |||.!! !! ||| ::::::... { !} 5 ++{er}Cys***SerAlaArg***PheProLeuSerPhePro{Ly}++ 582230 : ag{GC}TGCTGATCAGCACGCTgatttcccctttccttcccc{aa}gt.......... : 604287 156 : t Intron 11 >>>> {p}ValProValTrpSerLysLeuGluSerGlyHisLeuP : 168 7017 bp { }:::||||||!! ||| ! ! !|||..! ||| ++{s}IleProValCysSerLeuSerMetSerSerAlaLeuS 604288 : ................ag{a}attcctGTTTGTAGTCTCTCCATGTCATCTGCACTGT : 661339 169 : roSerMetGlnGlnLeuValGlnIle{L} >>>> Target Intron 12 >>>> : 177 !!||| |||! ! ! ! !|||{:} 21502 bp erSerSerGlnLeuCysSerLeuIle{V}++ + 661340 : CTTCCTCCCAACTCTGTAGTTTAATT{G}gt..........................a : 682867 178 : {eu}AspAsnGlu{M} >>>> Target Intron 13 >>>> {et}LysLeuA : 184 {!!}! !.!..!{:} 101568 bp {!:}|||:!!| +{al}GlyThrSer{V}++ ++{al}LysValA 682868 : g{TT}GGGACTTCA{G}gt..........................ag{TA}AAGGTGA : 784457 185 : snValHisMet >>>> Target Intron 14 >>>> AspSerIleProHis : 192 ||||||||||| 94352 bp ..!|||:!!|||||| snValHisMet-+ ++SerSerLeuProHis 784458 : ATGTTCACATGct..........................agAGTAGTCTTCCTCAT : 878835 vulgar: SPP00000025_1.0 17 192 . NIVO01008816.1:subseq(494279,1406561) 48634 878835 + 100 M 14 42 S 0 2 5 0 2 I 0 2419 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 96455 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 160637 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 180309 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 39750 3 0 2 S 1 1 M 22 66 S 0 2 5 0 2 I 0 30834 3 0 2 S 1 1 M 15 45 S 0 1 5 0 2 I 0 2527 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 12299 3 0 2 S 1 1 M 6 18 5 0 2 I 0 7953 3 0 2 M 38 114 S 0 1 5 0 2 I 0 22014 3 0 2 S 1 2 M 12 36 S 0 2 5 0 2 I 0 57013 3 0 2 S 1 1 M 21 63 S 0 1 5 0 2 I 0 21498 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 101564 3 0 2 S 1 2 M 6 18 5 0 2 I 0 94348 3 0 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 48635 878835 100 + . gene_id 30 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 48635 48678 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 48635 48678 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 48679 48680 . + . intron_id 1 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 48679 51101 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 51100 51101 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 51102 51115 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 51102 51115 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 51116 51117 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 51116 147574 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 147573 147574 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 147575 147583 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 147575 147583 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 147584 147585 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 147584 308224 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 308223 308224 . + . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 308225 308246 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 308225 308246 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 308247 308248 . + . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 308247 488559 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 488558 488559 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 488560 488574 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 488560 488574 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 488575 488576 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 488575 528328 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 528327 528328 . + . intron_id 4 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 528329 528397 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 528329 528397 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 528398 528399 . + . intron_id 6 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 528398 559235 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559234 559235 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559236 559282 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559236 559282 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559283 559284 . + . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559283 561813 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 561812 561813 . + . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 561814 561832 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 561814 561832 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 561833 561834 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 561833 574135 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 574134 574135 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 574136 574154 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 574136 574154 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 574155 574156 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 574155 582111 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 582110 582111 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 582112 582226 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 582112 582226 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 582227 582228 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 582227 604244 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 604243 604244 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 604245 604284 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 604245 604284 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 604285 604286 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 604285 661301 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 661300 661301 . + . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 661302 661366 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 661302 661366 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 661367 661368 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 661367 682868 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 682867 682868 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 682869 682880 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 682869 682880 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 682881 682882 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 682881 784448 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 784447 784448 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 784449 784468 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 784449 784468 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 784469 784470 . + . intron_id 14 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 784469 878820 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 878819 878820 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 878821 878835 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 878821 878835 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 48635 878835 100 + . alignment_id 30 ; Query SPP00000025_1.0 ; Align 48635 18 42 ; Align 51103 33 12 ; Align 147577 38 6 ; Align 308227 41 18 ; Align 488561 48 12 ; Align 528330 53 66 ; Align 559237 76 45 ; Align 561816 92 15 ; Align 574137 98 18 ; Align 582112 104 114 ; Align 604247 143 36 ; Align 661303 156 63 ; Align 682871 178 9 ; Align 784451 182 18 ; Align 878821 188 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 101 Query range: 0 -> 191 Target range: 213782 -> 1165639 1 : MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGlu{A : 19 :::!.!||| !! !!!!||||||:!!|||.!!!.!!.!:!:! !..!||||||{! IleHisLeuLysSerPheLeuLeuLeuAlaThrLysGlyLeuGlyGluSerGlu{G 213783 : atTCATCTGAAATCATTTCTTCTGTTAGCCACTAAAGGCCTAGGGGAAAGTGAA{G : 213837 20 : l} >>>> Target Intron 1 >>>> {a}SerAlaAsnLeu{G} >>>> : 24 .} 74646 bp {!}...|||:!!! !{|} l}++ ++{y}GlyAlaAspPro{G}++ 213838 : G}gt.........................ag{t}ggagcAGATCCT{G}gt..... : 288501 25 : Target Intron 2 >>>> {ly}GlyValProSerLysArgLeuLysMetGln : 34 158711 bp {||} :::|||||| :::::: ++{ly}AspLeuProSerProGlyIleGluProVal 288502 : ....................ag{gg}gatcttcccagcccagggatcgaacctgtg : 447239 35 : TyrAlaThrGlyProLeu{L} >>>> Target Intron 3 >>>> {eu}Ly : 42 ...||| { } 46902 bp { !}:: SerLeuMetSerProAla{A}++ ++{sp}Ar 447240 : tctcttatgtctcctgca{g}gt.........................ag{at}ag : 494165 43 : sPheGlnIleCysValSerUnkGlyTyrArg{Ar} >>>> Target Intron : 53 :||| :::||| :::...{! } 108665 bp gPheValLeuCysHisIlePheArgPheHis{Me}++ 494166 : gttcgttttgtgtcatatttttagattccac{at}gt................... : 494202 54 : 4 >>>> {g}ValPheGluGluTyrMetArgValIleSer{Gl} >>>> Targ : 64 {!}||||||......:::::: ::: {..} ++{t}ValPheSerSerTrpLeuAlaLeuCysIle{Se}++ 494203 : ......ag{g}gtcttttccagttggttggctctttgtatc{ag}gt......... : 602900 65 : et Intron 5 >>>> {n}ArgTyrProAspIleArgIleGluGlyGluAsnTy : 76 7422 bp {.} !!!:!||| !||| |||:::|||:::||| ++{r}GlyPheProLeuIleLeuIleLysGlyLysAsnVa 602901 : ................ag{T}GGGTTCCCACTCATTctgataaaaggaaagaatgt : 610354 77 : r >>>> Target Intron 6 >>>> LeuProGlnProIleTyrArgHis : 85 18797 bp !|||||| !! !! ! !||| l++ ++GlyProGlnIleThrSerPheHis++ 610355 : agt.........................aggGCCCCCAGATCACTTCCTTTCATgt : 629178 86 : >>>> Target Intron 7 >>>> IleAlaSerPheLeuSerValPheLysLe : 94 38418 bp !||||||!!.:!!|||:!!.!! ! ++AlaAlaSerLeuValSerIleLeuProLy 629179 : .........................agGCTGCCTCCTTAGTTTCCATTCTCCCGAA : 667623 95 : uValLeuIleGlyLeuIle{Il} >>>> Target Intron 8 >>>> {e}V : 102 !|||:!!:!!!.!!!!! !{! } 45932 bp { }| sValValValAlaPheArg{Ar}++ ++{g}V 667624 : AGTGGTTGTTGCTTTTAGA{AG}gt.........................ag{G}G : 713579 103 : alGlyLys >>>> Target Intron 9 >>>> AspProPheAlaPhePhe{ : 111 |||||||| 1610 bp ||| !|||:!! !|||{ alGlyLys++ +-AspAsnPheSerAsnPhe{ 713580 : TGGGGAAGgt.........................aagatAATTTCTCTAATTTT{ : 715216 112 : G} >>>> Target Intron 10 >>>> {ly}MetGlnAlaProSerIleTr : 118 |} 17021 bp {||} ||||||! !!!! G}++ ++{ly}AlaGlnAlaHisCysGluIl 715217 : G}gt..........................ag{GG}GCTCAGGCTCACTGCGAGAT : 732258 119 : pGlnTrp >>>> Target Intron 11 >>>> GlyGlnGluAsnLysValT : 127 ...||| 31462 bp ! :!!::!:!!||| eSerTrp++ ++ProGlyGlnSerGluValG 732259 : CAGCTGGgt..........................agCCAGGCCAATCTGAGGTTC : 763747 128 : yrAla{C} >>>> Target Intron 12 >>>> {ys}MetMetValPhePh : 134 ! .!!{|} 3818 bp {||}::: ||||| lnThr{C}++ -+{ys}IleAsnTyrPhePh 763748 : AGACA{T}gt..........................tg{Gc}attaattacttttt : 767586 135 : eLeuSerAsnMetIleGluAsn{G} >>>> Target Intron 13 >>>> { : 142 |::: ... ||||||:!!{:} 31470 bp { eIleTyrGlu***IleGluHis{A}++ ++{ 767587 : tatttatgaaTGAATTGAACAC{A}gt..........................ag{ : 799081 143 : ln}CysMetSerThr{G} >>>> Target Intron 14 >>>> {ly}AlaP : 149 :!}|||:::::: {|} 78058 bp {||}!.! rg}CysLeuAlaLeu{G}++ ++{ly}GlyA 799082 : ga}tgtctggctcta{g}gt..........................ag{GG}GGGA : 877159 150 : heGluIleThrLeuAsnAspValProValTrp{S} >>>> Target Intron : 160 !:!!:!!!:! ! ...||||||:!!|||{ } 91231 bp snGlnValSerArgValSerValProLeuTrp{V}++ 877160 : ACCAAGTAAGTAGGGTATCAGTTCCCTTATGG{G}gt................... : 877195 161 : 15 >>>> {er}LysLeuGluSerGlyHisLeuProSerMetGlnGlnLeuValG : 175 { !} |||.........|||||| ||| ...:::::: ++{al}MetLeuSerLysAlaHisLeuThrSerHisSerArgMetSerG 877196 : .......ag{tg}atgctttctaaggcccacttgacttcacattccaggatgtctg : 968468 176 : lnIle{Le} >>>> Target Intron 16 >>>> {u}AspAsnGluMetLy : 182 { } 140043 bp {!}....!.|||! lySer{Ar}++ ++{g}SerGlnGluSerLe 968469 : gctct{ag}gt..........................ag{a}agcCAGGAGAGCTT : 1108532 183 : sLeuAsnValHis >>>> Target Intron 17 >>>> MetAspSerIleP : 191 !! !||| ! 57078 bp ||||||:::| u***AsnLysMet++ ++AlaAspSerLeuP 1108533 : GTAAAATAAAATGgt..........................aggcagattctttac : 1165637 192 : ro : 191 || ro 1165638 : ca : 1165639 vulgar: SPP00000025_1.0 0 191 . NIVO01008816.1:subseq(494279,1406561) 213782 1165639 + 101 M 18 54 S 0 2 5 0 2 I 0 74642 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 158707 3 0 2 S 1 2 M 16 48 S 0 1 5 0 2 I 0 46898 3 0 2 S 1 2 M 11 33 S 0 2 5 0 2 I 0 108661 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 7418 3 0 2 S 1 1 M 12 36 5 0 2 I 0 18793 3 0 2 M 8 24 5 0 2 I 0 38414 3 0 2 M 16 48 S 0 2 5 0 2 I 0 45928 3 0 2 S 1 1 M 3 9 5 0 2 I 0 1606 3 0 2 M 6 18 S 0 1 5 0 2 I 0 17017 3 0 2 S 1 2 M 9 27 5 0 2 I 0 31458 3 0 2 M 8 24 S 0 1 5 0 2 I 0 3814 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 31466 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 78054 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 91227 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 140039 3 0 2 S 1 1 M 9 27 5 0 2 I 0 57074 3 0 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 213783 1165639 101 + . gene_id 31 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 213783 213838 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 213783 213838 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 213839 213840 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 213839 288484 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 288483 288484 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 288485 288498 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 288485 288498 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 288499 288500 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 288499 447209 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 447208 447209 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 447210 447260 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 447210 447260 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 447261 447262 . + . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 447261 494162 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 494161 494162 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 494163 494199 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 494163 494199 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 494200 494201 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 494200 602864 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 602863 602864 . + . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 602865 602897 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 602865 602897 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 602898 602899 . + . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 602898 610319 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 610318 610319 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 610320 610356 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 610320 610356 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 610357 610358 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 610357 629153 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 629152 629153 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 629154 629177 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 629154 629177 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 629178 629179 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 629178 667595 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 667594 667595 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 667596 667645 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 667596 667645 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 667646 667647 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 667646 713577 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 713576 713577 . + . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 713578 713587 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 713578 713587 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 713588 713589 . + . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 713588 715197 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 715196 715197 . + . intron_id 8 ; splice_site "aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 715198 715216 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 715198 715216 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 715217 715218 . + . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 715217 732237 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 732236 732237 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 732238 732266 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 732238 732266 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 732267 732268 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 732267 763728 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 763727 763728 . + . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 763729 763753 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 763729 763753 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 763754 763755 . + . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 763754 767571 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 767570 767571 . + . intron_id 11 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 767572 767610 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 767572 767610 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 767611 767612 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 767611 799080 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 799079 799080 . + . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 799081 799095 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 799081 799095 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 799096 799097 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 799096 877153 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 877152 877153 . + . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 877154 877192 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 877154 877192 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 877193 877194 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 877193 968423 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 968422 968423 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 968424 968475 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 968424 968475 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 968476 968477 . + . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 968476 1108518 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1108517 1108518 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1108519 1108546 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1108519 1108546 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1108547 1108548 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1108547 1165624 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1165623 1165624 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1165625 1165639 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1165625 1165639 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 213783 1165639 101 + . alignment_id 31 ; Query SPP00000025_1.0 ; Align 213783 1 54 ; Align 288486 20 12 ; Align 447212 25 48 ; Align 494165 42 33 ; Align 602866 54 30 ; Align 610321 65 36 ; Align 629154 77 24 ; Align 667596 85 48 ; Align 713579 102 9 ; Align 715198 105 18 ; Align 732240 112 27 ; Align 763729 121 24 ; Align 767574 130 36 ; Align 799083 143 12 ; Align 877156 148 36 ; Align 968426 161 48 ; Align 1108520 178 27 ; Align 1165625 187 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 106 Query range: 2 -> 191 Target range: 361608 -> 1383761 3 : LeuLeuLeuLeuLeuLeuValAlaAla{Se} >>>> Target Intron 1 >> : 12 :!!|||||| !|||||||||!.! !{!:} 16927 bp ValLeuLeuThrLeuLeuValValTyr{As}++ 361609 : GTTTTGCTCACCCTTCTTGTTGTGTAC{AA}gt....................... : 361640 13 : >> {r}AlaMetValArgSerGluAlaSerAlaAsnLeuGly{G} >>>> Tar : 25 {!}|||:!:!.! !||| .!!||| ! !||| !{|} ++{n}AlaValAlaTyrSerPheThrSerTyrPheLeuLys{G}++ 361641 : ..ag{t}GCAGTAGCCTACTCTTTCACCAGCTATTTCTTAAAA{G}gt........ : 378605 26 : get Intron 2 >>>> {ly}ValPro{Se} >>>> Target Intron 3 : 28 11080 bp {||} |||{!!} 169561 bp ++{ly}PhePro{Ar}+- 378606 : .................ag{ga}tttcct{ag}gc..................... : 389695 29 : >>>> {r}LysArgLeuLysMetGlnTyrAlaThr{G} >>>> Target Int : 38 {!} ||| ::::::...||| ...{|} 27304 ++{g}AspArgThrGlnValSerTyrIleAla{G}++ 389696 : ....ag{g}gatcgaactcaggtctcttacattgca{g}gt............... : 559285 39 : ron 4 >>>> {ly}ProLeuLeuLysPheGlnIle >>>> Target Intro : 46 bp {||}||||||! ! ||| :!! 134547 bp ++{ly}ProLeuSerValPhePheLeu++ 559286 : ..........ag{GG}CCTCTGTCTGTCTTCTTCCTTgt................. : 586612 47 : n 5 >>>> CysValSerUnkGlyTyrArgArgValPhe{Gl} >>>> Targe : 56 |||:!!||| !|||!:!! !:!!|||{||} 5 ++CysMetSerValProTyrLysThrLeuPhe{Gl}++ 586613 : ........agTGTATGAGTGTTCCCTATAAGACTTTGTTT{GA}gt.......... : 721191 57 : t Intron 6 >>>> {u}Glu{T} >>>> Target Intron 7 >>>> { : 58 4286 bp {|}|||{ } 11463 bp { ++{u}Glu{G}++ ++{ 721192 : ...............ag{a}GAA{G}gt.........................ag{ : 786943 59 : yr}MetArgValIleSerGlnArgTyrProAspIleArgIleGluGly >>>> T : 74 }! ! !|||:!:||| !!:: ! :!:|||! ! ! ! ly}SerProValValSerIleSerTrpAspArgValArgAsnThrLys++ 786944 : GG}AGCCCTGTAGTGTCCATCTCCTGGGATAGAGTGAGAAATACAAAGgt...... : 786992 75 : arget Intron 8 >>>> GluAsnTyrLeuPro >>>> Target Intron : 79 12091 bp ::: :::||| 13109 bp ++AspValTrpLeu***++ 786993 : ...................aggatgtctggctctaggt.................. : 799098 80 : 9 >>>> GlnProIleTyrArgHisIleAlaSerPheLeuSerVal{P} >>> : 92 !!:!:||| !||| |||||||||||||||{ } ++IleSerLeuTyrPheHisGlnPheSerPheLeuSerVal{V}-+ 799099 : .......agATTTCCCTGTATTTTCAccagttttcatttctgtctgtG{G}tt... : 812247 93 : > Target Intron 10 >>>> {he}LysLeuValLeuIleGlyLeuIleIle : 101 50668 bp {!!} ! ||||||:!! |||:!! !:!: ++{al}HisLeuValIleTrpGlyMetGlyVal 812248 : .......................ag{TC}CACTTAGTGATTTGGGGGATGGGAGTG : 862939 102 : Val{Gl} >>>> Target Intron 11 >>>> {y}LysAspProPheAlaP : 109 |||{||} 30703 bp {|}!:!||| |||||| Val{Gl}++ +-{y}ArgAspValPheAlaV 862940 : GTA{GG}gt..........................at{A}AGAGAtgtatttgctg : 893666 110 : hePheGlyMet{Gl} >>>> Target Intron 12 >>>> {n}AlaProSe : 116 ::: :::{ } 3910 bp {!}!.!|||! alTyrPheIle{Tr}++ ++{p}ValProPh 893667 : tttattttata{tg}gt..........................ag{G}GTTCCATT : 897597 117 : rIleTrpGln >>>> Target Intron 13 >>>> TrpGlyGlnGluAsnL : 125 !:!:||| ! 50620 bp ||||||:!!...| eValTrpThr++ ++LeuGlyGlnLysThrL 897598 : TGTGTGGACGgt..........................agCTAGGGCAGAAAacca : 948244 126 : ys<->ValTyrAlaCysMetMetValPhe{Ph} >>>> Target Intron 14 : 134 || :::||| ||| ||| {.!} 160243 bp ysPheIleTyrIleCysLysTyrValCys{Il}++ 948245 : aatttatatatatttgtaaatatgtgtgt{at}gt..................... : 948278 135 : >>>> {e}LeuSerAsnMetIleGluAsnGlnCys >>>> Target Intro : 144 {.} ..!.!.! :!: !!|||:!! 18578 bp ++{e}SerGlnGluSerLeu***AsnLysMet++ 948279 : .....ag{a}agcCAGGAGAGCTTGTAAAATAAAATGgt................. : 1108549 145 : n 15 >>>> MetSerThrGlyAlaPheGluIleThrLeuAsnAsp >>>> Ta : 156 ::: ..!||||||!:!|||.!! ! !::!.!. ++ValTrpValGlyAlaTyrGluPheLeuSerSerGln++ 1108550 : .........aggtctggGTTGGAGCCTATGAATTTTTAAGTTCCCAGgt....... : 1127163 157 : rget Intron 16 >>>> ValProValTrp >>>> Target Intron 17 : 160 26476 bp |||||| !||| 113663 bp ++ValProAsnTrp++ 1127164 : ...................aggTTCCCAACTGGgt..................... : 1153651 161 : >>>> SerLysLeuGlu{S} >>>> Target Intron 18 >>>> {er} : 164 ||| !:!!{.} 27324 bp {.!} ++TrpLysGlyGln{A}++ -+{sp} 1153652 : .....agtggaAAGGACAA{G}gt..........................tg{at} : 1294649 165 : GlyHisLeuProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLe : 183 ||||||||| ...... |||... ||| ... |||...:: GlyHisLeuGlyCysPheHisValLeuAlaIleIleAsnSerAlaAlaMetAsnIl 1294650 : ggacatctaggttgtttccatgtcctggctattataaacagtgctgcgatgaacat : 1294705 184 : uAsnValHis >>>> Target Intron 19 >>>> MetAspSerIlePro : 191 :...|||||| 89030 bp :::||||||:::||| eGlyValHis++ ++ValAspSerLeuPro 1294706 : tggggtacatgt..........................aggtggattctttgccg : 1383761 vulgar: SPP00000025_1.0 2 191 . NIVO01008816.1:subseq(494279,1406561) 361608 1383761 + 106 M 9 27 S 0 2 5 0 2 I 0 16923 3 0 2 S 1 1 M 12 36 S 0 1 5 0 2 I 0 11076 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 169557 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 27300 3 0 2 S 1 2 M 7 21 5 0 2 I 0 134543 3 0 2 M 10 30 S 0 2 5 0 2 I 0 54282 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 11459 3 0 2 S 1 2 M 15 45 5 0 2 I 0 12087 3 0 2 M 5 15 5 0 2 I 0 13105 3 0 2 M 13 39 S 0 1 5 0 2 I 0 50664 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 30699 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 3906 3 0 2 S 1 1 M 6 18 5 0 2 I 0 50616 3 0 2 M 6 18 G 0 3 M 8 24 S 0 2 5 0 2 I 0 160239 3 0 2 S 1 1 M 9 27 5 0 2 I 0 18574 3 0 2 M 12 36 5 0 2 I 0 26472 3 0 2 M 4 12 5 0 2 I 0 113659 3 0 2 M 4 12 S 0 1 5 0 2 I 0 27320 3 0 2 S 1 2 M 22 66 5 0 2 I 0 89026 3 0 2 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 361609 1383761 106 + . gene_id 32 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 361609 361637 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 361609 361637 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 361638 361639 . + . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 361638 378564 . + . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 378563 378564 . + . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 378565 378602 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 378565 378602 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 378603 378604 . + . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 378603 389682 . + . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 389681 389682 . + . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 389683 389692 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 389683 389692 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 389693 389694 . + . intron_id 3 ; splice_site "gc" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 389693 559253 . + . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559252 559253 . + . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559254 559282 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559254 559282 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559283 559284 . + . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559283 586586 . + . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 586585 586586 . + . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 586587 586609 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 586587 586609 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 586610 586611 . + . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 586610 721156 . + . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 721155 721156 . + . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 721157 721188 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 721157 721188 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 721189 721190 . + . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 721189 775474 . + . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 775473 775474 . + . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 775475 775479 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 775475 775479 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 775480 775481 . + . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 775480 786942 . + . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 786941 786942 . + . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 786943 786989 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 786943 786989 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 786990 786991 . + . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 786990 799080 . + . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 799079 799080 . + . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 799081 799095 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 799081 799095 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 799096 799097 . + . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 799096 812204 . + . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 812203 812204 . + . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 812205 812244 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 812205 812244 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 812245 812246 . + . intron_id 10 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 812245 862912 . + . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 862911 862912 . + . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 862913 862946 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 862913 862946 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 862947 862948 . + . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 862947 893649 . + . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 893648 893649 . + . intron_id 10 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 893650 893679 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 893650 893679 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 893680 893681 . + . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 893680 897589 . + . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 897588 897589 . + . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 897590 897608 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 897590 897608 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 897609 897610 . + . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 897609 948228 . + . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 948227 948228 . + . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 948229 948275 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 948229 948275 . + . insertions 3 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 948276 948277 . + . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 948276 1108518 . + . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1108517 1108518 . + . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1108519 1108546 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1108519 1108546 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1108547 1108548 . + . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1108547 1127124 . + . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1127123 1127124 . + . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1127125 1127160 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1127125 1127160 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1127161 1127162 . + . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1127161 1153636 . + . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1153635 1153636 . + . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1153637 1153648 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1153637 1153648 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1153649 1153650 . + . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1153649 1267311 . + . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1267310 1267311 . + . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1267312 1267324 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1267312 1267324 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1267325 1267326 . + . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1267325 1294648 . + . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1294647 1294648 . + . intron_id 17 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1294649 1294716 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1294649 1294716 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1294717 1294718 . + . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1294717 1383746 . + . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1383745 1383746 . + . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1383747 1383761 . + . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1383747 1383761 . + . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 361609 1383761 106 + . alignment_id 32 ; Query SPP00000025_1.0 ; Align 361609 3 27 ; Align 378566 13 36 ; Align 389685 26 6 ; Align 559255 29 27 ; Align 586589 39 21 ; Align 721157 46 30 ; Align 775476 57 3 ; Align 786945 59 45 ; Align 799081 74 15 ; Align 812205 79 39 ; Align 862915 93 30 ; Align 893651 104 27 ; Align 897591 114 18 ; Align 948229 120 18 ; Align 948250 126 24 ; Align 1108520 135 27 ; Align 1127125 144 36 ; Align 1153637 156 12 ; Align 1267312 160 12 ; Align 1294651 165 66 ; Align 1383747 187 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 155 Query range: 27 -> 193 Target range: 1402876 -> 83385 28 : SerLysArgLeuLysMetGlnTyr{A} >>>> Target Intron 1 >>>> : 36 ||| ...::!!:!! ||||||{ } 22779 bp SerThrHisMetArgSerGlnTyr{A}++ ++ 1402876 : tccactcacatGAGAAGTCAATAC{A}gt.........................ag : 1380074 37 : {la}ThrGlyProLeuLeuLysPheGln{I} >>>> Target Intron 2 >> : 45 { !}|||||||||..!|||!!.|||! !{ } 130356 bp {rg}ThrGlyProPheLeuAsnPhePro{G}++ 1380073 : {ga}actggtccgttTCTTAATTTCCCA{G}gt....................... : 1380043 46 : >> {le}CysValSerUnk{G} >>>> Target Intron 3 >>>> {ly} : 50 { !}|||:::::: {!} 15987 bp { !} ++{ly}CysLeuAlaLeu{A}++ ++{sp} 1380042 : ..ag{ga}tgtctggctcta{g}gt.........................ag{AT} : 1233687 51 : TyrArgArgValPheGluGlu{Ty} >>>> Target Intron 4 >>>> {r : 58 |||!:! !! !||||||{ } 61589 bp {! ThrArgGlnPheAsnGluGlu{Se}++ ++{r 1233686 : ACAAGGCAATTCAATGAAGAA{AG}gt.........................ag{c : 1172073 59 : }MetArgValIleSer{G} >>>> Target Intron 5 >>>> {ln}ArgT : 66 }:::||||||...|||{.} 52992 bp {!.}:::| }IleArgValPheSer{A}++ ++{sn}LysT 1172072 : }attcgggtcttttcc{a}gt.........................ag{at}aaat : 1119059 67 : yrProAspIleArgIleGluGly{Gl} >>>> Target Intron 6 >>>> : 74 |||||::::::...... |||{..} 37192 bp yrProGluValGluPheLeuGly{Ar}++ ++ 1119058 : atccagaagtggaatttctgggc{cG}gt.........................ag : 1081843 75 : {u}AsnTyrLeuProGlnProIle >>>> Target Intron 7 >>>> Tyr : 82 {!}...::: ||| ::: 21252 bp ||| {g}GlyHisSerValGlnSerLeu++ ++Tyr 1081842 : {g}gggcacagtgttcagtccctggt.........................agtat : 1060567 83 : ArgHisIleAla{Se} >>>> Target Intron 8 >>>> {r}PheLeuSe : 90 ::: ::: {!.} 11441 bp {!}|||!!! LysGlyLeuPhe{Ly}++ ++{s}PhePheVa 1060566 : aagggtcttttc{aa}gt.........................ag{G}TTCTTTGT : 1049102 91 : rValPheLysLeuValLeuIleGlyLeuIle >>>> Target Intron 9 >> : 101 ! !...:::||| :::||| |||:!: 22828 bp lSerLeuGlnLeu***IleIleMetLeuLeu++ 1049101 : ATCTcttcaattataaataataatgttgCTGgt....................... : 1049067 102 : >> IleValGly >>>> Target Intron 10 >>>> LysAspProPheA : 108 :!!:!! ! 6618 bp |||||| !!! ++LeuLeuGln++ ++LysAspSerSerL 1049066 : ..agCTTCTACAGgt..........................agAAGGACTCCTCAA : 1019602 109 : laPhePheGlyMetGlnAlaProSerIleTrpGlnTrp >>>> Target Intr : 121 ! ! !!.!:!:|||||| !!|||:!:||| !||| 14517 b ysAlaProAlaLeuGlnAlaSerSerLeuTrpLeuTrp++ 1019601 : AGGCCCCTGCGCTCCAAGCCTCTTCATTGTGGTTGTGGgt................ : 1019561 122 : on 11 >>>> GlyGlnGlu{As} >>>> Target Intron 12 >>>> { : 124 p ! !||||||{||} 45800 bp { ++AspGlnGlu{As}++ ++{ 1019560 : ..........agGATCAGGAA{AA}gt..........................ag{ : 959235 125 : n}LysValTyr{Al} >>>> Target Intron 13 >>>> {a}CysMet : 131 |}...!.!|||{::} 58863 bp {!}|||||| n}SerAlaTyr{Se}++ ++{r}CysMet++ 959234 : c}tCTGCCTAC{AG}gt..........................ag{c}tgtatGgt : 900353 132 : >>>> Target Intron 14 >>>> {M} >>>> Target Intron 15 > : 131 43863 bp {|} 54258 bp ++{M}++ 900352 : ..........................ag{A}gt....................... : 856487 132 : >>> {et}ValPhePheLeuSerAsnMetIleGlu >>>> Target Intron : 141 {||}|||! !!:!:!!!:!|||:!:! :!! 55211 bp ++{et}ValSerTyrIleAsnAsnLeuLysGln++ 856486 : ...ag{TG}GTTTCTTATATAAATAATCTAAAGCAGgt.................. : 802200 142 : 16 >>>> >>>> Target Intron 17 >>>> Asn{Gl} >>>> Ta : 142 136656 bp |||{:!} ++++ ++Asn{Gl}++ 802199 : ........aggt..........................agAAT{GA}gt....... : 610328 143 : rget Intron 18 >>>> {n}CysMetSerThrGlyAlaPheGluIle >>> : 152 105144 bp {!}|||!!: ! !||| !||| ::: ++{u}CysIleLeuGlnGlyArgPheLeuLeu++ 610327 : ...................ag{G}TGCATCCTCCAAGGACGTTTTCTTCtggt... : 505156 153 : > Target Intron 19 >>>> ThrLeuAsnAsp >>>> Target Intro : 156 88443 bp ! !|||.!. 59536 bp ++GlyAlaAsnGln++ 505155 : .......................agGGAGCAAATCAGgt................. : 416701 157 : n 20 >>>> >>>> Target Intron 21 >>>> ValProValTrpSer : 160 29695 bp :!!||| !|||! ! ++++ ++IleProTyrTrpPhe 416700 : .........aggt..........................agATACCATATTGGTTT : 327460 161 : LysLeuGlu >>>> Target Intron 22 >>>> >>>> Target Int : 164 ||| !||| 114831 bp 62096 LysThrGlu+- ++++ 327459 : AAAACTGAGga..........................aggt............... : 212615 165 : ron 23 >>>> SerGlyHisLeuProSer >>>> Target Intron 24 > : 170 bp !!!||||||:!!|||!.! 25386 bp ++ThrGlyHisIleProLys+- 212614 : ...........agACAGGTCACATCCCTAAGga....................... : 150501 171 : >>> MetGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsnVal{H} : 186 :!: ! !! !:!! !:!! !!!:..! !!::!!||||||..!{:} ++ValThrGlyHisLeuAlaValArgGluGlyPheIleGlnLeuAsnThr{T} 150500 : ...agGTCACAGGGCATCTCGCAGTTAGAGAAGGCTTTATCCAATTAAATACA{T} : 125069 187 : >>>> Target Intron 25 >>>> {is}MetAspSerIleProHisHis : 193 41660 bp {!!} ! :!!|||||||||||| ++ ++{yr}SerLysAlaIleProHisHis 125068 : gt..........................ag{AC}TCCAAAGCTATTCCCCACCAC : 83386 vulgar: SPP00000025_1.0 27 193 . NIVO01008816.1:subseq(494279,1406561) 1402876 83385 - 155 M 8 24 S 0 1 5 0 2 I 0 22775 3 0 2 S 1 2 M 8 24 S 0 1 5 0 2 I 0 130352 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 15983 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 61585 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 52988 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 37188 3 0 2 S 1 1 M 7 21 5 0 2 I 0 21248 3 0 2 M 5 15 S 0 2 5 0 2 I 0 11437 3 0 2 S 1 1 M 13 39 5 0 2 I 0 22824 3 0 2 M 3 9 5 0 2 I 0 6614 3 0 2 M 17 51 5 0 2 I 0 14513 3 0 2 M 3 9 S 0 2 5 0 2 I 0 45796 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 58859 3 0 2 S 1 1 M 2 6 5 0 2 I 0 43859 3 0 2 S 0 1 5 0 2 I 0 54254 3 0 2 S 1 2 M 9 27 5 0 2 I 0 55207 3 0 2 5 0 2 I 0 136652 3 0 2 M 1 3 S 0 2 5 0 2 I 0 105140 3 0 2 S 1 1 M 9 27 5 0 2 I 0 88439 3 0 2 M 4 12 5 0 2 I 0 59532 3 0 2 5 0 2 I 0 29691 3 0 2 M 8 24 5 0 2 I 0 114827 3 0 2 5 0 2 I 0 62092 3 0 2 M 6 18 5 0 2 I 0 25382 3 0 2 M 16 48 S 0 1 5 0 2 I 0 41656 3 0 2 S 1 2 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 83386 1402876 155 - . gene_id 1 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1402852 1402876 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1402852 1402876 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1402850 1402851 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1380073 1402851 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1380073 1380074 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1380046 1380072 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1380046 1380072 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1380044 1380045 . - . intron_id 2 ; splice_site "Gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1249690 1380045 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1249690 1249691 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1249675 1249689 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1249675 1249689 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1249673 1249674 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1233688 1249674 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1233688 1233689 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1233663 1233687 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1233663 1233687 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1233661 1233662 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1172074 1233662 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1172074 1172075 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1172057 1172073 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1172057 1172073 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1172055 1172056 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1119065 1172056 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1119065 1119066 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1119034 1119064 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1119034 1119064 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1119032 1119033 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1081842 1119033 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1081842 1081843 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1081820 1081841 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1081820 1081841 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1081818 1081819 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1060568 1081819 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1060568 1060569 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1060551 1060567 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1060551 1060567 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1060549 1060550 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1049110 1060550 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1049110 1049111 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1049070 1049109 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1049070 1049109 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1049068 1049069 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026242 1049069 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1026242 1026243 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1026233 1026241 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1026233 1026241 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026231 1026232 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1019615 1026232 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1019615 1019616 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1019564 1019614 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1019564 1019614 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1019562 1019563 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1005047 1019563 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1005047 1005048 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1005036 1005046 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1005036 1005046 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1005034 1005035 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1005035 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 959223 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 856491 900353 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 856491 856492 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 856490 856490 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 856490 856490 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 856488 856489 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 802232 856489 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 802232 802233 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 802203 802231 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 802203 802231 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 802201 802202 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 802202 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 610336 746991 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 610336 610337 . - . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 610331 610335 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 610331 610335 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 610329 610330 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 505187 610330 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 505187 505188 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 505159 505186 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 505159 505186 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 505157 505158 . - . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 416716 505158 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 416716 416717 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 416704 416715 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 416704 416715 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 416702 416703 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 416703 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 327473 357167 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 327473 327474 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 327449 327472 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 327449 327472 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 327447 327448 . - . intron_id 22 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 327448 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 150522 212617 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 150522 150523 . - . intron_id 22 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 150504 150521 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 150504 150521 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 150502 150503 . - . intron_id 24 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 125118 150503 . - . intron_id 24 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 125118 125119 . - . intron_id 23 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 125069 125117 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 125069 125117 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 125067 125068 . - . intron_id 25 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 83409 125068 . - . intron_id 25 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 83409 83410 . - . intron_id 24 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 83386 83408 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 83386 83408 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 83386 1402876 155 - . alignment_id 1 ; Query SPP00000025_1.0 ; Align 1402877 28 24 ; Align 1380071 37 24 ; Align 1249688 46 12 ; Align 1233686 51 21 ; Align 1172073 59 15 ; Align 1119063 65 27 ; Align 1081841 75 21 ; Align 1060568 82 15 ; Align 1049109 88 39 ; Align 1026242 101 9 ; Align 1019615 104 51 ; Align 1005047 121 9 ; Align 959235 125 9 ; Align 900360 129 6 ; Align 802230 132 27 ; Align 610336 141 3 ; Align 505186 143 27 ; Align 416716 152 12 ; Align 327473 156 24 ; Align 150522 164 18 ; Align 125118 170 48 ; Align 83407 187 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 141 Query range: 16 -> 193 Target range: 1353511 -> 113220 17 : SerGluAlaSerAlaAsnLeuGlyGlyValProSerLysArgLeuLysMetGln{T : 35 |||:!! !!!!::! |||||| |||||||||:::...:::|||{| SerLysIleArgSerPheAlaGlyGlySerAspSerLysArgIleSerLeuGln{T 1353511 : AGCAAAATTAGGAGCTttgctggtggttcagacagtaaaagaatcagtctgcaa{t : 1353457 36 : } >>>> Target Intron 1 >>>> {yr}AlaThrGlyProLeuLeuLysP : 43 } 14812 bp {||}::: ...||| ||| | }++ ++{yr}SerLeuSerProProLeuTrpP 1353456 : }gt.........................ag{ac}tccctatctcctcctctttggt : 1338621 44 : heGlnIle >>>> Target Intron 2 >>>> Cys{Va} >>>> Targe : 47 || ::: 12288 bp |||{:!} 18 heGlyLeu++ ++Cys{Il}+- 1338620 : ttggtttggt.........................agtgc{at}ga.......... : 1326317 48 : t Intron 3 >>>> {l}SerUnkGlyTyrArg{Ar} >>>> Target Int : 53 8434 bp {!}!!! !||||||{||} 36800 ++{e}CysMetThrTyrArg{Ar}++ 1326316 : ...............ag{T}TGCATGACTTACAGA{AG}gt............... : 1137865 54 : ron 4 >>>> {g}ValPheGluGluTyrMetArgValIleSerGlnArgTyrPr : 67 bp {|}:::||| ||||||...:::...|||!!!:!! !||| ++{g}IlePheIleGluTyrPheLysAlaIleThrLysValTyrLe 1137864 : ..........ag{a}atatttattgaatattttaaagctatCACAAAAGTATACTT : 1101027 68 : o{A} >>>> Target Intron 5 >>>> {sp}IleArgIleGluGlyGluA : 75 !{:} 31791 bp {!!}:!!! ! !! !!.!|||. u{A}++ ++{sn}LeuIleSerGlyAlaGluG 1101026 : A{A}gt.........................ag{AT}TTAATATCAGGAGCAGAGG : 1069212 76 : snTyrLeuProGlnProIleTyrArg >>>> Target Intron 6 >>>> H : 84 !. ! ! !! !||||||:!! !!!.! 43081 bp | luGlnGlnLeuGlnProLeuAspHis++ ++H 1069211 : AACAGCAGCTCCAGCCTCTTGATCATgt.........................agC : 1026104 85 : isIleAlaSerPheLeuSerVal{Ph} >>>> Target Intron 7 >>>> : 92 || !|||||| :!!|||:!!{! } 4371 bp isGlnAlaSerThrValSerIle{**}++ -+ 1026103 : ATCAAGCTTCCACAGTAAGCATT{TA}gt.........................tg : 1021709 93 : {e}LysLeuValLeuIleGlyLeuIleIleValGly{L} >>>> Target Int : 104 { }...:::||| ||| ...:::||||||...{ } 62437 {*}SerIleValAspIle***PheValIleValSer{A}++ 1021708 : {a}agtatagttgatatataatttgtgatagtttca{g}gt............... : 1021670 105 : ron 8 >>>> {ys}AspProPhe{A} >>>> Target Intron 9 >>>> : 108 bp { } ||| {|} 22787 bp ++{la}LeuProThr{A}++ + 1021669 : ..........ag{ct}CTGCCTACA{G}gt.........................a : 936438 109 : {la}PhePheGlyMetGlnAlaPro{S} >>>> Target Intron 10 >>> : 116 {||}|||... |||...::: {|} 36052 bp +{la}PheLeuMetMetAspSerAla{S}++ 936437 : g{ca}tttctcatgatggactctgca{t}gt......................... : 936410 117 : > {er}Ile{Tr} >>>> Target Intron 11 >>>> {p}GlnTrpGly : 121 {||}:::{||} 53878 bp {|}::: ... ++{er}Val{Tr}++ ++{p}GluSerSer 936409 : .ag{ct}gta{tG}gt..........................ag{g}gaatcttct : 846468 122 : GlnGlu{A} >>>> Target Intron 12 >>>> {sn}LysValTyrAlaC : 129 ||| {|} 16983 bp {||}!!.:!!||| !| GlnPro{A}+- ++{sn}AsnLeuTyrLysC 846467 : caaccc{a}gg..........................ag{AC}AACTTATATAAAT : 829461 130 : ys{Me} >>>> Target Intron 13 >>>> {t}MetValPhePheLeuSe : 136 ||{:!} 57218 bp {!} :!!|||.!!:!!|| ys{Le}++ -+{u}AspLeuPheLeuIleSe 829460 : GC{TT}gt..........................tg{G}GATCTCTTTCTCATCAG : 772222 137 : rAsnMetIle{G} >>>> Target Intron 14 >>>> {lu}{A} >>>> : 141 ||||:!:|||{|} 50956 bp {||}{.} rAsnLeuIle{G}++ ++{lu}{G}++ 772221 : CAATTTAATA{G}gt..........................ag{AA}{G}gt.... : 721248 142 : Target Intron 15 >>>> {sn}GlnCysMetSerThrGlyAlaPheGluI : 151 15532 bp {..}::!|||!!:! !|||!.! ! !:!!! ++{ly}ArgCysIleMetThrAlaLeuAsnGlnA 721247 : ......................ag{GG}AGATGTATCATGACTGCATTAAACCAGA : 705689 152 : leThr{Le} >>>> Target Intron 16 >>>> {u}AsnAspValProVa : 158 |||{:!} 145872 bp {!}!..!!::!!|||:! rgThr{Il}++ ++{e}ArgGluLeuProLe 705688 : GGACT{AT}gt..........................ag{A}AGAGAGCTTCCTCT : 559796 159 : lTrpSerLysLeuGluSer{G} >>>> Target Intron 17 >>>> {ly} : 165 !|||||| ! !..!|||{|} 143059 bp {||} uTrpSerProHisArgSer{G}++ ++{ly} 559795 : TTGGAGCCCCCACAGGTCA{G}gt..........................ag{GG} : 416715 166 : HisLeuPro{S} >>>> Target Intron 18 >>>> {er}MetGlnGlnL : 173 ! ! !!{.} 24482 bp {.!}|||:!!::!| SerLysSer{A}++ ++{sp}MetLysArgL 416714 : AGCAAATCA{G}gt..........................ag{AC}ATGAAGAGGT : 392210 174 : euValGlnIleLeuAsp >>>> Target Intron 19 >>>> >>>> Ta : 179 ||:!!! ||||||.!. 35025 bp euLeuProIleLeuGln++ ++++ 392209 : TGCTACCTATTCTACAGgt..........................aggt....... : 357165 180 : rget Intron 20 >>>> >>>> Target Intron 21 >>>> AsnGl : 180 144550 bp 99352 bp ||| ++++ ++Asn** 357164 : ...................aggt..........................agAATTG : 113262 181 : uMetLysLeuAsnValHisMetAspSerIleProHisHis : 193 !! ...|||!!.!.!||| !!:|||:!:|||! ||| *SerSerLeuLysAlaHisProGluSerLeuProLeuHis 113261 : AAGTTCCTTGAAGGCACACCCTGAATCTTTGCCACTACAT : 113221 vulgar: SPP00000025_1.0 16 193 . NIVO01008816.1:subseq(494279,1406561) 1353511 113220 - 141 M 18 54 S 0 1 5 0 2 I 0 14808 3 0 2 S 1 2 M 10 30 5 0 2 I 0 12284 3 0 2 M 1 3 S 0 2 5 0 2 I 0 188430 3 0 2 S 1 1 M 5 15 S 0 2 5 0 2 I 0 36796 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 31787 3 0 2 S 1 2 M 15 45 5 0 2 I 0 43077 3 0 2 M 8 24 S 0 2 5 0 2 I 0 4367 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 62433 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 22783 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 36048 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 53874 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 16979 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 57214 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 50952 3 0 2 S 1 3 5 0 2 I 0 15528 3 0 2 S 1 2 M 11 33 S 0 2 5 0 2 I 0 145868 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 143055 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 24478 3 0 2 S 1 2 M 9 27 5 0 2 I 0 35021 3 0 2 5 0 2 I 0 144546 3 0 2 5 0 2 I 0 99348 3 0 2 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 113221 1353511 141 - . gene_id 2 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1353457 1353511 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1353457 1353511 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1353455 1353456 . - . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1338645 1353456 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1338645 1338646 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1338613 1338644 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1338613 1338644 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1338611 1338612 . - . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1326325 1338612 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1326325 1326326 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1326320 1326324 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1326320 1326324 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1326318 1326319 . - . intron_id 3 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1137886 1326319 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1137886 1137887 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1137868 1137885 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1137868 1137885 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1137866 1137867 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1101068 1137867 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1101068 1101069 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1101024 1101067 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1101024 1101067 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1101022 1101023 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1069233 1101023 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1069233 1069234 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1069186 1069232 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1069186 1069232 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1069184 1069185 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026105 1069185 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1026105 1026106 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1026079 1026104 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1026079 1026104 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026077 1026078 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1021708 1026078 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1021708 1021709 . - . intron_id 6 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1021673 1021707 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1021673 1021707 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1021671 1021672 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1021672 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 936437 959223 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 936437 936438 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 936413 936436 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 936413 936436 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 936411 936412 . - . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 936412 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 846476 900353 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 846476 846477 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 846459 846475 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 846459 846475 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 846457 846458 . - . intron_id 12 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 829476 846458 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 829476 829477 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 829457 829475 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 829457 829475 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 829455 829456 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 772239 829456 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 772239 772240 . - . intron_id 12 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 772210 772238 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 772210 772238 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 772208 772209 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 721254 772209 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 721254 721255 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 721251 721253 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 721251 721253 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 721249 721250 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 705719 721250 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 705719 705720 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 705682 705718 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 705682 705718 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 705680 705681 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559810 705681 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559810 559811 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559775 559809 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559775 559809 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559773 559774 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 416716 559774 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 416716 416717 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 416704 416715 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 416704 416715 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 416702 416703 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 392222 416703 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 392222 392223 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 392193 392221 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 392193 392221 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 392191 392192 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 392192 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 357167 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 113266 212617 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 113266 113267 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 113221 113265 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 113221 113265 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 113221 1353511 141 - . alignment_id 2 ; Query SPP00000025_1.0 ; Align 1353512 17 54 ; Align 1338643 36 30 ; Align 1326325 46 3 ; Align 1137885 48 15 ; Align 1101067 54 42 ; Align 1069231 69 45 ; Align 1026105 84 24 ; Align 1021707 93 33 ; Align 959234 105 9 ; Align 936435 109 21 ; Align 900359 117 3 ; Align 846475 119 15 ; Align 829474 125 15 ; Align 772238 131 27 ; Align 705717 142 33 ; Align 559809 154 33 ; Align 416714 166 9 ; Align 392220 170 27 ; Align 113266 179 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 138 Query range: 0 -> 189 Target range: 925534 -> 133314 1 : MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSer >>>> : 18 ::: |||||||||||||||||| |||||| :::... ... LeuLeuLeuLeuLeuLeuLeuLeuPheArgAlaSerGlnValAlaIleGlu++ 925534 : ctactactactactattgttgttatttagggcttcccaggtggcgatagaggt..... : 925481 19 : Target Intron 1 >>>> >>>> Target Intron 2 >>>> >>>> : 18 15279 bp 163213 bp ++++ ++++ 925480 : ....................aggt.........................aggt..... : 746989 19 : Target Intron 3 >>>> GluAlaSerAlaAsnLeuGlyGlyValProSerLys : 29 149654 bp :!!.!!||| !!|||!!!..! !!:!!|||||| ++LysThrSerProAsnPheSerArgLeuProSerLeu 746988 : ....................agAAAACCTCTCCTAATTTTTCCCGTCTCCCATCACTT : 597304 30 : ArgLeuLysMetGln >>>> Target Intron 4 >>>> Tyr{Al} >>>> : 36 ! !:!! !:!:||| 37507 bp !{ } LeuIleGlyLeuGln++ ++Val{Ar}++ 597303 : CTTATAGGATTACAGgt.........................agGTC{AG}gt..... : 559772 37 : Target Intron 5 >>>> {a}ThrGlyPro{L} >>>> Target Intron : 40 28159 bp {!}|||||||||{ } 94718 bp ++{g}ThrGlyPro{S}++ 559771 : ....................ag{G}ACAGGACCA{A}gt................... : 531602 41 : 6 >>>> {eu}LeuLysPheGlnIleCysVal{Se} >>>> Target Intron : 48 { !}||| |||.!..!!||||||{!!} 36696 bp ++{er}LeuHisPheAspPheCysVal{Tr}++ 531601 : ......ag{gt}cttcactTTGATTTTTGCGTG{TG}gt................... : 436859 49 : 7 >>>> {r}UnkGlyTyr >>>> Target Intron 8 >>>> >>>> Ta : 52 {!} ||| ! 42988 bp ++{p}LysGlyGlu++ ++++ 436858 : ......ag{G}AAGGGGGAGgt.........................aggt....... : 357165 53 : rget Intron 9 >>>> ArgArgValPheGluGluTyrMetArgValIleSerGl : 64 21470 bp !.!!:!..!|||:!!.!. ..!! !|||.!!||||| ++HisLysThrPheGlnHisArgGlnThrValPheSerGl 357164 : ..................agCATAAGACGTTCCAGCATAGACAGACTGTGTTTTCACA : 335661 65 : n{Ar} >>>> Target Intron 10 >>>> {g}Tyr >>>> Target Int : 67 |{||} 16871 bp {|} ! 1257 n{Ar}++ ++{g}Gln++ 335660 : G{AG}gt..........................ag{G}CAGgt............... : 318779 68 : ron 11 >>>> ProAspIleArgIleGluGlyGluAsnTyrLeuProGlnProIle : 81 bp !...|||! ! !! ! !......|||||||||...|||::! ++LysSerIleMetSerAlaAspAsnGluTyrLeuProAsnProLeu 318778 : ...........agAAATCGATAATGTCAGCTGACAatgagtatcttcccaaccctttA : 317482 82 : Tyr{Ar} >>>> Target Intron 12 >>>> {g}His{I} >>>> Targe : 85 !:!{||} 6056 bp {|}|||{:} Phe{Ar}+- ++{g}His{V}++ 317481 : TTT{AG}gc..........................ag{G}CAT{G}gt.......... : 311411 86 : t Intron 13 >>>> {le}AlaSerPheLeuSerValPheLysLeuValLeuIle : 97 7480 bp {!!}..!||||||!!!!!!:!!!:!|||||| ! !:!! ++{al}CysSerPhePheCysLeuTyrLysLeuSerAlaVal 311410 : ................ag{TA}TGTTCTTTCTTTTGTCTCTATAAACTCTCTGCAGTT : 303898 98 : GlyLeuIleIleValGlyLysAspProPheAlaPhePheGlyMetGlnAla >>>> : 115 !.!:!! !||||||||| ! ! ! ! !!!:!||| !!:!: ! ! AlaIleGlyIleValGlyAspThrGlnAsnProTyrPheArgValTrpLys++ 303897 : GCTATTGGTATTGTTGGAGACACACAGAACCCTTACTTCAGGGTCTGGAAGgt..... : 303842 116 : Target Intron 14 >>>> ProSerIleTrpGlnTrpGlyGlnGlu >>>> T : 124 16054 bp !! !:!:||| !|||||||||||| ++IlePheLeuTrpValTrpGlyGlnGlu+- 303841 : .....................agATTTTTTTGTGGGTATGGGGTCAGGAGga...... : 287761 125 : arget Intron 15 >>>> AsnLysValTyrAlaCysMetMetValPhePheLeu : 135 18161 bp ... |||...|||...::: |||||| ++LysThr***TyrGlyCysPheLeuPhePhePheLys 287760 : ....................agaaaacttgatatggctgttttcttttcttcttcaaa : 269569 136 : SerAsnMetIleGlu >>>> Target Intron 16 >>>> Asn{G} >>>> : 142 :::...:!! !:!! 13481 bp |||{ } AsnGlyValAlaLys++ ++Asn{*}++ 269568 : aatGGGGTGGCAAAGgt..........................agAAC{T}gt..... : 256064 143 : Target Intron 17 >>>> {ln}CysMetSerThr{G} >>>> Target In : 147 7727 bp { !}|||:::::: {|} 9805 ++{**}CysLeuAlaLeu{G}++ 256063 : .....................ag{ga}tgtctggctcta{g}gt.............. : 248322 148 : tron 18 >>>> {ly}AlaPheGluIleThrLeuAsnAspValProValTrp >> : 160 bp {||} ...:::...|||......|||||| ::: ++{ly}ProLeuAspPheThrPheGlnAspValTrpLeu***++ 248321 : ............ag{gc}ccacttgacttcacattccaggatgtctggctgtaggt.. : 238479 161 : >> Target Intron 19 >>>> SerLys >>>> Target Intron 20 >> : 162 6724 bp !!!||| 16077 bp ++ThrLys+- 238478 : ........................agACAAAGgg........................ : 231749 163 : >> LeuGluSerGlyHisLeu >>>> Target Intron 21 >>>> >>>> : 168 ! !:!!:!!||||||||| 3039 bp ++CysGlnAlaGlyHisLeu++ ++++ 231748 : ..agTGCCAGGCCGGGCACCTGgt..........................aggt.... : 212615 169 : Target Intron 22 >>>> ProSerMetGlnGlnLeuValGlnIleLeuAspA : 179 29191 bp |||::: :::::::::......| -+SerSerIlePheProSerIleArgValPheSerA 212614 : ......................tgtcctcaatctttcccagcatcagggtcttttcaa : 183393 180 : snGluMetLysLeuAsnVal{Hi} >>>> Target Intron 23 >>>> {s}M : 187 |||||::: |||::::::{ } 50046 bp {!}: snGluLeuAlaLeuHisIle{Se}++ ++{r}L 183392 : atgagttagctcttcacatc{ag}gt..........................ag{t}c : 133323 188 : etAspSer : 189 ::|||||| euAspSer 133322 : tggattcc : 133315 vulgar: SPP00000025_1.0 0 189 . NIVO01008816.1:subseq(494279,1406561) 925534 133314 - 138 M 17 51 5 0 2 I 0 15275 3 0 2 5 0 2 I 0 163209 3 0 2 5 0 2 I 0 149650 3 0 2 M 17 51 5 0 2 I 0 37503 3 0 2 M 1 3 S 0 2 5 0 2 I 0 28155 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 94714 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 36692 3 0 2 S 1 1 M 3 9 5 0 2 I 0 42984 3 0 2 5 0 2 I 0 21466 3 0 2 M 13 39 S 0 2 5 0 2 I 0 16867 3 0 2 S 1 1 M 1 3 5 0 2 I 0 1253 3 0 2 M 16 48 S 0 2 5 0 2 I 0 6052 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 7476 3 0 2 S 1 2 M 29 87 5 0 2 I 0 16050 3 0 2 M 9 27 5 0 2 I 0 18157 3 0 2 M 17 51 5 0 2 I 0 13477 3 0 2 M 1 3 S 0 1 5 0 2 I 0 7723 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 9801 3 0 2 S 1 2 M 12 36 5 0 2 I 0 6720 3 0 2 M 2 6 5 0 2 I 0 16073 3 0 2 M 6 18 5 0 2 I 0 3035 3 0 2 5 0 2 I 0 29187 3 0 2 M 18 54 S 0 2 5 0 2 I 0 50042 3 0 2 S 1 1 M 3 9 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 133315 925534 138 - . gene_id 3 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 925484 925534 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 925484 925534 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 925482 925483 . - . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 925483 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 2 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 910204 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 597338 746991 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 597338 597339 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 597287 597337 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 597287 597337 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 597285 597286 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559780 597286 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559780 559781 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559775 559779 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559775 559779 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559773 559774 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 531616 559774 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 531616 531617 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 531605 531615 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 531605 531615 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 531603 531604 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 436887 531604 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 436887 436888 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 436862 436886 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 436862 436886 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 436860 436861 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 400166 436861 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 400166 400167 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 400156 400165 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 400156 400165 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 400154 400155 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 400155 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 335698 357167 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 335698 335699 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 335657 335697 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 335657 335697 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 335655 335656 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 318786 335656 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 318786 318787 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 318782 318785 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 318782 318785 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 318780 318781 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 317525 318781 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 317525 317526 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 317475 317524 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 317475 317524 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 317473 317474 . - . intron_id 12 ; splice_site "GC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 311419 317474 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 311419 311420 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 311414 311418 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 311414 311418 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 311412 311413 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 303934 311413 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 303934 303935 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 303845 303933 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 303845 303933 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 303843 303844 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 287791 303844 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 287791 287792 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 287764 287790 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 287764 287790 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 287762 287763 . - . intron_id 15 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 269603 287763 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 269603 269604 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 269552 269602 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 269552 269602 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 269550 269551 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 256071 269551 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 256071 256072 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 256067 256070 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 256067 256070 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 256065 256066 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 248340 256066 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 248340 248341 . - . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 248325 248339 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 248325 248339 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 248323 248324 . - . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 238520 248324 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 238520 238521 . - . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 238482 238519 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 238482 238519 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 238480 238481 . - . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 231758 238481 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 231758 231759 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 231752 231757 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 231752 231757 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 231750 231751 . - . intron_id 20 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 215675 231751 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 215675 215676 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 215657 215674 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 215657 215674 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 215655 215656 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 215656 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 183427 212617 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 183427 183428 . - . intron_id 21 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 183371 183426 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 183371 183426 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 183369 183370 . - . intron_id 23 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 133325 183370 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 133325 133326 . - . intron_id 22 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 133315 133324 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 133315 133324 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 133315 925534 138 - . alignment_id 3 ; Query SPP00000025_1.0 ; Align 925535 1 51 ; Align 597338 18 51 ; Align 559780 35 3 ; Align 531615 37 9 ; Align 436885 41 21 ; Align 400165 49 9 ; Align 335698 52 39 ; Align 318785 66 3 ; Align 317525 67 48 ; Align 311418 84 3 ; Align 303932 86 87 ; Align 287791 115 27 ; Align 269603 124 51 ; Align 256071 141 3 ; Align 248338 143 12 ; Align 238518 148 36 ; Align 231758 160 6 ; Align 215675 162 18 ; Align 183427 168 54 ; Align 133324 187 9 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 138 Query range: 3 -> 187 Target range: 1391847 -> 81131 4 : LeuLeuLeuLeuLeuValAlaAlaSerAla >>>> Target Intron 1 >>> : 14 ||| !! !||||||:!!!.! !||| ! 155542 bp LeuThrGlnLeuLeuLeuValTrpSerLys++ 1391847 : CTGACTCAATTGCTACTTGTATGGTCAAAGgt........................ : 1391815 15 : > MetValArgSerGluAlaSerAlaAsnLeuGlyGlyValProSerLys >>> : 30 :!: ! !!!!:!!|||:!!!.! !|||!.!.!!..!||||||:!! ++ValGlnAlaThrGlnAlaAlaGlyCysLeuAlaSerThrProSerGln++ 1391814 : .agGTCCAAGCCACTCAAGCAGCTGGGTGCTTGGCGAGCACACCATCACAGgt... : 1236225 31 : > Target Intron 2 >>>> ArgLeuLysMetGlnTyr >>>> Target : 36 98342 bp !! ! ! :!:||| ! 494 ++LeuHisAspLeuGlnLys++ 1236224 : ......................agTTGCATGACTTACAGAAGgt............ : 1137865 37 : Intron 3 >>>> AlaThrGlyProLeuLeuLysPheGln >>>> Target : 45 17 bp !.!!:!||| !|||:!! !:!||| 1291 ++ValSerGlyCysLeuIleCysTyrGln+- 1137864 : .............agGTCAGTGGGTGTCTGATATGCTACCAGgg............ : 1088421 46 : Intron 4 >>>> IleCysValSer >>>> Target Intron 5 >>>> : 49 88 bp ::!|||:!!..! 49019 bp ++LeuCysLeuGln++ ++ 1088420 : .............agctCTGCCTACAGgt.........................ag : 910206 50 : >>>> Target Intron 6 >>>> {U} >>>> Target Intron 7 > : 49 53714 bp { } 47281 bp ++ ++{A}++ 910205 : gt.........................ag{A}gt...................... : 856487 50 : >>> {nk}GlyTyr{Ar} >>>> Target Intron 8 >>>> {g}ArgVa : 54 { }..!|||{||} 167827 bp {|}::::: ++{rg}AsnTyr{Ar}++ ++{g}GlnIl 856486 : ...ag{GA}AACTAC{AG}gt.........................ag{g}cagat : 641367 55 : lPheGluGlu >>>> Target Intron 9 >>>> TyrMetArgValIleSe : 63 :||| ::: 11115 bp ||||||:::||| || ePheTyrGln-+ +-TyrMetLysValLysSe 641366 : tttttaccagct.........................aatacatgaaagtgaaaag : 630225 64 : rGln{A} >>>> Target Intron 10 >>>> {rg}TyrProAspIleArg : 70 |:::{!} 110581 bp {!!}!:!! !|||:!! ! rGlu{S}++ ++{er}PheGlnAspLeuAsp 630224 : tgaa{a}gt..........................ag{GC}TTCCAGGATTTAGAT : 519623 71 : IleGlu >>>> Target Intron 11 >>>> GlyGluAsnTyrLeuProGl : 79 :!!||| 120383 bp ...:::::: |||:: LeuGlu++ ++AlaAspSerLeuProProGl 519622 : TTAGAGgt..........................aggcagattctttaccacctga : 399213 80 : nProIle{T} >>>> Target Intron 12 >>>> {yr}ArgHisIleAla : 86 :||| { } 11839 bp {!!}! !:!!|||||| uProPro{A}+- ++{sp}LeuTyrIleAla 399212 : gccacca{g}gg..........................ag{AT}CTCTATATAGCC : 387353 87 : SerPheLeuSerValPhe{Ly} >>>> Target Intron 13 >>>> {s}L : 94 !!!! !||||||||||||{!:} 968 bp {!}| ThrSerLeuSerValPhe{Ar}++ ++{g}L 387352 : ACCTCCCTCTCAGTATTC{AG}gt..........................ag{A}T : 386361 95 : euValLeuIleGlyLeuIleIle >>>> Target Intron 14 >>>> > : 102 |||||||| !||||||:!:!!: 29170 bp euValLeuProGlyLeuLeuMet-+ ++++ 386360 : TGGTTTTGCCTGGTTTGCTGATGct..........................aggt. : 357165 103 : >>> Target Intron 15 >>>> ValGlyLys >>>> Target Intron : 105 25419 bp ||||||||| 33855 bp +-ValGlyLys++ 357164 : .........................aaGTGGGAAAGgt.................. : 331737 106 : 16 >>>> AspProPheAlaPhePheGlyMetGlnAlaProSerIleTrpGln{ : 120 ||||||||| !|||!!. !!!: ! ! !!:!!!::|||{ ++AspProPheMetPheLeuLysIleIleAsnAsnProValTyrGln{ 331736 : ........agGACCCTTTTATGTTCTTAAAAATTATCAACAACCCTGTTTATCAG{ : 297839 121 : T} >>>> Target Intron 17 >>>> {rp}GlyGlnGluAsn{Ly} >> : 125 } 41952 bp {!!}|||! :!!|||{||} G}++ ++{ly}GlyLeuGlnAsn{Ly}++ 297838 : G}gt..........................ag{GG}GGTCTTCAGAAC{AA}gt.. : 255868 126 : >> Target Intron 18 >>>> {s}ValTyrAlaCys{Me} >>>> Targ : 130 17374 bp {|}::: ...|||{! } ++{s}MetSerGlyCys{Ar}++ 255867 : ........................ag{g}atgtctggctgt{ag}gt......... : 238479 131 : et Intron 19 >>>> {t}MetValPhePheLeuSerAsnMetIleGluAsnG : 142 50548 bp { } ...:::... :::::: :::...:::| +-{g}HisThrTyrMetCysAlaHisThrValSerSerG 238478 : .................ac{a}CATAcctacatgtgtgcacacacagtaTCTTCAC : 187899 143 : lnCysMetSerThrGlyAlaPheGlu{Il} >>>> Target Intron 20 >> : 151 || !.!.|||:!!|||.!!|||.!.{:!} 29107 bp lnLeuPheSerSerGlyThrPheHis{Va}++ 187898 : AACTTTTCAGCTCTGGAACCTTTCAC{gt}gt........................ : 187868 152 : >> {e}ThrLeuAsn{As} >>>> Target Intron 21 >>>> {p}Val : 156 {!}!:!:!!|||{..} 30655 bp {!} ++{l}SerIleAsn{Se}++ ++{r}Cys 187867 : ..ag{C}AGCATAAAC{AG}gt..........................ag{c}tgc : 128095 157 : ProValTrpSer >>>> Target Intron 22 >>>> Lys >>>> Targ : 162 ||| 3492 bp ||| ArgCysTrpHis++ ++Lys++ 128094 : cgatgctggcatgt..........................agAAGgt......... : 124583 163 : et Intron 23 >>>> LeuGluSerGlyHisLeuProSerMet{Gl} >>>> : 171 29041 bp !:!!!!!! !||| ! !!!!|||{::} ++GlyLysArgAspHisAspLysThrMet{Ar}++ 124582 : .................agGGGAAAAGAGACCATGACAAAACAATG{AG}gt.... : 95513 172 : Target Intron 24 >>>> {n}GlnLeuValGlnIleLeuAspAsnGluMe : 181 14335 bp {!}..!||| !||||||! ! ! ::! !! ++{g}MetLeuLysGlnIleSerLysSerPheIl 95512 : ......................ag{A}ATGCTGAAGCAAATCTCAAAATCTTTCAT : 81152 182 : tLysLeuAsnValHisMet : 187 :..!|||||| !!|||!!: eSerLeuAsnPheHisIle 81151 : ATCACTAAATTTCCATATA : 81132 vulgar: SPP00000025_1.0 3 187 . NIVO01008816.1:subseq(494279,1406561) 1391847 81131 - 138 M 10 30 5 0 2 I 0 155538 3 0 2 M 16 48 5 0 2 I 0 98338 3 0 2 M 6 18 5 0 2 I 0 49413 3 0 2 M 9 27 5 0 2 I 0 129184 3 0 2 M 4 12 5 0 2 I 0 49015 3 0 2 5 0 2 I 0 53710 3 0 2 S 0 1 5 0 2 I 0 47277 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 167823 3 0 2 S 1 1 M 5 15 5 0 2 I 0 11111 3 0 2 M 7 21 S 0 1 5 0 2 I 0 110577 3 0 2 S 1 2 M 7 21 5 0 2 I 0 120379 3 0 2 M 9 27 S 0 1 5 0 2 I 0 11835 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 964 3 0 2 S 1 1 M 8 24 5 0 2 I 0 29166 3 0 2 5 0 2 I 0 25415 3 0 2 M 3 9 5 0 2 I 0 33851 3 0 2 M 15 45 S 0 1 5 0 2 I 0 41948 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 17370 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 50544 3 0 2 S 1 1 M 20 60 S 0 2 5 0 2 I 0 29103 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 30651 3 0 2 S 1 1 M 5 15 5 0 2 I 0 3488 3 0 2 M 1 3 5 0 2 I 0 29037 3 0 2 M 9 27 S 0 2 5 0 2 I 0 14331 3 0 2 S 1 1 M 16 48 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 81132 1391847 138 - . gene_id 4 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1391818 1391847 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1391818 1391847 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1391816 1391817 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1236276 1391817 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1236276 1236277 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1236228 1236275 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1236228 1236275 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1236226 1236227 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1137886 1236227 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1137886 1137887 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1137868 1137885 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1137868 1137885 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1137866 1137867 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1088451 1137867 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1088451 1088452 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1088424 1088450 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1088424 1088450 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1088422 1088423 . - . intron_id 4 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1088423 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 959223 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 6 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 856491 910204 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 856491 856492 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 856490 856490 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 856490 856490 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 856488 856489 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 809209 856489 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 809209 809210 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 809199 809208 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 809199 809208 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 809197 809198 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 641372 809198 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 641372 641373 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 641356 641371 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 641356 641371 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 641354 641355 . - . intron_id 9 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 630241 641355 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 630241 630242 . - . intron_id 8 ; splice_site "aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 630219 630240 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 630219 630240 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 630217 630218 . - . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 519638 630218 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 519638 519639 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 519615 519637 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 519615 519637 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 519613 519614 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 399232 519614 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 399232 399233 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 399204 399231 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 399204 399231 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 399202 399203 . - . intron_id 12 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 387365 399203 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 387365 387366 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 387331 387364 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 387331 387364 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 387329 387330 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 386363 387330 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 386363 386364 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 386338 386362 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 386338 386362 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 386336 386337 . - . intron_id 14 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 386337 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 331749 357167 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 331749 331750 . - . intron_id 14 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 331740 331748 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 331740 331748 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 331738 331739 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 297885 331739 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 297885 297886 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 297839 297884 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 297839 297884 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 297837 297838 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 255887 297838 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 255887 255888 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 255871 255886 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 255871 255886 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 255869 255870 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 238497 255870 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 238497 238498 . - . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 238482 238496 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 238482 238496 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 238480 238481 . - . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 187934 238481 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 187934 187935 . - . intron_id 18 ; splice_site "ac" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 187871 187933 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 187871 187933 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 187869 187870 . - . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 158764 187870 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 158764 158765 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 158752 158763 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 158752 158763 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 158750 158751 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 128097 158751 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 128097 128098 . - . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 128081 128096 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 128081 128096 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 128079 128080 . - . intron_id 22 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 124589 128080 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 124589 124590 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 124586 124588 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 124586 124588 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 124584 124585 . - . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 95545 124585 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 95545 95546 . - . intron_id 22 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 95516 95544 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 95516 95544 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 95514 95515 . - . intron_id 24 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 81181 95515 . - . intron_id 24 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 81181 81182 . - . intron_id 23 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 81132 81180 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 81132 81180 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 81132 1391847 138 - . alignment_id 4 ; Query SPP00000025_1.0 ; Align 1391848 4 30 ; Align 1236276 14 48 ; Align 1137886 30 18 ; Align 1088451 36 27 ; Align 959236 45 12 ; Align 809207 50 6 ; Align 641371 53 15 ; Align 630241 58 21 ; Align 519636 66 21 ; Align 399232 73 27 ; Align 387363 83 30 ; Align 386362 94 24 ; Align 331749 102 9 ; Align 297885 105 45 ; Align 255885 121 12 ; Align 238496 126 12 ; Align 187933 131 60 ; Align 158763 152 9 ; Align 128096 156 15 ; Align 124589 161 3 ; Align 95545 162 27 ; Align 81180 172 48 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 131 Query range: 4 -> 193 Target range: 1019020 -> 227467 5 : LeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSerAlaAsnLe : 23 |||:!!||| !||||||.!!!!! !!!:!.!|||.!! !!:!!..!|||...:! LeuIleLeuLysValAlaThrArgArgIleAlaArgGly***SerGluAlaGlyVa 1019020 : CTGATTCTGAAAGTTGCTACTAGAAGAATAGCTAGAGGATAATCAGAGGCTGGAGT : 1018966 24 : uGlyGlyValPro{Se} >>>> Target Intron 1 >>>> {r}LysArg : 31 ! !!|||||||||{.!} 24873 bp {!}:::::: lArgGlyValPro{Gl}++ ++{y}ArgGln+ 1018965 : AAGGGGTGTCCCT{GG}gt.........................ag{g}aggcagg : 994069 32 : >>>> Target Intron 2 >>>> LeuLysMetGln >>>> Target In : 35 34834 bp ||| :!:||| 49019 + ++LeuCysLeuGln++ 994068 : t.........................agctCTGCCTACAGgt.............. : 959221 36 : tron 3 >>>> >>>> Target Intron 4 >>>> TyrAlaThrGlyPr : 39 bp 934 bp |||.!!.!!! !|| ++++ ++TyrThrAlaAspPr 959220 : ...........aggt.........................agTACACTGCAGATCC : 909258 40 : oLeuLeu{Ly} >>>> Target Intron 5 >>>> {s}PheGlnIleCysV : 47 |:!!|||{ !} 6116 bp { }...:!!:!!!! | oValLeu{Hi}++ ++{s}LeuLysVal***V 909257 : AGTACTC{CA}gt.........................ag{t}ctcAAAGTATGAG : 903118 48 : alSerUnkGlyTyr{Ar} >>>> Target Intron 6 >>>> {g}ArgVal : 54 ||.!! ||||||{||} 9021 bp {|}!:!:!! alGlyAsnGlyTyr{Ar}-+ ++{g}GlnIle 903117 : TTGGTAATGGATAT{AG}tt.........................ag{A}CAAATC : 894076 55 : PheGluGluTyrMetArgValIleSer{Gl} >>>> Target Intron 7 >> : 64 !:!..!:!!|||:!!|||:!! !! !{ } 199979 bp TyrSerGlnTyrValArgLeuTyrTyr{Il}++ 894075 : TATTCACAGTATGTGCGATTATATTAC{AT}gt....................... : 894042 65 : >> {n}ArgTyrProAspIleArgIleGluGlyGluAsnTyrLeuProGlnProI : 81 {!}!:!!:! !:!!:!:||||||! !..!|||:!!!::! !|||||| !| ++{e}LysPheValAsnLeuArgIleGlyAsnGluAspTrpTyrProGlnArgI 894041 : ..ag{A}AAATTTGTAAATCTGAGAATAGGAAATGAGGATTGGTATCCACAGAGGA : 694016 82 : leTyrArgHisIleAlaSerPheLeuSerValPhe >>>> Target Intron : 93 ||!::!.!|||.!!!.!!.!! !!!..!|||.!! 19686 bp leTrpAsnHisPheGlyLys***PheAspValIle++ 694015 : TTTGGAATCACTTTGGGAAATAGTTTGACGTCATTgt................... : 693978 94 : 8 >>>> LysLeuValLeuIleGlyLeuIleIleValGlyLysAspProPheAla : 108 !!.:!!|||:!! !! !!!!:!:!!: ! !! !|||||| ! ++AsnIleValIleAlaAspPheLeuMetSerLeuThrPheProPheLys 693977 : ......agAATATTGTCATTGCCGACTTCCTGATGAGCCTGACTTTTCCTTTCAAG : 674249 109 : PhePheGlyMetGlnAlaProSerIleTrpGln >>>> Target Intron 9 : 120 .!!.!.||| !!.!! !.!!:!!|||||| 54116 bp IleLeuGlyAspLeuGlyLeuGlyLeuTrpGln++ 674248 : ATCCTGGGGGACTTGGGCCTGGGCCTCTGGCAGgt..................... : 674211 121 : >>>> TrpGlyGlnGluAsnLysValTyrAlaCysMetMetValPhePheLeuSe : 136 ::: ...! !||||||... ...::: ...||| :: -+PheProLeuProArgThrValTyrThrLeuPheValCysLeuPhe***Th 674210 : ....tgttccctctgccaagAACAGTCTAcaccttgtttgtttgtttgttttaaac : 620049 137 : rAsnMetIle{G} >>>> Target Intron 10 >>>> {lu}AsnGlnCys : 143 :|||||||||{:} 52960 bp {!!}.!.!!.||| rAsnMetIle{L}++ ++{ys}GluHisCys 620048 : caaTATGATA{A}gt..........................ag{AA}GAGCATTGT : 567068 144 : MetSerThrGlyAlaPheGlu{Il} >>>> Target Intron 11 >>>> { : 151 :!!|||.!!! ! !!||||||{! } 21170 bp { LeuSerAlaValProPheGlu{Ly}++ ++{ 567067 : CTGTCTGCTGTCCCATTTGAA{AA}gt..........................ag{ : 545872 152 : e}ThrLeuAsn >>>> Target Intron 12 >>>> AspValProValTrp : 159 }|||||| 14247 bp ||| ! !! !||| s}ThrLeuLeu++ ++AspArgThrLysTrp 545871 : G}ACCCTGCTGgt..........................agGACAGGACCAAGTGG : 531603 160 : SerLysLeuGlu{Se} >>>> Target Intron 13 >>>> {r}GlyHis : 167 !!:!|||:!!{.!} 104816 bp {!} ||| LeuArgLeuGln{Gl}++ ++{y}CysHis+ 531602 : CTGAGGTTACAG{GG}gt..........................ag{a}tgtcatg : 426763 168 : >>>> Target Intron 14 >>>> LeuProSerMetGlnGlnLeuVal{Gl : 175 24295 bp ||||||:!!:!:! ! ||||||{.. + ++LeuProAlaLeuLeuProLeuVal{Me 426762 : t..........................agCTCCCTGCTCTTCTTCCTTTGGTC{AT : 402444 176 : } >>>> Target Intron 15 >>>> {n}IleLeuAspAsnGluMetLysL : 183 } 67408 bp {!}:::......||||||::: | }++ ++{t}ValPheSerAsnGluLeuAlaL 402443 : }gt..........................ag{g}gtcttttccaatgagttagctc : 335012 184 : euAsnVal{Hi} >>>> Target Intron 16 >>>> {s}MetAspSerIl : 190 ||::::::{ } 107512 bp {!}! |||..! euHisIle{Se}++ ++{r}ThrAspGlnSe 335011 : ttcatatc{ag}gt..........................ag{C}ACTGATCAATC : 227479 191 : eProHisHis : 193 !! !|||||| rGlnHisHis 227478 : TCAACATCAT : 227468 vulgar: SPP00000025_1.0 4 193 . NIVO01008816.1:subseq(494279,1406561) 1019020 227467 - 131 M 23 69 S 0 2 5 0 2 I 0 24869 3 0 2 S 1 1 M 2 6 5 0 2 I 0 34830 3 0 2 M 4 12 5 0 2 I 0 49015 3 0 2 5 0 2 I 0 930 3 0 2 M 7 21 S 0 2 5 0 2 I 0 6112 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 9017 3 0 2 S 1 1 M 11 33 S 0 2 5 0 2 I 0 199975 3 0 2 S 1 1 M 28 84 5 0 2 I 0 19682 3 0 2 M 27 81 5 0 2 I 0 54112 3 0 2 M 20 60 S 0 1 5 0 2 I 0 52956 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 21166 3 0 2 S 1 1 M 3 9 5 0 2 I 0 14243 3 0 2 M 9 27 S 0 2 5 0 2 I 0 104812 3 0 2 S 1 1 M 2 6 5 0 2 I 0 24291 3 0 2 M 8 24 S 0 2 5 0 2 I 0 67404 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 107508 3 0 2 S 1 1 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 227468 1019020 131 - . gene_id 5 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1018950 1019020 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1018950 1019020 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1018948 1018949 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 994077 1018949 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 994077 994078 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 994070 994076 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 994070 994076 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 994068 994069 . - . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 994069 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 959223 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 4 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 909271 910204 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 909271 909272 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 909248 909270 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 909248 909270 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 909246 909247 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 903132 909247 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 903132 903133 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 903102 903131 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 903102 903131 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 903100 903101 . - . intron_id 6 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 894081 903101 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 894081 894082 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 894045 894080 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 894045 894080 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 894043 894044 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 694066 894044 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 694066 694067 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 693981 694065 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 693981 694065 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 693979 693980 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 674295 693980 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 674295 674296 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 674214 674294 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 674214 674294 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 674212 674213 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 620098 674213 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 620098 620099 . - . intron_id 8 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 620037 620097 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 620037 620097 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 620035 620036 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 567077 620036 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 567077 567078 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 567043 567076 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 567043 567076 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 567041 567042 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 545873 567042 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 545873 545874 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 545863 545872 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 545863 545872 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 545861 545862 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 531616 545862 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 531616 531617 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 531587 531615 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 531587 531615 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 531585 531586 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426771 531586 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426771 426772 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426764 426770 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426764 426770 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426762 426763 . - . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 402469 426763 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 402469 402470 . - . intron_id 13 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 402443 402468 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 402443 402468 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 402441 402442 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 335035 402442 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 335035 335036 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 335002 335034 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 335002 335034 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 335000 335001 . - . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 227490 335001 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 227490 227491 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 227468 227489 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 227468 227489 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 227468 1019020 131 - . alignment_id 5 ; Query SPP00000025_1.0 ; Align 1019021 5 69 ; Align 994076 29 6 ; Align 959236 31 12 ; Align 909271 35 21 ; Align 903131 43 27 ; Align 894080 53 33 ; Align 694065 65 84 ; Align 674295 93 81 ; Align 620098 120 60 ; Align 567075 141 30 ; Align 545872 152 9 ; Align 531616 155 27 ; Align 426770 165 6 ; Align 402469 167 24 ; Align 335034 176 30 ; Align 227489 187 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 127 Query range: 0 -> 187 Target range: 925537 -> 31012 1 : MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGlu >> : 19 ::: ||||||||||||||||||::: ::::::...||| ||| LeuLeuLeuLeuLeuLeuLeuLeuLeuPheArgAlaSerGlnValAlaIleGlu++ 925537 : ttactactactactactattgttgttatttagggcttcccaggtggcgatagaggt.. : 925481 20 : >> Target Intron 1 >>>> >>>> Target Intron 2 >>>> {A} : 19 15279 bp 53714 bp {:} ++++ ++{S}+ 925480 : .......................aggt.........................ag{A}g : 856489 20 : >>>> Target Intron 3 >>>> {la}SerAlaAsnLeuGlyGlyValPro{S : 28 87711 bp {:!}|||:::||| |||||| |||{| + ++{er}SerSerAsnHisGlyGlyPhePro{S 856488 : t.........................ag{gc}tcctctaaccatggaggatttccc{a : 768752 29 : e} >>>> Target Intron 4 >>>> {r}LysArgLeuLysMet{G} >>>> : 34 |} 94193 bp {|}|||||||||!:! {!} e}+- ++{r}LysArgLeuArgGly{A}++ 768751 : g}gc.........................ag{C}AAACGACTCAGAGGT{C}gt.... : 674538 35 : Target Intron 5 >>>> {ln}TyrAlaThrGlyProLeuLeuLysPheGln : 45 103438 bp {:!}! !|||! !..!|||:!!! !:!! !:!! ++{rg}CysAlaLysAsnProIleTrpGluAsnGlu+ 674537 : .....................ag{GA}TGCGCGAAGAACCCAATTTGGGAAAATGAGg : 571070 46 : >>>> Target Intron 6 >>>> IleCysValSerUnkGlyTyrArgArgVal : 54 94634 bp :!! !:!!|||...|||!:!||| !:!! + ++ValThrLeuSerAlaGlyPheArgSerLeu 571069 : t.........................agGTTACTCTTTCCGCAGGATTCAGGTCTCTG : 476409 55 : >>>> Target Intron 7 >>>> PheGluGluTyrMetArgValIleSerGl : 64 4222 bp ||||||..! ! !|||::::::..... ++ ++PheGluSerArgArgArgLeuValGlnAs 476408 : gt.........................agTTTGAATCAAGGAGGAgactggttcaaga : 472157 65 : n >>>> Target Intron 8 >>>> ArgTyrProAspIleArgIleGluGlyG : 74 . 8202 bp !:! !!!: !|||||| !|||! p+- -+LysLeuGlyGluCysArgIleLeuGlyA 472156 : tgg.........................tgAAACTGGGAGAGTGCAGGATACTGGGAG : 463925 75 : luAsnTyrLeuProGln{P} >>>> Target Intron 9 >>>> {ro}IleTy : 82 !!:! ! ||||||! !{ } 41034 bp { !}||||| laSerLysLeuProPro{G}++ ++{ly}IleTy 463924 : CAAGCAAGCTTCCTCCA{G}gt.........................ag{gt}attta : 422867 83 : rArg >>>> Target Intron 10 >>>> HisIleAlaSerPheLeuSerVal : 91 |::: 34008 bp ||| !|||!!!|||:!!! !||| rLys++ ++His***AlaCysPheMetTyrVal 422866 : taaggt..........................agCACTAAGCATGTTTCATGTATGTC : 388832 92 : PheLys{Le} >>>> Target Intron 11 >>>> {u}ValLeuIleGlyLeu : 99 !! !{||} 3259 bp {|}:!!||||||! !||| HisThr{Le}++ +-{u}IleLeuIleValLeu 388831 : CATACG{TT}gt..........................ac{g}aTCCTCATCGTTTTA : 385549 100 : IleIle >>>> Target Intron 12 >>>> >>>> Target Intron 1 : 102 ! !:!: 28373 bp 12869 bp ThrLeu++ ++++ 385548 : ACCCTGgt..........................aggt.................... : 357165 103 : 3 >>>> ValGlyLysAspProPheAlaPhePhe{G} >>>> Target Intron : 111 ||||||!!..!. !!:! !|||! {|} 95931 bp ++ValGlyAsnGln***TyrAsnPheSer{G}++ 357164 : ......aggTTGGGAACCAGTAATACAACTTCTCA{G}gt.................. : 344268 112 : 14 >>>> {ly}MetGlnAlaPro{S} >>>> Target Intron 15 >>>> : 116 {||} ||| {:} 10183 bp ++{ly}CysLeuAlaLeu{A}++ + 344267 : ........ag{ga}tgtctggctcta{g}gt..........................a : 238143 117 : {er}Ile >>>> Target Intron 16 >>>> >>>> Target Intron : 118 {!!}||| 25519 bp 52798 bp +{la}Ile++ ++++ 238142 : g{ct}attgt..........................aggt.................. : 212615 119 : 17 >>>> TrpGlnTrp{Gl} >>>> Target Intron 18 >>>> {y}Gl : 122 |||:::|||{||} 1045 bp {|}.. ++TrpLysTrp{Gl}++ ++{y}Se 212614 : ........agTGgaaatgg{gg}gt..........................ag{C}AG : 158762 123 : nGluAsn{Ly} >>>> Target Intron 19 >>>> {s}ValTyrAlaCysMe : 130 . !|||{!:} 46799 bp {!}|||||| ! !!! rIleAsn{Ar}++ ++{g}ValTyrIleAsnIl 158761 : CATAAAC{AG}gt..........................ag{G}GTATACATCAATAT : 111939 131 : tMet{V} >>>> Target Intron 20 >>>> {al}PhePheLeuSerAsnMe : 138 ::!!{|} 14580 bp {||}|||||||||! ! eLeu{V}++ ++{al}PhePheLeuTyrLeuCy 111938 : CTTG{G}gt..........................ag{tc}tttttccTGTATTTGTG : 97335 139 : tIle{G} >>>> Target Intron 21 >>>> {lu}AsnGlnCysMetSerTh : 146 !!:{|} 9438 bp {||} ||| :::|| sMet{G}++ ++{lu}ValGlnThrLysThrTh 97334 : TATG{G}gt..........................ag{AA}Gtacaaaccaaaactac : 87873 147 : rGlyAlaPheGluIleThrLeu >>>> Target Intron 22 >>>> AsnAsp : 155 | :::...:::|||||| 17966 bp !!.:!! rMetArgTyrHisLeuThrLeu++ ++LysAsn 87872 : aatgaggtatcacctcacactggt..........................agAAAAAT : 69880 156 : ValProValTrpSerLysLeuGluSer >>>> Target Intron 23 >>>> G : 165 ! !|||!::!!!|||||| ||| 20733 bp | SerLeuValPheThrLysLeuPheSer++ ++G 69879 : TCTTTGGTATTTACAAAACTGTTCTCTgt..........................agg : 49117 166 : lyHisLeuProSerMetGlnGlnLeuValGlnIleLeuAspAsn >>>> Target : 180 || |||...::: ||| |||:::||| ... 180 lyLeuLysProGlyLeuLeuGlnTyrArgGlnValLeuTyrArg++ 49116 : gactgaagcctggtctcctgcaatacaggcaggttctttaccgagt............ : 49070 181 : Intron 24 >>>> GluMetLysLeuAsnValHisMet : 187 36 bp :::...||| ... |||::: ++LysPheLysThrLysLysHisLeu 49069 : ..............agaaatttaaaacaaaaaaacactta : 31013 vulgar: SPP00000025_1.0 0 187 . NIVO01008816.1:subseq(494279,1406561) 925537 31012 - 127 M 18 54 5 0 2 I 0 15275 3 0 2 5 0 2 I 0 53710 3 0 2 S 0 1 5 0 2 I 0 87707 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 94189 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 103434 3 0 2 S 1 2 M 10 30 5 0 2 I 0 94630 3 0 2 M 10 30 5 0 2 I 0 4218 3 0 2 M 10 30 5 0 2 I 0 8198 3 0 2 M 15 45 S 0 1 5 0 2 I 0 41030 3 0 2 S 1 2 M 3 9 5 0 2 I 0 34004 3 0 2 M 10 30 S 0 2 5 0 2 I 0 3255 3 0 2 S 1 1 M 7 21 5 0 2 I 0 28369 3 0 2 5 0 2 I 0 12865 3 0 2 M 9 27 S 0 1 5 0 2 I 0 95927 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 10179 3 0 2 S 1 2 M 1 3 5 0 2 I 0 25515 3 0 2 5 0 2 I 0 52794 3 0 2 M 3 9 S 0 2 5 0 2 I 0 1041 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 46795 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 14576 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 9434 3 0 2 S 1 2 M 13 39 5 0 2 I 0 17962 3 0 2 M 11 33 5 0 2 I 0 20729 3 0 2 M 15 45 5 0 2 I 0 18032 3 0 2 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 31013 925537 127 - . gene_id 6 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 925484 925537 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 925484 925537 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 925482 925483 . - . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 925483 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 2 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 856491 910204 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 856491 856492 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 856490 856490 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 856490 856490 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 856488 856489 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 768779 856489 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 768779 768780 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 768751 768778 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 768751 768778 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 768749 768750 . - . intron_id 4 ; splice_site "gc" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 674558 768750 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 674558 674559 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 674541 674557 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 674541 674557 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 674539 674540 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 571103 674540 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 571103 571104 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 571071 571102 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 571071 571102 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 571069 571070 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 476437 571070 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 476437 476438 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 476407 476436 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 476407 476436 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 476405 476406 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 472185 476406 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 472185 472186 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 472155 472184 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 472155 472184 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 472153 472154 . - . intron_id 8 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 463953 472154 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 463953 463954 . - . intron_id 7 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 463907 463952 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 463907 463952 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 463905 463906 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 422873 463906 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 422873 422874 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 422862 422872 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 422862 422872 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 422860 422861 . - . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 388854 422861 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 388854 388855 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 388822 388853 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 388822 388853 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 388820 388821 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 385563 388821 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 385563 385564 . - . intron_id 10 ; splice_site "ac" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 385541 385562 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 385541 385562 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 385539 385540 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 385540 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 344299 357167 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 344299 344300 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 344271 344298 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 344271 344298 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 344269 344270 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 248340 344270 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 248340 248341 . - . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 248325 248339 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 248325 248339 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 248323 248324 . - . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 238142 248324 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 238142 238143 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 238137 238141 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 238137 238141 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 238135 238136 . - . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 238136 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 159820 212617 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 159820 159821 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 159809 159819 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 159809 159819 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 159807 159808 . - . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 158764 159808 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 158764 158765 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 158752 158763 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 158752 158763 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 158750 158751 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 111953 158751 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 111953 111954 . - . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 111933 111952 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 111933 111952 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 111931 111932 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 97353 111932 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 97353 97354 . - . intron_id 19 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 97329 97352 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 97329 97352 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 97327 97328 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 87891 97328 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 87891 87892 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 87850 87890 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 87850 87890 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 87848 87849 . - . intron_id 22 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 69884 87849 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 69884 69885 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 69851 69883 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 69851 69883 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 69849 69850 . - . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 49118 69850 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 49118 49119 . - . intron_id 22 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 49073 49117 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 49073 49117 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 49071 49072 . - . intron_id 24 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 31037 49072 . - . intron_id 24 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 31037 31038 . - . intron_id 23 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 31013 31036 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 31013 31036 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 31013 925537 127 - . alignment_id 6 ; Query SPP00000025_1.0 ; Align 925538 1 54 ; Align 768777 20 24 ; Align 674557 29 15 ; Align 571101 35 30 ; Align 476437 45 30 ; Align 472185 55 30 ; Align 463953 65 45 ; Align 422871 81 9 ; Align 388854 84 30 ; Align 385562 95 21 ; Align 344299 102 27 ; Align 248338 112 12 ; Align 238140 117 3 ; Align 159820 118 9 ; Align 158763 122 9 ; Align 111952 126 18 ; Align 97351 133 21 ; Align 87889 141 39 ; Align 69884 154 33 ; Align 49118 165 45 ; Align 31037 180 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 123 Query range: 3 -> 195 Target range: 1392652 -> 302346 4 : LeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAla >>>> T : 20 :::|||!!!:!!:!!||| :::||| ||| |||::: IleLeuPheValIleValGluTrpAsnAlaLysValGlySerGlnGlu++ 1392652 : atacTTTTCGTCATAgtggaatggaatgcaaaagtaggaagtcaagaggt...... : 1392602 21 : arget Intron 1 >>>> SerAlaAsnLeu{G} >>>> Target Intron : 24 99844 bp ::!|||!!.:!!{.} 123140 bp ++AsnAlaLysIle{S}++ 1392601 : ...................agaaTGCTAAAATT{A}gt.................. : 1292745 25 : 2 >>>> {ly}GlyValProSerLysArgLeuLysMetGlnTyrAlaThrGlyP : 39 {!!} :::|||... ::::::::: ... | ++{er}AspLeuProAspProValIleGluLeuValSerLeuAlaThrP 1292744 : .......ag{gt}gatcttcctgacccagtgattgaacttgtgtctcttgcaaccc : 1169563 40 : roLeuLeuLys{P} >>>> Target Intron 3 >>>> {he}GlnIleCys : 46 || ||| { } 32449 bp { !}.!.||| ! roAlaLeuAla{A}++ ++{sp}AsnIleLeu 1169562 : ctgcattggca{g}gt.........................ag{AT}AATATCCTT : 1137093 47 : ValSerUnkGlyTyrArgArgValPheGlu{Gl} >>>> Target Intron 4 : 57 !!..! !|||!:!! !:!!|||:!!{.!} 12105 bp PheGlnLeuLysTyrGlnProLeuPheLys{As}++ 1137092 : TTCCAACTCAAATATCAACCGCTTTTTAAG{AA}gt.................... : 1137056 58 : >>>> {u}TyrMetArgValIleSerGlnArgTyrProAspIleArg{I} >> : 71 {.}|||:!:||||||:!:! !|||..!||| !!!!::!!! !{ } ++{n}TyrLeuArgValLeuPheGlnGluTyrSerGluValPro{A}++ 1137055 : .....ag{T}TACCTCAGGGTACTGTTCCAAGAATATTCAGAAGTTCCT{G}gt.. : 1124910 72 : >> Target Intron 5 >>>> {le}GluGlyGluAsnTyrLeuProGlnPro : 80 56350 bp { !}::: ||| |||||||||||| ++{la}GlnThrProAsnLeuLeuProGlnPro 1124909 : .......................ag{cc}caaactcctaatctactcccccagccc : 1068536 81 : Ile >>>> Target Intron 6 >>>> TyrArgHisIleAlaSerPheLeu : 89 ::: 42272 bp !:!! !! ! !|||||||||! ! Leu++ ++PheLeuProCysAlaSerPheTyr 1068535 : ctggt.........................agTTTCTTCCCTGTGCCAGCTTCTAC : 1026237 90 : {Se} >>>> Target Intron 7 >>>> {r}ValPheLysLeuValLeuIl : 97 {||} 22281 bp {|} ||| |||...::::: {Se}++ ++{r}LysPheLeuLeuAlaIleLe 1026236 : {AG}gt.........................ag{c}aaattcctgttggctatctt : 1003932 98 : eGlyLeuIle{Il} >>>> Target Intron 8 >>>> {e}ValGlyLys{ : 105 : ::::::{||} 55696 bp {|}:!!||||||{ uHisMetVal{Il}++ ++{e}LeuGlyLys{ 1003931 : acatatggta{at}gt.........................ag{A}TTGGGCAAA{ : 948212 106 : A} >>>> Target Intron 9 >>>> {sp}ProPheAlaPhePheGlyMet : 112 } 15139 bp { }|||!::!.!|||.!.! !||| A}++ ++{rg}ProTrpGlyPheLeuGluMet 948211 : A}gt.........................ag{GG}CCTTGGGGGTTCCTGGAGATG : 933052 113 : >>>> Target Intron 10 >>>> GlnAlaPro{Se} >>>> Target : 116 726 bp :!!||||||{||} 8 ++ ++GluAlaPro{Se}++ 933051 : gt..........................agGAAGCCCCA{AG}gt........... : 932310 117 : Intron 11 >>>> {r}IleTrpGlnTrpGlyGlnGluAsnLys >>>> Ta : 126 732 bp {|}:!: ! :!!|||.!!...|||... ! ++{r}LeuGlyLysTrpSerSerGluGlyGly++ 932309 : ...............ag{T}CTGGGCAAGTGGAGCAGCGAGGGAGGGgt....... : 923550 127 : rget Intron 12 >>>> >>>> Target Intron 13 >>>> ValTy : 127 13348 bp 9844 bp :::|| ++++ ++LeuTy 923549 : ...................aggt..........................agctgta : 900357 128 : r{A} >>>> Target Intron 14 >>>> {la}CysMetMetValPhePhe : 134 |{|} 33672 bp {||} :!!:!::!!!:! ! r{A}++ ++{la}LeuValLeuIleTyrAsn 900356 : t{G}gt..........................ag{CA}CTAGTGTTAATATATAAC : 866664 135 : LeuSerAsnMetIleGluAsnGln{C} >>>> Target Intron 15 >>>> : 143 !! !|||!!::!! !!..:!!{|} 19573 bp ThrIleAsnIleLeuLeuArgLys{C}++ + 866663 : ACTATTAATATACTCCTGAGGAAA{T}gt..........................a : 847065 144 : {ys}{Me} >>>> Target Intron 16 >>>> {t}SerThrGlyAlaPh : 149 {||}{! } 6619 bp { }|||! !|||!.!.! +{ys}{Se}++ ++{r}SerIleGlyValIl 847064 : g{GC}{AG}gt..........................ag{T}AGTATAGGTGTAAT : 840427 150 : eGluIleThrLeuAsnAsp >>>> Target Intron 17 >>>> ValProV : 158 . :!!|||||| !.!. 7053 bp ! !!| eIleLeuThrLeuLeuGln++ ++AsnAlaV 840426 : AATTCTAACCCTACTTCAGgt..........................agAATGCAG : 833347 159 : alTrpSerLysLeuGlu{Se} >>>> Target Intron 18 >>>> {r}Gl : 165 ||! ||| ! :!!|||{.!} 112028 bp {!}! al***SerAspIleGlu{Gl}++ ++{y}As 833346 : TATAATCTGATATTGAA{GG}gt..........................ag{G}GA : 721298 166 : yHisLeuProSerMetGlnGlnLeuValGlnIleLeuAspAsnGlu >>>> Tar : 181 ! !||||||:!! |||:!!:!!..!:!!!!! !.!.:!! pThrArgProSerLeuPheGlnValLeuSerLeuPheProGluLys++ 721297 : TACAAGACCCTCCCTGTTCCAAGTCCTCTCATTATTCCCTGAGAAGgt........ : 721248 182 : get Intron 19 >>>> MetLysLeuAsnValHis{Me} >>>> Target : 187 40772 bp |||:!!|||:!!|||{||} 132 ++TyrLysIleAsnIleHis{Me}++ 721247 : ..................agTATAAAATCAACATCCAT{AT}gt............ : 680456 188 : Intron 20 >>>> {t}{A} >>>> Target Intron 21 >>>> {sp} : 188 569 bp {|}{|} 121117 bp {||} ++{t}{A}++ ++{sp} 680455 : ..............ag{G}{G}gt..........................ag{at} : 426770 189 : Ser{Il} >>>> Target Intron 22 >>>> {e}ProHisHisArgSer : 195 {!!} 124401 bp {:}|||.!.||||||||| Val{Me}++ ++{t}ProGluHisArgSer 426769 : gtc{at}gt..........................ag{G}CCTGAGCACAGAAGT : 302347 vulgar: SPP00000025_1.0 3 195 . NIVO01008816.1:subseq(494279,1406561) 1392652 302346 - 123 M 16 48 5 0 2 I 0 99840 3 0 2 M 4 12 S 0 1 5 0 2 I 0 123136 3 0 2 S 1 2 M 18 54 S 0 1 5 0 2 I 0 32445 3 0 2 S 1 2 M 13 39 S 0 2 5 0 2 I 0 12101 3 0 2 S 1 1 M 13 39 S 0 1 5 0 2 I 0 56346 3 0 2 S 1 2 M 10 30 5 0 2 I 0 42268 3 0 2 M 8 24 S 0 2 5 0 2 I 0 22277 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 55692 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 15135 3 0 2 S 1 2 M 7 21 5 0 2 I 0 722 3 0 2 M 3 9 S 0 2 5 0 2 I 0 8728 3 0 2 S 1 1 M 9 27 5 0 2 I 0 13344 3 0 2 5 0 2 I 0 9840 3 0 2 M 2 6 S 0 1 5 0 2 I 0 33668 3 0 2 S 1 2 M 14 42 S 0 1 5 0 2 I 0 19569 3 0 2 S 1 4 5 0 2 I 0 6615 3 0 2 S 1 1 M 11 33 5 0 2 I 0 7049 3 0 2 M 8 24 S 0 2 5 0 2 I 0 112024 3 0 2 S 1 1 M 16 48 5 0 2 I 0 40768 3 0 2 M 6 18 S 0 2 5 0 2 I 0 132565 3 0 2 S 1 2 5 0 2 I 0 121113 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 124397 3 0 2 S 1 1 M 5 15 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 302347 1392652 123 - . gene_id 7 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1392605 1392652 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1392605 1392652 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1392603 1392604 . - . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1292761 1392604 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1292761 1292762 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1292748 1292760 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1292748 1292760 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1292746 1292747 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1169608 1292747 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1169608 1169609 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1169551 1169607 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1169551 1169607 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1169549 1169550 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1137102 1169550 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1137102 1137103 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1137059 1137101 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1137059 1137101 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1137057 1137058 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1124954 1137058 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1124954 1124955 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1124913 1124953 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1124913 1124953 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1124911 1124912 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1068563 1124912 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1068563 1068564 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1068531 1068562 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1068531 1068562 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1068529 1068530 . - . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026259 1068530 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1026259 1026260 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1026233 1026258 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1026233 1026258 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026231 1026232 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1003952 1026232 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1003952 1003953 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1003919 1003951 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1003919 1003951 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1003917 1003918 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 948223 1003918 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 948223 948224 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 948212 948222 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 948212 948222 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 948210 948211 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 933073 948211 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 933073 933074 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 933050 933072 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 933050 933072 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 933048 933049 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 932324 933049 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 932324 932325 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 932313 932323 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 932313 932323 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 932311 932312 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 923581 932312 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 923581 923582 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 923553 923580 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 923553 923580 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 923551 923552 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 923552 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 13 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 910204 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 866682 900353 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 866682 866683 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 866637 866681 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 866637 866681 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 866635 866636 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 847064 866636 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 847064 847065 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 847060 847063 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 847060 847063 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 847058 847059 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 840441 847059 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 840441 840442 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 840407 840440 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 840407 840440 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 840405 840406 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 833354 840406 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 833354 833355 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 833328 833353 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 833328 833353 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 833326 833327 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 721300 833327 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 721300 721301 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 721251 721299 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 721251 721299 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 721249 721250 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 680479 721250 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 680479 680480 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 680459 680478 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 680459 680478 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 680457 680458 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 547890 680458 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 547890 547891 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 547888 547889 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 547888 547889 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 547886 547887 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426771 547887 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426771 426772 . - . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426764 426770 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426764 426770 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426762 426763 . - . intron_id 22 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 302363 426763 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 302363 302364 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 302347 302362 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 302347 302362 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 302347 1392652 123 - . alignment_id 7 ; Query SPP00000025_1.0 ; Align 1392653 4 48 ; Align 1292761 20 12 ; Align 1169606 25 54 ; Align 1137100 44 39 ; Align 1124953 58 39 ; Align 1068561 72 30 ; Align 1026259 82 24 ; Align 1003951 91 30 ; Align 948222 102 9 ; Align 933071 106 21 ; Align 932324 113 9 ; Align 923580 117 27 ; Align 900361 126 6 ; Align 866680 129 42 ; Align 840440 145 33 ; Align 833354 156 24 ; Align 721299 165 48 ; Align 680479 181 18 ; Align 426769 189 3 ; Align 302362 191 15 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 121 Query range: 1 -> 194 Target range: 980423 -> 15420 2 : ArgLeuLeuLeuLeuLeuLeu >>>> Target Intron 1 >>>> >>>> T : 9 !:!|||||||||||||||||| 70198 bp LysLeuLeuLeuLeuLeuLeu-+ ++++ 980423 : AAGCTATTACTATTACTGCTGtt.........................aggt...... : 910202 10 : arget Intron 2 >>>> >>>> Target Intron 3 >>>> ValAlaAl : 11 163213 bp 120515 bp :!!||| ++++ ++IleAlaHi 910201 : ...................aggt.........................agATAGCTCA : 626470 12 : aSerAlaMetValArgSerGluAlaSer{A} >>>> Target Intron 4 >>>> : 21 ! ...:::::::::|||...|||...{!} 22820 bp sLeuCysValLeuLysSerSerAlaGly{G}++ 626469 : CCtctgtgtattaaaaagtagcgctggt{g}gt......................... : 626437 22 : {la}AsnLeuGlyGlyValProSerLysArgLeuLysMetGlnTyrAlaThr{Gl} : 38 {.!}..!|||||| :::|||:::::: |||::: :::||||||{ } ++{ly}GlyLeuGlyProIleProAsnGlnGlyThrLysIleProHisAlaThr{Pr} 626436 : ag{gc}ggCCTGGGTCccatccctaatcagggaactaagatcccacatgccaca{cc} : 603569 39 : >>>> Target Intron 5 >>>> {y}ProLeuLeuLysPheGln{I} >>> : 45 2384 bp {!}|||:!!|||!...!!|||{:} ++ ++{o}ProIleLeuSerLeuGln{L}++ 603568 : gt.........................ag{C}CCTATCCTGAGCCTTCAG{C}gt... : 601161 46 : > Target Intron 6 >>>> {le}CysValSerUnkGly{Ty} >>>> Targ : 51 33535 bp {!!} ||||||...! !{ !} ++{eu}SerValSerSerGlu{Ly}++ 601160 : ......................ag{ta}agtGTTTCATCAGAA{AA}gt......... : 567607 52 : et Intron 7 >>>> {r}ArgArgValPheGluGluTyrMetArgValIleSerG : 64 88843 bp { }!:!|||:!!! !|||!!: ! !||||||:!:!.!! ++{s}LysArgIleCysGluAspLysGluArgValValLysA 567606 : ................ag{G}AAGCGTATCTGTGAAGATAAGGAGAGAGTGGTGAAGC : 478729 65 : lnArgTyrProAsp >>>> Target Intron 8 >>>> IleArg{Il} >>> : 71 ::||| ! 29299 bp :!!|||{! } rgArgMetValArg++ ++LeuArg{Ar}++ 478728 : GCAGGATGGTGAGAgt.........................agCTTAGA{AG}gt... : 449405 72 : > Target Intron 9 >>>> {e}GluGlyGlu >>>> Target Intron 1 : 75 49242 bp { }:!!|||||| 42988 bp ++{g}LysGlyGlu++ 449404 : ......................ag{G}AAGGGGGAGgt.................... : 400153 76 : 0 >>>> >>>> Target Intron 11 >>>> AsnTyrLeuProGlnProIl : 81 16062 bp !.!!:!||||||||||||! ++++ ++ThrPheLeuProGlnProTh 400152 : ......aggt..........................agACCTTTCTGCCTCAACCCAC : 341087 82 : eTyrArg{H} >>>> Target Intron 12 >>>> {is}IleAlaSerPheLe : 89 !!:!! !{!} 695 bp {..}:::.........:: rPhePro{A}-+ ++{rg}LeuThrAspLeuIl 341086 : CTTCCCC{C}tt..........................ag{ga}ctgactgatttgat : 340368 90 : uSerValPheLysLeuValLeuIleGlyLeuIleIleValGlyLysAspProPheAla : 108 : :::|||||| ::: ... ::: ... eLeuLeuPheLysGlyLeuSerArgValPheSerAsnIleThrValGlnLysHisGln 340367 : cttgctgttcaagggactctcaagagtcttctccaacatcacagttcaaaagcatcaa : 340311 109 : PhePheGlyMetGlnAlaProSerIleTrpGln >>>> Target Intron 13 > : 120 ||||||||| ||| ||||||:::|||... 22194 bp PhePheGlyAlaGlnProProSerValTrpMet++ 340310 : ttctttggcgctcagcctccttctgtatggatggt....................... : 340273 121 : >>> TrpGlyGlnGluAsnLysVal{T} >>>> Target Intron 14 >>>> : 127 ||||||:!!!!:!.!..!! !{ } 14614 bp ++TrpGlyLysAspThrSerGlu{V}-+ + 340272 : ...agTGGGGTAAGGACACTTCAGAG{G}at..........................a : 303447 128 : {yr}AlaCysMetMetValPhePheLeuSerAsn{Me} >>>> Target Intro : 138 { } !|||:!!:!: !||||||:!!||| {||} 17672 bp +{al}LeuCysLeuLeuAsnPhePheIleSer***{Me}++ 303446 : g{TG}CTATGTTTGCTTAATTTCTTTATAAGTTGA{AT}gt................. : 303409 139 : n 15 >>>> {t}IleGluAsn{Gl} >>>> Target Intron 16 >>>> { : 142 {|}...|||..!{::} 14064 bp { -+{t}PheGluArg{Ar}++ ++{ 303408 : .........tg{g}tttGAACGC{AG}gt..........................ag{ : 271663 143 : n}CysMetSerThrGlyAlaPheGluIle >>>> Target Intron 17 >>>> : 152 !}|||! |||..! !! ! !|||!!: 26983 bp g}CysSerSerValLysAspProGluMet++ + 271662 : A}TGTAGTTCAGTGAAGGATCCTGAGATGgt..........................a : 244654 153 : ThrLeuAsnAspValProVal >>>> Target Intron 18 >>>> TrpSer : 160 :!!|||...|||:!! !!.! 15929 bp |||||| +SerLeuGlyAspIleLysAla++ ++TrpSer 244653 : gTCATTAGGAGATATTAAAGCAgt..........................agtggtca : 228699 161 : LysLeuGlu >>>> Target Intron 19 >>>> >>>> Target Intro : 164 :::||| 16070 bp 4169 bp CysMetGlu++ ++++ 228698 : tgtatggaggt..........................aggt................. : 212615 165 : n 20 >>>> SerGlyHisLeuProSerMetGlnGln >>>> Target Intron : 173 ::: ||||||::: ||| 112877 bp ++AlaAspSerLeuProAlaGluProGln+- 212614 : .........aggcagattctttaccagctgagccacaggg.................. : 208419 174 : 21 >>>> LeuValGlnIleLeuAspAsnGluMet{Ly} >>>> Target Int : 182 ! !::! !! !|||!!. !|||{!:} 56011 ++GlyLysArgAspHisAspLysThrMet{Ar}++ 208418 : ........agGGGAAAAGAGACCATGACAAAACAATG{AG}gt............... : 95513 183 : ron 22 >>>> {s}Leu{As} >>>> Target Intron 23 >>>> {n}Va : 185 bp {!}|||{||} 24047 bp {|} ++{g}Leu{As}++ ++{n}Pr 95512 : ...........ag{G}cta{aa}gt..........................ag{t}cc : 15450 186 : lHisMetAspSerIleProHisHisArg : 194 ::: |||||| |||||| oThrLeuThrSerIleHisAspHisArg 15449 : aactctcacatccatacatgaccacagg : 15421 vulgar: SPP00000025_1.0 1 194 . NIVO01008816.1:subseq(494279,1406561) 980423 15420 - 121 M 7 21 5 0 2 I 0 70194 3 0 2 5 0 2 I 0 163209 3 0 2 5 0 2 I 0 120511 3 0 2 M 12 36 S 0 1 5 0 2 I 0 22816 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 2380 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 33531 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 88839 3 0 2 S 1 1 M 17 51 5 0 2 I 0 29295 3 0 2 M 2 6 S 0 2 5 0 2 I 0 49238 3 0 2 S 1 1 M 3 9 5 0 2 I 0 42984 3 0 2 5 0 2 I 0 16058 3 0 2 M 9 27 S 0 1 5 0 2 I 0 691 3 0 2 S 1 2 M 35 105 5 0 2 I 0 22190 3 0 2 M 7 21 S 0 1 5 0 2 I 0 14610 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 17668 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 14060 3 0 2 S 1 1 M 9 27 5 0 2 I 0 26979 3 0 2 M 7 21 5 0 2 I 0 15925 3 0 2 M 5 15 5 0 2 I 0 16066 3 0 2 5 0 2 I 0 4165 3 0 2 M 9 27 5 0 2 I 0 112873 3 0 2 M 9 27 S 0 2 5 0 2 I 0 56007 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 24043 3 0 2 S 1 1 M 10 30 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 15421 980423 121 - . gene_id 8 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 980403 980423 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 980403 980423 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 980401 980402 . - . intron_id 1 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 980402 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 2 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 910204 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 626477 746991 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 626477 626478 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 626440 626476 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 626440 626476 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 626438 626439 . - . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 603620 626439 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 603620 603621 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 603568 603619 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 603568 603619 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 603566 603567 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 601184 603567 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 601184 601185 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 601164 601183 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 601164 601183 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 601162 601163 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 567629 601163 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 567629 567630 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 567610 567628 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 567610 567628 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 567608 567609 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 478767 567609 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 478767 478768 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 478715 478766 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 478715 478766 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 478713 478714 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 449416 478714 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 449416 449417 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 449408 449415 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 449408 449415 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 449406 449407 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 400166 449407 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 400166 400167 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 400156 400165 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 400156 400165 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 400154 400155 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 400155 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 341106 357167 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 341106 341107 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 341078 341105 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 341078 341105 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 341076 341077 . - . intron_id 12 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 340383 341077 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 340383 340384 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 340276 340382 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 340276 340382 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 340274 340275 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 318082 340275 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 318082 318083 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 318060 318081 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 318060 318081 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 318058 318059 . - . intron_id 14 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 303446 318059 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 303446 303447 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 303412 303445 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 303412 303445 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 303410 303411 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 285740 303411 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 285740 285741 . - . intron_id 14 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 285728 285739 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 285728 285739 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 285726 285727 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 271664 285727 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 271664 271665 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 271636 271663 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 271636 271663 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 271634 271635 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 244653 271635 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 244653 244654 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 244632 244652 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 244632 244652 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 244630 244631 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 228703 244631 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 228703 228704 . - . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 228688 228702 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 228688 228702 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 228686 228687 . - . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 228687 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 208449 212617 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 208449 208450 . - . intron_id 19 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 208422 208448 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 208422 208448 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 208420 208421 . - . intron_id 21 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 95545 208421 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 95545 95546 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 95516 95544 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 95516 95544 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 95514 95515 . - . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 39505 95515 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 39505 39506 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 39499 39504 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 39499 39504 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 39497 39498 . - . intron_id 23 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 15452 39498 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 15452 15453 . - . intron_id 22 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 15421 15451 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 15421 15451 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 15421 980423 121 - . alignment_id 8 ; Query SPP00000025_1.0 ; Align 980424 2 21 ; Align 626477 9 36 ; Align 603618 22 48 ; Align 601183 39 18 ; Align 567627 46 15 ; Align 478766 52 51 ; Align 449416 69 6 ; Align 400165 72 9 ; Align 341106 75 27 ; Align 340381 85 105 ; Align 318082 120 21 ; Align 303444 128 30 ; Align 285739 139 9 ; Align 271663 143 27 ; Align 244653 152 21 ; Align 228703 159 15 ; Align 208449 164 27 ; Align 95545 173 27 ; Align 39504 183 3 ; Align 15451 185 30 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 119 Query range: 0 -> 193 Target range: 1391853 -> 127974 1 : MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSer >>>> Target Intron : 13 :!!!:!||| !! !|||||||||||| !:!!!.! 9585 bp LeuLysLeuThrGlnLeuLeuLeuValTrpSerLys++ 1391853 : TTGAAACTGACTCAATTGCTACTTGTATGGTCAAAGgt.................. : 1391815 14 : 1 >>>> Ala{Me} >>>> Target Intron 2 >>>> {t}ValArgSe : 17 !{:!} 23242 bp {:} !||||| ++His{Le}++ ++{u}GlnArgSe 1391814 : .......agCAC{CT}gt.........................ag{C}CAGAGGAG : 1358978 18 : rGluAlaSerAla{As} >>>> Target Intron 3 >>>> {n}LeuGlyG : 25 |..!.!!|||:!!{!.} 109272 bp {.}:::...| rArgThrSerSer{Ar}++ ++{g}MetSerG 1358977 : TAGAACTTCATCC{AG}gt.........................ag{g}atgtctg : 1249682 26 : lyVal{Pr} >>>> Target Intron 4 >>>> {o}SerLysArgLeuLys : 32 || { } 13399 bp {!}||||||! !|||||| lySer{Ar}++ ++{g}SerLysProLeuLys 1249681 : gctct{ag}gt.........................ag{G}TCCAAGCCACTCAAG : 1236262 33 : Met >>>> Target Intron 5 >>>> GlnTyrAlaThrGlyProLeuLeu : 41 ..! 128284 bp !! |||... :::||| Gln-+ ++AlaSerAlaAlaLeuAsnIleLeu 1236261 : CAGct.........................agGCATCAGCtgcattaaatatatta : 1107951 42 : LysPheGlnIleCysValSerUnkGly >>>> Target Intron 6 >>>> : 51 ||| |||||||||! ! ! ! 47354 bp MetPheTyrIleCysValTyrValAsp++ ++ 1107950 : atgttttacATCTGTGTATATGTGGATgt.........................ag : 1060569 52 : TyrArgArgValPhe{Gl} >>>> Target Intron 7 >>>> {u}GluTy : 58 |||::: :::|||{:!} 9221 bp {!}:!! TyrLysGlyLeuPhe{Ly}++ -+{s}LysLe 1060568 : tataagggtcttttc{aa}gt.........................gg{a}aAGCT : 1051325 59 : rMetArgValIleSerGlnArgTyrProAspIleArgIleGluGlyGluAsn{T} : 76 !|||! !|||! ! ! !!.! ! ! !!:! !|||||||||!!.{ } uMetThrValLysTyrLeuAsnArgTyrLysTyrLysGlyGluGlyGluLys{A}+ 1051324 : TATGACAGTAAAGTATTTGAACAGGTACAAATATAAAGGCGAAGGTGAGAAA{G}g : 1051270 77 : >>>> Target Intron 8 >>>> {yr}LeuProGln{P} >>>> Targe : 80 92035 bp { !}|||||| !{ } 5 + ++{la}LeuProThr{A}++ 1051269 : t.........................ag{ct}CTGCCTACA{G}gt.......... : 959221 81 : t Intron 9 >>>> {ro}Ile{Ty} >>>> Target Intron 10 >>>> : 82 8863 bp {!!}:::{!:} 26304 bp ++{la}Val{Tr}++ 959220 : ...............ag{ct}gta{tG}gt.......................... : 900351 83 : {r}{Ar} >>>> Target Intron 11 >>>> {g}HisIleAlaSerPh : 88 {:}{||} 12024 bp {|}|||! ! !!:! ++{p}{Ar}++ ++{g}HisThrPheAsnGl 900350 : ag{G}{AG}gt..........................ag{g}cATACTTTTAACCA : 862009 89 : eLeuSerValPheLysLeuValLeuIleGlyLeuIleIle >>>> Target In : 102 |||!.!..!|||:!!:!!:!!!!! !..!:!!|||!!: 14904 nLeuLysThrPheGlnValLeuPhe***SerMetIleMet++ 862008 : ACTTAAGACATTTCAAGTTCTTTTTTGATCGATGATAATGgt.............. : 861965 103 : tron 12 >>>> ValGlyLysAsp{Pr} >>>> Target Intron 13 >> : 106 bp !.!|||||||||{! } 8120 bp ++AlaGlyLysAsp{Gl}++ 861964 : ............agGCAGGTAAGGAC{CA}gt........................ : 847047 107 : >> {o}PheAlaPhePhe >>>> Target Intron 14 >>>> GlyMetG : 113 {!}.!! ! !||| 60274 bp |||:::. ++{n}IleLeuAsnPhe++ +-GlyIleH 847046 : ..ag{G}ATTTTGAATTTTgt..........................atgggattc : 778636 114 : lnAlaProSerIleTrpGlnTrpGlyGlnGluAsnLysValTyrAla >>>> Ta : 129 .. ||| :::|||||| ! !:!! ||| !||| isGlnAlaArgIleLeuGluTrpGlyProGlyAspGlyValThrAla++ 778635 : accaggcaagaatactggagtggggacctGGAGATGGTGTCACTGCAgt....... : 778586 130 : rget Intron 15 >>>> >>>> Target Intron 16 >>>> CysMe : 130 31597 bp 66484 bp :: ++++ ++AspLe 778585 : ...................aggt..........................aggattt : 680504 131 : tMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMet{S} >>>> Tar : 145 ::::! !!:!|||||| !! !!! |||:!!::: !! !!!:{|} uLeuGlyTyrPheLeuArgTyrSerIleLysSerThrSerIle{S}++ 680503 : actTGGTTATTTTTTACGTTATAGTATAAAATCAACATCCATA{T}gt........ : 680456 146 : get Intron 17 >>>> {er}ThrGlyAlaPhe{Gl} >>>> Target In : 150 42987 bp {||}||||||:::|||{:!} 16103 ++{er}ThrGlySerPhe{Ly}-+ 680455 : ..................ag{ca}acagggtctttc{aa}at.............. : 637453 151 : tron 18 >>>> {u}IleThrLeuAsn{A} >>>> Target Intron 19 : 155 5 bp {!}||| !:!!::!{!} 46416 bp ++{s}IleGlnValSer{G}++ 637452 : ............ag{G}ATTCAGGTCTCT{G}gt...................... : 476404 156 : >>>> {sp}ValProValTrpSerLysLeuGluSerGlyHisLeuProSerMetG : 171 {!:}! ! !:!! |||||| !..!! ! !|||||||||!:!:!:! ++{lu}GluCysIleThrSerLysAlaArgLeuHisHisLeuProAsnLeuH 476403 : ....ag{AG}GAATGCATTACAAGTAAAGCCAGATTACACCACCTCCCCAACCTCC : 429943 172 : lnGlnLeu >>>> Target Intron 20 >>>> >>>> Target Intr : 174 !.... ! 72767 bp 36510 b isSerGlu-+ ++++ 429942 : ACTCCGAGtt..........................aggt................ : 357165 175 : on 21 >>>> ValGlnIleLeuAspAsnGluMetLys >>>> Target Int : 183 p !.!.:!!|||.!.||| ||| 108013 ++ProAspLeuLeuGlnAsnIle***Lys++ 357164 : ..........agCCTGATCTTCTCCAGAACATTTGAAAGgt............... : 320628 184 : ron 22 >>>> >>>> Target Intron 23 >>>> LeuAsnValHisM : 187 bp 11813 bp :!!!.!||||||! ++++ ++ValThrValHisA 320627 : ...........aggt..........................agGTCACTGTCCACA : 200792 188 : etAsp{S} >>>> Target Intron 24 >>>> {er}IleProHisHis : 193 |||{.} 72797 bp {!!}||| |||||| rgAsp{G}-+ ++{ly}IleSerHisHis 200791 : GAGAT{G}ct..........................ag{gc}atttcccatcac : 127975 vulgar: SPP00000025_1.0 0 193 . NIVO01008816.1:subseq(494279,1406561) 1391853 127974 - 119 M 12 36 5 0 2 I 0 9581 3 0 2 M 1 3 S 0 2 5 0 2 I 0 23238 3 0 2 S 1 1 M 7 21 S 0 2 5 0 2 I 0 109268 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 13395 3 0 2 S 1 1 M 6 18 5 0 2 I 0 128280 3 0 2 M 17 51 5 0 2 I 0 47350 3 0 2 M 5 15 S 0 2 5 0 2 I 0 9217 3 0 2 S 1 1 M 19 57 S 0 1 5 0 2 I 0 92031 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 58859 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 26300 3 0 2 S 1 3 5 0 2 I 0 12020 3 0 2 S 1 1 M 18 54 5 0 2 I 0 14900 3 0 2 M 4 12 S 0 2 5 0 2 I 0 8116 3 0 2 S 1 1 M 4 12 5 0 2 I 0 60270 3 0 2 M 18 54 5 0 2 I 0 31593 3 0 2 5 0 2 I 0 66480 3 0 2 M 16 48 S 0 1 5 0 2 I 0 42983 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 161031 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 46412 3 0 2 S 1 2 M 18 54 5 0 2 I 0 72763 3 0 2 5 0 2 I 0 36506 3 0 2 M 9 27 5 0 2 I 0 108009 3 0 2 5 0 2 I 0 11809 3 0 2 M 6 18 S 0 1 5 0 2 I 0 72793 3 0 2 S 1 2 M 4 12 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 127975 1391853 119 - . gene_id 9 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1391818 1391853 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1391818 1391853 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1391816 1391817 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1382233 1391817 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1382233 1382234 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1382228 1382232 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1382228 1382232 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1382226 1382227 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1358986 1382227 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1358986 1358987 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1358962 1358985 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1358962 1358985 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1358960 1358961 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1249690 1358961 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1249690 1249691 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1249675 1249689 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1249675 1249689 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1249673 1249674 . - . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1236276 1249674 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1236276 1236277 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1236257 1236275 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1236257 1236275 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1236255 1236256 . - . intron_id 5 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1107973 1236256 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1107973 1107974 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1107922 1107972 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1107922 1107972 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1107920 1107921 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1060568 1107921 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1060568 1060569 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1060551 1060567 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1060551 1060567 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1060549 1060550 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1051330 1060550 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1051330 1051331 . - . intron_id 6 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1051271 1051329 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1051271 1051329 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1051269 1051270 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1051270 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 959223 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 874050 900353 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 874050 874051 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 874047 874049 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 874047 874049 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 874045 874046 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 862023 874046 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 862023 862024 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 861968 862022 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 861968 862022 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 861966 861967 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 847064 861967 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 847064 847065 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 847050 847063 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 847050 847063 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 847048 847049 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 838930 847049 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 838930 838931 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 838917 838929 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 838917 838929 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 838915 838916 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 778643 838916 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 778643 778644 . - . intron_id 13 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 778589 778642 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 778589 778642 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 778587 778588 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 778588 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 680508 746991 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 680508 680509 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 680459 680507 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 680459 680507 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 680457 680458 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 637472 680458 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 637472 637473 . - . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 637456 637471 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 637456 637471 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 637454 637455 . - . intron_id 18 ; splice_site "at" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 476421 637455 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 476421 476422 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 476407 476420 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 476407 476420 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 476405 476406 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 429991 476406 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 429991 429992 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 429935 429990 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 429935 429990 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 429933 429934 . - . intron_id 20 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 429934 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 320658 357167 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 320658 320659 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 320631 320657 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 320631 320657 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 320629 320630 . - . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 320630 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 200805 212617 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 200805 200806 . - . intron_id 22 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 200786 200804 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 200786 200804 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 200784 200785 . - . intron_id 24 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 127989 200785 . - . intron_id 24 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 127989 127990 . - . intron_id 23 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 127975 127988 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 127975 127988 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 127975 1391853 119 - . alignment_id 9 ; Query SPP00000025_1.0 ; Align 1391854 1 36 ; Align 1382233 13 3 ; Align 1358985 15 21 ; Align 1249689 23 12 ; Align 1236275 28 18 ; Align 1107973 34 51 ; Align 1060568 51 15 ; Align 1051329 57 57 ; Align 959234 77 9 ; Align 900359 81 3 ; Align 862022 84 54 ; Align 847064 102 12 ; Align 838929 107 12 ; Align 778643 111 54 ; Align 680508 129 48 ; Align 637470 146 12 ; Align 476420 151 12 ; Align 429989 156 54 ; Align 320658 174 27 ; Align 200805 183 18 ; Align 127987 190 12 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 115 Query range: 3 -> 192 Target range: 1385803 -> 58159 4 : LeuLeuLeuLeuLeuValAlaAlaSer{A} >>>> Target Intron 1 >>> : 13 |||! !:!!:!!|||:!! !.!!|||{|} 42149 bp LeuSerIleIleLeuIlePheThrSer{A}-+ 1385803 : CTATCTATTATTCTAATATTCACTTCA{G}tt........................ : 1385773 14 : > {la}MetValArg{Se} >>>> Target Intron 2 >>>> {r}GluA : 19 {||}...:::...{!.} 164282 bp {!} . ++{la}GlnLeuAsn{Ly}++ ++{s}LeuV 1385772 : .ag{ct}caactgaac{aa}gt.........................ag{a}ctag : 1179327 20 : laSerAlaAsnLeuGly{Gl} >>>> Target Intron 3 >>>> {y}Val : 26 ..|||...|||||||||{ !} 176949 bp {!}||| alSerGlyAsnLeuGly{Ar}++ ++{g}Val 1179326 : tttcagggaatttgggg{ag}gt.........................ag{a}gtt : 1002357 27 : ProSerLysArgLeuLysMetGlnTyrAlaThrGlyPro{Le} >>>> Target : 40 :::|||||| ::::::::: |||{||} 29 SerAlaLysArgSerThrValLysHisMetGlyPhePro{Le}++ 1002356 : tctgccaaaagatcaactgttaagcatatggggtttccc{tt}gt........... : 1002311 41 : Intron 4 >>>> {u}LeuLysPheGln{Il} >>>> Target Intron : 45 607 bp {|}:::... ...{! } 72331 bp ++{u}MetSerGlySer{Se}++ 1002310 : ..............ag{g}atgtctggctct{ag}gt................... : 972689 46 : 5 >>>> {e}CysVal >>>> Target Intron 6 >>>> >>>> Tar : 48 {!}|||::! 153362 bp ++{r}CysMet++ ++++ 972688 : ......ag{c}tgtatGgt.........................aggt........ : 746989 49 : get Intron 7 >>>> SerUnkGlyTyrArgArg >>>> Target Intro : 54 13438 bp ! ..!|||!:!!:! 60645 bp ++ValLysAsnTyrLysGln++ 746988 : .................agGTGAAAAACTACAAACAGgt................. : 733533 55 : n 8 >>>> ValPheGluGluTyr >>>> Target Intron 9 >>>> Me : 59 !||||||!!: ! 31504 bp ++HisPheGluAspLys++ ++Al 733532 : ........agCATTTTGAGGATAAGgt.........................aggc : 641371 60 : tArgValIleSerGlnArgTyrProAspIleArgIleGluGlyGluAsnTyrLeuP : 78 ::: ... ||| ::: |||!!:.!.:!!! !| aAspPheLeuProAlaGluLeuProGlyLysProLeuIleGlyAspGluHisProP 641370 : agattttttaccagctgagctaccagggaagcccctcataggTGATGAGCATCCAC : 641314 79 : roGlnProIleTyrArgHisIle{A} >>>> Target Intron 10 >>>> : 86 ||..!! !:!!||||||||| !{|} 85235 bp roMetLeuValTyrArgHisGln{A}-+ ++ 641313 : CTATGCTAGTTTACAGACACCAA{G}at..........................ag : 556056 87 : {la}SerPheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGlyL : 104 {||}:::...... ::::::......::: ::: ||| ::::::||| {la}AlaLeuPhePheIleTyrAsnPheIleTyrLeuPheLeuAlaValLeuGlyL 556055 : {ca}gctttattttttatttataattttatttatttatttttggctgtgctgggtc : 556001 105 : ysAsp{Pr} >>>> Target Intron 11 >>>> {o}PheAlaPhePheGl : 111 { } 172 bp {!}...::: || euArg{**}-+ ++{*}LeuSerGlyCysGl 556000 : ttcgc{tg}ct..........................ag{a}ctcagcggttgtgg : 555808 112 : yMetGlnAlaProSerIleTrpGln{T} >>>> Target Intron 12 >>>> : 120 | |||||| :!:||| !{|} 38260 bp yThrGlnAlaSerLeuLeuTrpAla{T}++ 555807 : cacacaggcttcgttgcTGTGGGCA{T}gt.......................... : 555778 121 : {rp}GlyGlnGluAsnLysValTyrAlaCysMetMetVal{P} >>>> Targ : 133 {||} ::: :::...::: ::: :::...{ } ++{rp}IleGluProSerSerLeuValSerProAlaLeuAla{G}++ 555777 : ag{gg}atcgaaccttcatctcttgtatctcctgcattggca{g}gt......... : 517479 134 : et Intron 13 >>>> {he}PheLeuSerAsnMetIleGluAsnGlnCysMet : 144 41561 bp { !}|||:!!||||||..!! !..!!..! ||| ! ++{ly}PheIleSerAsnGlnSerArgArgProCysArg 517478 : .................ag{GT}TTTATAAGTAATCAGAGTAGGAGGCCCTGTCGG : 475888 145 : >>>> Target Intron 14 >>>> SerThrGlyAlaPheGluIleThrLe : 153 39952 bp !:!!:! !||||||||| !!.!|| ++ ++AsnSerThrAlaPheGluGlnAsnLe 475887 : gt..........................agAACAGCACTGCCTTTGAACAAAACTT : 435909 154 : uAsnAspValProVal{T} >>>> Target Intron 15 >>>> {rp}Ser : 160 |! ! ||| |||{|} 19175 bp {||}||| uIleProVal***Val{T}++ ++{rp}Ser 435908 : GATCcctgtttgagtg{t}gt..........................ag{GG}AGC : 416713 161 : LysLeu{G} >>>> Target Intron 16 >>>> {lu}SerGlyHisLeuP : 168 |||! !{|} 55358 bp {||}!!!|||! ||| LysSer{G}++ ++{lu}ThrGlyProLeuA 416712 : AAATCA{G}gt..........................ag{AG}ACCGGGCCACTGG : 361331 169 : roSer{Me} >>>> Target Intron 17 >>>> {t}GlnGlnLeuValGl : 175 !|||{! } 63769 bp {!}||| ||| || spSer{Ar}++ ++{g}GlnIleLeuTyrGl 361330 : ATTCA{AG}gt..........................ag{g}cagattctttacca : 297541 176 : nIleLeuAspAsn >>>> Target Intron 18 >>>> >>>> Target : 180 |::: ... 84909 bp 4 nLeuSerHisLys+- ++++ 297540 : gctgagccacaaggg..........................aggt........... : 212615 181 : Intron 19 >>>> GluMetLysLeuAsnValHisMet{A} >>>> Targe : 188 393 bp ... !:!:!!::!:!!.!.:!:{|} 1 ++SerTyrArgValSerIleGluLeu{A}++ 212614 : ...............agTCTTACAGGGTTTCCATAGAACTA{G}gt.......... : 208197 189 : t Intron 20 >>>> {sp}SerIleProHis : 192 50026 bp {||}|||||||||||| ++{sp}SerIleProHis 208196 : ................ag{AT}TCAATTCCGCAC : 58160 vulgar: SPP00000025_1.0 3 192 . NIVO01008816.1:subseq(494279,1406561) 1385803 58159 - 115 M 9 27 S 0 1 5 0 2 I 0 42145 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 164278 3 0 2 S 1 1 M 7 21 S 0 2 5 0 2 I 0 176945 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 29603 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 72327 3 0 2 S 1 1 M 2 6 5 0 2 I 0 153358 3 0 2 5 0 2 I 0 13434 3 0 2 M 6 18 5 0 2 I 0 60641 3 0 2 M 5 15 5 0 2 I 0 31500 3 0 2 M 27 81 S 0 1 5 0 2 I 0 85231 3 0 2 S 1 2 M 19 57 S 0 2 5 0 2 I 0 168 3 0 2 S 1 1 M 13 39 S 0 1 5 0 2 I 0 38256 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 41557 3 0 2 S 1 2 M 11 33 5 0 2 I 0 39948 3 0 2 M 14 42 S 0 1 5 0 2 I 0 19171 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 55354 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 63765 3 0 2 S 1 1 M 9 27 5 0 2 I 0 84905 3 0 2 5 0 2 I 0 4389 3 0 2 M 8 24 S 0 1 5 0 2 I 0 150022 3 0 2 S 1 2 M 4 12 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 58160 1385803 115 - . gene_id 10 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1385776 1385803 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1385776 1385803 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1385774 1385775 . - . intron_id 1 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1343627 1385775 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1343627 1343628 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1343614 1343626 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1343614 1343626 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1343612 1343613 . - . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1179332 1343613 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1179332 1179333 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1179308 1179331 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1179308 1179331 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1179306 1179307 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1002359 1179307 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1002359 1002360 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1002314 1002358 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1002314 1002358 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1002312 1002313 . - . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 972707 1002313 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 972707 972708 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 972692 972706 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 972692 972706 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 972690 972691 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 972691 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 900353 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 733554 746991 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 733554 733555 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 733536 733553 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 733536 733553 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 733534 733535 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 672891 733535 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 672891 672892 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 672876 672890 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 672876 672890 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 672874 672875 . - . intron_id 9 ; splice_site "Gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 641372 672875 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 641372 641373 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 641290 641371 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 641290 641371 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 641288 641289 . - . intron_id 10 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 556055 641289 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 556055 556056 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 555994 556054 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 555994 556054 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 555992 555993 . - . intron_id 11 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 555822 555993 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 555822 555823 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 555781 555821 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 555781 555821 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 555779 555780 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 517521 555780 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 517521 517522 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 517482 517520 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 517482 517520 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 517480 517481 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 475921 517481 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 475921 475922 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 475886 475920 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 475886 475920 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 475884 475885 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 435934 475885 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 435934 435935 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 435891 435933 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 435891 435933 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 435889 435890 . - . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 416716 435890 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 416716 416717 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 416704 416715 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 416704 416715 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 416702 416703 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 361346 416703 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 361346 361347 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 361324 361345 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 361324 361345 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 361322 361323 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 297555 361323 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 297555 297556 . - . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 297527 297554 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 297527 297554 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 297525 297526 . - . intron_id 18 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 297526 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 208225 212617 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 208225 208226 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 208200 208224 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 208200 208224 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 208198 208199 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 58174 208199 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 58174 58175 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 58160 58173 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 58160 58173 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 58160 1385803 115 - . alignment_id 10 ; Query SPP00000025_1.0 ; Align 1385804 4 27 ; Align 1343625 14 9 ; Align 1179331 18 21 ; Align 1002358 26 42 ; Align 972706 41 12 ; Align 900360 46 6 ; Align 733554 48 18 ; Align 672891 54 15 ; Align 641372 59 81 ; Align 556053 87 57 ; Align 555821 107 39 ; Align 517519 121 36 ; Align 475919 134 33 ; Align 435934 145 42 ; Align 416714 160 9 ; Align 361344 164 18 ; Align 297554 171 27 ; Align 208225 180 24 ; Align 58172 189 12 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 112 Query range: 1 -> 185 Target range: 1023753 -> 5574 2 : ArgLeuLeuLeuLeuLeu{Le} >>>> Target Intron 1 >>>> {u}Va : 9 ||||||! !|||:!!|||{! } 64498 bp {!} ArgLeuTyrLeuIleLeu{Cy}++ ++{s}Se 1023753 : CGTCTATACCTGATACTC{TG}gt.........................ag{c}tC : 959234 10 : lAlaAla{Se} >>>> Target Intron 2 >>>> {r}AlaMet >>>> : 15 !||| !{||} 58863 bp {|}...||| rAlaTyr{Se}++ ++{r}CysMet++ 959233 : TGCCTAC{AG}gt.........................ag{c}tgtatGgt..... : 900351 16 : Target Intron 3 >>>> ValArgSerGluAlaSer >>>> Target In : 21 67440 bp :::|||...:::|||..! 85904 ++MetArgLysGlnAlaGlu++ 900350 : ....................agatgaggaaacaagcaGAGgt.............. : 832893 22 : tron 4 >>>> >>>> Target Intron 5 >>>> AlaAsnLeuGlyGl : 25 bp 27417 bp ::!|||:!!||||| ++++ ++SerAsnValGlyGl 832892 : ...........aggt.........................agAGCAATGTTGGAGG : 719562 26 : yValProSerLysArgLeu{Ly} >>>> Target Intron 6 >>>> {s}M : 33 |!.! !||||||!!!:!!{!.} 15003 bp {.} yAlaGlySerLysSerIle{Se}++ ++{r}T 719561 : AGCAGGGAGTAAGAGCATA{AG}gt.........................ag{t}a : 704535 34 : etGlnTyrAlaThrGlyProLeuLeu >>>> Target Intron 7 >>>> L : 42 |||!:! !|||||| !! !||| 57120 bp ! hrGlnPheHisThrGlyTyrCysLeu++ +-A 704534 : cCCAGTTTCATACCGGTTACTGTTTGgt.........................acA : 647388 43 : ysPheGlnIleCysValSerUnkGlyTyrArgArgValPheGluGluTyr{M} > : 59 !. ! !||||||||| ..! !||||||..!||| !:!! {:} snGluGlyAlaCysValSerLysAsnLeuArgArgThrPheTrpLysThr{V}++ 647387 : ACGAGGGGGCCTGTGTATCTAAAAACCTTAGAAGAACATTCTGGAAAACA{G}gt. : 647334 60 : >>> Target Intron 8 >>>> {et}ArgValIleSerGln{Ar} >>>> : 65 79708 bp {!:} ||| !|||:!!{!:} ++{al}SerValSerSerGlu{Ly}++ 647333 : ........................ag{ta}agtGTTTCATCAGAA{AA}gt..... : 567607 66 : Target Intron 9 >>>> {g}TyrProAspIleArgIleGlu{G} >>>> : 73 47972 bp {!} !|||! .!!|||.!!..!{|} ++{s}LeuProGlyPheArgPheArg{G}++ 567606 : ....................ag{G}CTTCCAGGATTTAGATTTAGA{G}gt..... : 519612 74 : Target Intron 10 >>>> {ly}GluAsnTyrLeuProGlnProIleTyrAr : 83 22119 bp {||}...::! !:!!|||:!!||| ! ++{ly}SerSerLeuMetProLysProCysArgPh 519611 : .....................ag{GA}AGCTCTCTCATGCCAAAGCCATGCAGATT : 497466 84 : gHisIleAlaSerPheLeuSerValPheLysLeu{V} >>>> Target Intro : 95 !:!!! ! !!!!.!!! ... ||||||:::{ } 70659 bp eTyrArgHisThrLeuProLysProPheLysIle{T}-+ 497465 : CTACAGACATACCCTCCCtaagccttttaaaata{t}tt................. : 497427 96 : n 11 >>>> {al}Leu{Il} >>>> Target Intron 12 >>>> {e}G : 98 { !}:::{||} 22523 bp {|} ++{yr}Val{Il}++ ++{e}T 497426 : .........ag{at}gtc{at}gt..........................ag{C}T : 404239 99 : lyLeuIleIleValGlyLysAspProPheAlaPhePheGlyMetGlnAlaProSer : 116 !!:!!! ||| !||| !!: !!! |||.!. !|||:!::!!||||||..! rpIleArgIleSerGlyGlyGluAla***AlaLeuAspGlyLeuGluAlaProGlu 404238 : GGATCAGGATCTCTGGAGGCGAGGCCTGAGCACTGGATGGCTTAGAAGCTCCCGAA : 404185 117 : >>>> Target Intron 13 >>>> >>>> Target Intron 14 >> : 117 47015 bp 8311 bp ++ ++++ 404184 : gt..........................aggt........................ : 357165 118 : >> IleTrp >>>> Target Intron 15 >>>> GlnTrpGlyGlnGlu{ : 124 |||||| 11946 bp |||! |||:!!..!{ ++IleTrp-+ ++GlnSerGlyLysArg{ 357164 : ..agATCtggct..........................agCAATCAGGAAAGAGA{ : 336889 125 : A} >>>> Target Intron 16 >>>> {sn}LysValTyrAlaCysMetMe : 131 .} 35164 bp {.!}|||||| ...|||:::.. G}++ -+{ly}LysValGluThrCysLeuPh 336888 : G}gt..........................tg{gt}aaGGTGgaaacatgtttgtt : 301704 132 : tValPhePhe{Le} >>>> Target Intron 17 >>>> {u}{Se} >>> : 136 .|||||||||{ } 98377 bp {!}{||} eValPhePhe{Ly}++ ++{s}{Se}++ 301703 : tgtttttttt{aa}gt..........................ag{G}{AG}gt... : 203308 137 : > Target Intron 18 >>>> {r}AsnMetIle >>>> Target Intro : 140 71271 bp {|}||||||::: 62146 bp ++{r}AsnMetLeu++ 203307 : .......................ag{t}aacatgttggt................. : 132027 141 : n 19 >>>> GluAsnGlnCysMetSerThrGlyAlaPheGluIleThrLeuAsn : 154 :!!|||...! :!:! !||| ! !|||...:!!! !! !||| ++LysAsnSerLeuValPheThrLysLeuPheSerValLysTyrAsn 132026 : .........agAAAAATTCTTTGGTATTTACAAAACTGTTCTCTGTAAAGTATAAC : 69841 155 : Asp >>>> Target Intron 20 >>>> ValProValTrpSerLysLeuGl : 163 .!. 25658 bp ..!|||!.!!::|||::! ! Gln-+ ++ThrProAlaPheSerArgAspTr 69840 : CAAct..........................agACTCCTGCTTTTAGCCGAGACTG : 44156 164 : uSerGlyHisLeuProSerMetGlnGlnLeuValGln >>>> Target Intro : 176 !..!|||!!. !! !|||:!: ! :!!|||||| 38513 bp pGlnGlyGlnGluLeuSerLeuValLeuValValGln++ 44155 : GCAAGGGCAAGAACTGTCATTAGTCCTTGTAGTCCAGgt................. : 44115 177 : n 21 >>>> IleLeuAspAsnGluMetLysLeuAsnVal : 185 |||||| !!|||...:!:|||:!!..!:!! ++IleLeuHisAsnSerLeuLysIleArgIle 44114 : .........agATTCTACACAATAGTTTAAAAATTCGTATC : 5575 vulgar: SPP00000025_1.0 1 185 . NIVO01008816.1:subseq(494279,1406561) 1023753 5574 - 112 M 6 18 S 0 2 5 0 2 I 0 64494 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 58859 3 0 2 S 1 1 M 2 6 5 0 2 I 0 67436 3 0 2 M 6 18 5 0 2 I 0 85900 3 0 2 5 0 2 I 0 27413 3 0 2 M 11 33 S 0 2 5 0 2 I 0 14999 3 0 2 S 1 1 M 9 27 5 0 2 I 0 57116 3 0 2 M 17 51 S 0 1 5 0 2 I 0 79704 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 47968 3 0 2 S 1 1 M 7 21 S 0 1 5 0 2 I 0 22115 3 0 2 S 1 2 M 21 63 S 0 1 5 0 2 I 0 70655 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 22519 3 0 2 S 1 1 M 19 57 5 0 2 I 0 47011 3 0 2 5 0 2 I 0 8307 3 0 2 M 2 6 5 0 2 I 0 11942 3 0 2 M 5 15 S 0 1 5 0 2 I 0 35160 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 98373 3 0 2 S 1 3 5 0 2 I 0 71267 3 0 2 S 1 1 M 3 9 5 0 2 I 0 62142 3 0 2 M 16 48 5 0 2 I 0 25654 3 0 2 M 20 60 5 0 2 I 0 38509 3 0 2 M 10 30 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 5575 1023753 112 - . gene_id 11 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1023734 1023753 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1023734 1023753 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1023732 1023733 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1023733 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 959223 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 832914 900353 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 832914 832915 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 832896 832913 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 832896 832913 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 832894 832895 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 832895 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 719575 746991 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 719575 719576 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 719540 719574 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 719540 719574 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 719538 719539 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 704537 719539 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 704537 704538 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 704509 704536 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 704509 704536 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 704507 704508 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 647389 704508 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 647389 647390 . - . intron_id 6 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 647337 647388 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 647337 647388 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 647335 647336 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 567629 647336 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 567629 567630 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 567610 567628 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 567610 567628 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 567608 567609 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 519638 567609 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 519638 519639 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 519615 519637 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 519615 519637 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 519613 519614 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 497496 519614 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 497496 497497 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 497430 497495 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 497430 497495 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 497428 497429 . - . intron_id 11 ; splice_site "tt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426771 497429 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426771 426772 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426764 426770 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426764 426770 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426762 426763 . - . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 404241 426763 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 404241 404242 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 404183 404240 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 404183 404240 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 404181 404182 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 404182 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 348857 357167 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 348857 348858 . - . intron_id 13 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 348851 348856 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 348851 348856 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 348849 348850 . - . intron_id 15 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 336905 348850 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 336905 336906 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 336889 336904 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 336889 336904 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 336887 336888 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 301725 336888 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 301725 301726 . - . intron_id 15 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 301691 301724 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 301691 301724 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 301689 301690 . - . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 203314 301690 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 203314 203315 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 203311 203313 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 203311 203313 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 203309 203310 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 132040 203310 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 132040 132041 . - . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 132030 132039 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 132030 132039 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 132028 132029 . - . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 69884 132029 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 69884 69885 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 69836 69883 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 69836 69883 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 69834 69835 . - . intron_id 20 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 44178 69835 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 44178 44179 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 44118 44177 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 44118 44177 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 44116 44117 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 5605 44117 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 5605 5606 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 5575 5604 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 5575 5604 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 5575 1023753 112 - . alignment_id 11 ; Query SPP00000025_1.0 ; Align 1023754 2 18 ; Align 959235 9 9 ; Align 900360 13 6 ; Align 832914 15 18 ; Align 719575 21 33 ; Align 704536 33 27 ; Align 647389 42 51 ; Align 567627 60 15 ; Align 519637 66 21 ; Align 497494 74 63 ; Align 426769 96 3 ; Align 404240 98 57 ; Align 348857 117 6 ; Align 336905 119 15 ; Align 301723 125 30 ; Align 132039 137 9 ; Align 69884 140 48 ; Align 44178 156 60 ; Align 5605 176 30 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 112 Query range: 0 -> 195 Target range: 1322958 -> 208349 1 : MetArgLeuLeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAl : 19 ::: |||||||||:::|||||| ::: :!::!! !! ! LeuLeuLeuLeuLeuValLeuLeuPheSerProLeuArgLeuIleGlyArgMetTr 1322958 : cttctgctcctccttgtgcttctcttttccccactgaggTTAATCGGCCGgatgtg : 1322904 20 : aSerAlaAsnLeuGlyGlyValProSerLysArgLeuLysMetGlnTyrAlaThrG : 38 :::...|||::: ||| ||| ||| ...... ||| pAlaGlyAsnIleValGlySerProPheLeuCysLeuCysPheMetMetMetThrC 1322903 : ggcagggaacattgtcggttctcctttcctttgtctatgcttcatgatgatgactt : 1322847 39 : lyProLeuLeuLysPheGlnIleCysValSerUnkGlyTyrArgArgValPheGlu : 56 !! !|||! ! ! ! :!!! :!! ! ..!||| !! ! ! !!: ysLeuLeuProLeuValGlyLeuSerIleLeuHisAsnTyrPheLeuSerArgAsp 1322846 : gCCTGCTCCCCCTGGTGGGTTTATCAATCCTCCACAACTATTTCCTATCCAGAGAC : 1322793 57 : GluTyrMetArgVal{Il} >>>> Target Intron 1 >>>> {e}SerGl : 64 ... ||| !:!!{ } 58643 bp {!}::!:! SerArgMetAlaMet{**}++ ++{*}AsnLy 1322792 : AGCAGGATGGCAATG{TG}gt.........................ag{a}aATAA : 1264126 65 : nArgTyrProAspIleArgIleGlu{Gl} >>>> Target Intron 2 >>>> : 73 !!:!:!!|||:!!||| !! ! !{||} 137846 bp sLysHisProAsnIleSerThrMet{Gl}++ 1264125 : GAAGCATCCTAATATCTCAACTATG{GG}gt......................... : 1264095 74 : {y}GluAsnTyrLeuProGlnProIleTyr{Ar} >>>> Target Intron : 83 {|}... |||||| !{||} 57507 bp ++{y}SerTrpAspLeuProAlaSerThrIle{Ar}++ 1264094 : ag{A}TCTtgggacttgccagcctccacaATC{AG}gt.................. : 1126219 84 : 3 >>>> {g}HisIleAla{Se} >>>> Target Intron 4 >>>> {r : 87 {|}:::||||||{!!} 67061 bp {! ++{g}TyrIleAla{Ar}++ ++{g 1126218 : .......ag{g}tatatagca{ag}gt.........................ag{g : 1001641 88 : }PheLeuSerValPheLysLeuValLeuIleGlyLeuIleIle{V} >>>> Tar : 102 }|||||| :::||| ::::::::::::... !:!: !{|} }PheLeuIleIlePheThrIleIleIleLeuAsnSerLeuSer{V}++ 1001640 : }tttctgatcatctttactatcattattctgaactcTTTGTCA{G}gt........ : 1001595 103 : get Intron 5 >>>> {al}{G} >>>> Target Intron 6 >>>> { : 103 286 bp {||}{|} 9404 bp { -+{al}{G}++ ++{ 1001594 : .................tg{tg}{g}gt.........................ag{ : 991904 104 : ly}LysAspProPheAlaPhePheGlyMetGlnAlaProSerIle{Tr} >>>> : 118 ||} ..! ! ! ! !||| ::: ::: |||:::{||} ly}ProSerValHisLysAlaPhePheValProSerLysSerLeu{Tr}++ 991903 : GT}CCTAGTGTGCACAAGGCTttttttgtgccctccaagagtctc{tg}gt..... : 991856 119 : Target Intron 7 >>>> {p}GlnTrpGlyGln{Gl} >>>> Target I : 123 19152 bp {|}... |||...{..} 2425 ++{p}MetSerGlySer{Ar}++ 991855 : ....................ag{g}atgtctggctct{ag}gt............. : 972689 124 : ntron 8 >>>> {u}AsnLysValTyrAlaCysMetMetValPhePheLeuSer : 136 0 bp {!}...|||:::||| |||:::::!!!.! !|||:!! ++{g}GluLysLeuTyrPheHisMetLeuIleLeuCysLeuAla 972688 : ............ag{a}gaaaaactttattttcatatgttaatTTTGTGTCTAGCA : 948404 137 : AsnMetIleGluAsn{Gl} >>>> Target Intron 9 >>>> {n}CysMe : 144 |||:!!:!!||||||{ } 48024 bp { }||||| AsnLeuLeuGluAsn{Ph}-+ ++{e}CysMe 948403 : AACTTGCTAGAAAAT{TT}at.........................ag{c}tgtat : 900356 145 : t >>>> Target Intron 10 >>>> Ser{Th} >>>> Target Intr : 146 | 43863 bp |||{! } 52941 b t++ ++Ser{Ar}++ 900355 : Ggt..........................agAGT{AG}gt................ : 856483 147 : on 11 >>>> {r}GlyAlaPheGlu >>>> Target Intron 12 >>>> : 151 p {!}|||:::|||::: 56540 bp ++{g}GlySerPheGln-+ + 856482 : ..........ag{a}ggatctttccaact..........................a : 746993 152 : >>>> Target Intron 13 >>>> Ile{Th} >>>> Target Intr : 152 187212 bp :!!{! } 111929 +++ ++Val{Ar}++ 746992 : ggt..........................agGTC{AG}gt................ : 559772 153 : on 14 >>>> {r}LeuAsnAspValProValTrpSerLysLeuGluSerGlyHi : 166 bp {!}||| ! :!! !! !!! !! !|||! !..!..!||||| ++{g}LeuCysProIleThrPheLeuIleLysGlnArgGluGlyHi 559771 : ..........ag{A}TTATGTCCAATCACTTTCTTGATAAAGCAGAGAGAGGGTCA : 447805 167 : sLeuProSer >>>> Target Intron 15 >>>> >>>> Target In : 170 |||||||!:! 90626 bp 4107 sLeuProAsn++ ++++ 447804 : TTTGCCGAATgt..........................aggt.............. : 357165 171 : tron 16 >>>> MetGlnGln{Le} >>>> Target Intron 17 >>>> : 173 bp |||:::{ } 109343 bp ++AlaGlnArg{Gl}++ + 357164 : ............aggctcagaga{gg}gt..........................a : 243708 174 : {u}ValGlnIleLeuAspAsnGluMetLysLeuAsnVal{Hi} >>>> Targe : 186 {!}:::::::::......|||||| |||::::::{..} 3 +{y}IleArgValPheSerAsnGluSerValLeuSerIle{Ar}++ 243707 : g{g}atcagggtcttttccaatgagtcagttctttccatc{ag}gt.......... : 243665 187 : t Intron 18 >>>> {s}MetAspSerIleProHisHisArgSer : 195 5290 bp {.} ...||| |||...:::|||::: ++{g}GlySerSerGlnProArgAsnArgThr 243664 : ................ag{g}ggatcgtcccaacccaggaatcgaacc : 208350 vulgar: SPP00000025_1.0 0 195 . NIVO01008816.1:subseq(494279,1406561) 1322958 208349 - 112 M 61 183 S 0 2 5 0 2 I 0 58639 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 137842 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 57503 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 67057 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 282 3 0 2 S 1 3 5 0 2 I 0 9400 3 0 2 S 1 2 M 14 42 S 0 2 5 0 2 I 0 19148 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 24246 3 0 2 S 1 1 M 18 54 S 0 2 5 0 2 I 0 48020 3 0 2 S 1 1 M 2 6 5 0 2 I 0 43859 3 0 2 M 1 3 S 0 2 5 0 2 I 0 52937 3 0 2 S 1 1 M 4 12 5 0 2 I 0 56536 3 0 2 5 0 2 I 0 187208 3 0 2 M 1 3 S 0 2 5 0 2 I 0 111925 3 0 2 S 1 1 M 17 51 5 0 2 I 0 90622 3 0 2 5 0 2 I 0 4103 3 0 2 M 3 9 S 0 2 5 0 2 I 0 109339 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 35286 3 0 2 S 1 1 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 208350 1322958 112 - . gene_id 12 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1322774 1322958 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1322774 1322958 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1322772 1322773 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1264131 1322773 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1264131 1264132 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1264098 1264130 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1264098 1264130 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1264096 1264097 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1126252 1264097 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1126252 1126253 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1126222 1126251 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1126222 1126251 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1126220 1126221 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1068715 1126221 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1068715 1068716 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1068703 1068714 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1068703 1068714 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1068701 1068702 . - . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1001642 1068702 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1001642 1001643 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1001598 1001641 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1001598 1001641 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1001596 1001597 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1001312 1001597 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1001312 1001313 . - . intron_id 4 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1001309 1001311 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1001309 1001311 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1001307 1001308 . - . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 991905 1001308 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 991905 991906 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 991859 991904 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 991859 991904 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 991857 991858 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 972707 991858 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 972707 972708 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 972692 972706 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 972692 972706 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 972690 972691 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 948442 972691 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 948442 948443 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 948385 948441 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 948385 948441 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 948383 948384 . - . intron_id 9 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 948384 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 856491 900353 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 856491 856492 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 856486 856490 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 856486 856490 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 856484 856485 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 803545 856485 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 803545 803546 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 803532 803544 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 803532 803544 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 803530 803531 . - . intron_id 12 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 803531 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559780 746991 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559780 559781 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559775 559779 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559775 559779 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559773 559774 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 447846 559774 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 447846 447847 . - . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 447794 447845 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 447794 447845 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 447792 447793 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 447793 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 353061 357167 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 353061 353062 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 353050 353060 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 353050 353060 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 353048 353049 . - . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 243707 353049 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 243707 243708 . - . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 243668 243706 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 243668 243706 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 243666 243667 . - . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 208378 243667 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 208378 208379 . - . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 208350 208377 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 208350 208377 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 208350 1322958 112 - . alignment_id 12 ; Query SPP00000025_1.0 ; Align 1322959 1 183 ; Align 1264130 63 30 ; Align 1126251 74 27 ; Align 1068714 84 9 ; Align 1001641 88 42 ; Align 991903 104 42 ; Align 972706 119 12 ; Align 948441 124 54 ; Align 900360 143 6 ; Align 856491 145 3 ; Align 803544 147 12 ; Align 559780 151 3 ; Align 447845 153 51 ; Align 353061 170 9 ; Align 243706 174 36 ; Align 208377 187 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 109 Query range: 33 -> 191 Target range: 1268871 -> 138236 34 : GlnTyrAlaThrGlyProLeuLeuLysPheGlnIleCysVal{S} >>>> Targ : 48 :!!!:::!! !||| !!||| !||||||:!!:!!||| !{:} 1 GluTrpSerTrpGlySerLeuAlaLysPheGluValCysSer{A}++ 1268871 : GAGTGGTCCTGGGGCTCATTGGCAAAATTTGAAGTTTGTAGT{G}gt......... : 1268826 49 : et Intron 1 >>>> {er}UnkGlyTyrArg{A} >>>> Target Intro : 53 70587 bp {!!} ||||||!:!{!} 21260 bp ++{la}LysGlyTyrGln{L}++ 1268825 : ................ag{CA}AAGGGATATCAG{A}gt................. : 1098224 54 : n 2 >>>> {rg}ValPheGluGluTyrMet >>>> Target Intron 3 > : 60 {:!}|||::::::||||||::: 53509 bp ++{ys}ValTyrLysGluTyrVal++ 1098223 : ........ag{AA}Gtatataaagaatatgtggt...................... : 1076944 61 : >>> ArgValIleSerGlnArgTyrProAsp >>>> Target Intron 4 > : 69 |||! !! !! !||| !!!:!|||:!! 64175 bp ++ArgGlyAsnLeuGlnGlyPheProAsn++ 1076943 : ...agAGAGGAAATTTACAGGGGTTCCCCAATgt...................... : 1023408 70 : >>> IleArgIleGlu >>>> Target Intron 5 >>>> >>>> Tar : 73 ::! !!:!!:!! 49019 bp ++LeuCysLeuGln++ ++++ 1023407 : ...agctCTGCCTACAGgt.........................aggt........ : 910202 74 : get Intron 6 >>>> GlyGluAsnTyrLeuProGlnProIleTyr >>>> : 83 81068 bp ||| ||| |||||| ! ! ! ++GlyProAsnProCysProGlnAsp***Lys++ 910201 : .................agggaccaaacccatgtccacagGATTGAAAGgt..... : 829104 84 : Target Intron 7 >>>> >>>> Target Intron 8 >>>> ArgHi : 84 82115 bp 21147 bp !|| ++++ ++SerHi 829103 : ....................aggt.........................agTCACA : 725841 85 : sIleAlaSerPhe{Le} >>>> Target Intron 9 >>>> {u}Ser{Va} : 91 | !|||||||||{:!} 20836 bp {!}!!!{! } sAspAlaSerPhe{Va}++ ++{l}Thr{Gl} 725840 : TGATGCCTCCTTT{GT}gt.........................ag{A}ACG{GG} : 704984 92 : >>>> Target Intron 10 >>>> {l}PheLysLeuValLeuIleGlyLe : 99 24475 bp {!}... ||||||:!!.!! !:! ++ ++{y}IleTyrLeuValIlePheTyrVa 704983 : gt..........................ag{g}atttactTGGTTATTTTTTACGT : 680485 100 : uIleIleValGlyLysAspProPhe >>>> Target Intron 11 >>>> A : 108 !|||:!! !..!:!! !!|||!:! 36638 bp lIleVal***AsnGlnHisProTyr++ ++P 680484 : TATAGTATAAAATCAACATCCATATgt..........................agC : 643820 109 : laPhePheGlyMetGlnAlaProSerIleTrpGlnTrpGlyGln{G} >>>> Ta : 123 !!.!! ! ! !:!!|||..!:!! !::|||||||||{.} roIleHisThrAlaAlaSerProGlnLeuHisArgTrpGlyGln{A}-+ 643819 : CCATTCACACAGCAGCGTCACCACAGCTTCATCGTTGGGGGCAA{C}ct....... : 643772 124 : rget Intron 12 >>>> {lu}AsnLysValTyrAlaCysMetMetValPheP : 134 113318 bp {..}!!.||||||!:: !! !! :!! !!!.| ++{rg}LysLysValTrpProAspSerLeu***LeuP 643771 : ...................ag{GC}AAGAAGGTATGGCCAGATAGCCTGTGATTAT : 530424 135 : heLeuSerAsnMetIleGlu{As} >>>> Target Intron 13 >>>> {n : 141 ||:!!|||||| :!!:!!{!.} 28551 bp {. heValSerAsnCysLeuGln{Ar}++ ++{g 530423 : TTGTCTCTAATTGTCTTCAA{AG}gt..........................ag{g : 501850 142 : }GlnCysMetSerThrGlyAlaPheGlu >>>> Target Intron 14 >>>> : 151 }||| ::: ::::::::: 75052 bp }GlnIleLeuTyrGlnLeuSerTyrGln+- 501849 : }cagattctttaccagctgagctaccaggg.......................... : 501820 152 : IleThr{L} >>>> Target Intron 15 >>>> {eu}AsnAspValPr : 157 ::::::{|} 400 bp {||}||| :::|| ++MetSer{L}++ -+{eu}AsnGlyLeuPr 501819 : agatgtca{t}gt..........................gg{ta}aatgggcttcc : 426352 158 : oValTrpSerLys{Le} >>>> Target Intron 16 >>>> {u}GluSer : 164 | ||| ...{ } 177996 bp {!} ||| oGlnTrpLeuSer{Ar}++ ++{g}MetSer 426351 : ccagtggctcagc{ag}gt..........................ag{g}atgtct : 248335 165 : GlyHis{Le} >>>> Target Intron 17 >>>> {u}ProSerMetGlnG : 172 ||| { } 1372 bp {!} !:!!! !| GlySer{Ar}++ ++{g}SerAlaThrValG 248334 : ggctct{ag}gt..........................ag{G}AGTGCCACAGTGC : 246939 173 : lnLeuValGlnIleLeuAspAsnGlu{Me} >>>> Target Intron 18 >> : 181 ||||||||::!:!:||| ::::!!{! } 88147 bp lnLeuValArgValLeuTrpSerGln{Se}++ 246938 : AACTCGTCAGAGTGCTGTGGTCACAA{AG}gt........................ : 246908 182 : >> {t}LysLeuAsn{Va} >>>> Target Intron 19 >>>> {l}His : 186 { }!..:!!|||{ } 20496 bp {!} ! ++{r}SerIleAsn{Se}++ ++{r}Lys 246907 : ..ag{C}AGCATAAAC{AG}gt..........................ag{c}aAA : 138254 187 : MetAspSerIlePro : 191 ||||||!:! !||| MetAspAsn***Pro 138253 : ATGGATAATTAACCC : 138237 vulgar: SPP00000025_1.0 33 191 . NIVO01008816.1:subseq(494279,1406561) 1268871 138236 - 109 M 14 42 S 0 1 5 0 2 I 0 170583 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 21256 3 0 2 S 1 2 M 6 18 5 0 2 I 0 53505 3 0 2 M 9 27 5 0 2 I 0 64171 3 0 2 M 4 12 5 0 2 I 0 49015 3 0 2 5 0 2 I 0 81064 3 0 2 M 10 30 5 0 2 I 0 82111 3 0 2 5 0 2 I 0 21143 3 0 2 M 6 18 S 0 2 5 0 2 I 0 20832 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 24471 3 0 2 S 1 1 M 16 48 5 0 2 I 0 36634 3 0 2 M 15 45 S 0 1 5 0 2 I 0 113314 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 28547 3 0 2 S 1 1 M 9 27 5 0 2 I 0 75048 3 0 2 M 2 6 S 0 1 5 0 2 I 0 396 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 177992 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 1368 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 88143 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 20492 3 0 2 S 1 1 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 138237 1268871 109 - . gene_id 13 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1268829 1268871 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1268829 1268871 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1268827 1268828 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1098242 1268828 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1098242 1098243 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1098227 1098241 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1098227 1098241 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1098225 1098226 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1076967 1098226 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1076967 1076968 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1076947 1076966 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1076947 1076966 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1076945 1076946 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1023438 1076946 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1023438 1023439 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1023411 1023437 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1023411 1023437 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1023409 1023410 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1023410 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 959223 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 6 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 829137 910204 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 829137 829138 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 829107 829136 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 829107 829136 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 829105 829106 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 829106 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 725845 746991 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 725845 725846 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 725825 725844 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 725825 725844 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 725823 725824 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 704989 725824 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 704989 704990 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 704983 704988 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 704983 704988 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 704981 704982 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 680508 704982 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 680508 680509 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 680459 680507 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 680459 680507 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 680457 680458 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 643821 680458 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 643821 643822 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 643775 643820 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 643775 643820 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 643773 643774 . - . intron_id 12 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 530457 643774 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 530457 530458 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 530402 530456 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 530402 530456 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 530400 530401 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 501851 530401 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 501851 501852 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 501823 501850 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 501823 501850 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 501821 501822 . - . intron_id 14 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426771 501822 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426771 426772 . - . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426764 426770 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426764 426770 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426762 426763 . - . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426364 426763 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426364 426365 . - . intron_id 14 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426336 426363 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426336 426363 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426334 426335 . - . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 248340 426335 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 248340 248341 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 248325 248339 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 248325 248339 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 248323 248324 . - . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 246953 248324 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 246953 246954 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 246911 246952 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 246911 246952 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 246909 246910 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 158764 246910 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 158764 158765 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 158752 158763 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 158752 158763 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 158750 158751 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 138256 158751 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 138256 138257 . - . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 138237 138255 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 138237 138255 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 138237 1268871 109 - . alignment_id 13 ; Query SPP00000025_1.0 ; Align 1268872 34 42 ; Align 1098240 49 12 ; Align 1076965 54 18 ; Align 1023438 60 27 ; Align 959236 69 12 ; Align 829137 73 30 ; Align 725845 83 18 ; Align 704988 90 3 ; Align 680507 92 48 ; Align 643821 108 45 ; Align 530455 124 51 ; Align 501850 142 27 ; Align 426771 151 6 ; Align 426362 154 24 ; Align 248339 163 12 ; Align 246952 168 39 ; Align 158763 182 9 ; Align 138255 186 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 108 Query range: 23 -> 194 Target range: 1387605 -> 348978 24 : GlyGlyValProSerLysArgLeuLysMetGlnTyrAla{Th} >>>> Target : 37 |||!.!||| !|||..!||||||:!!! ...:!! !{!:} 39 GlyAlaValSerSerSerArgLeuGluLysSerHisPhe{Se}++ 1387605 : GGGGCAGTTAGTAGCTCAAGGTTGGAAAAAAGTCATTTC{AG}gt........... : 1387562 38 : Intron 1 >>>> {r}GlyProLeuLeuLysPheGlnIleCysValSerUnkG : 50 900 bp {!}||| !|||! !..!|||...:!! !:!! ! | ++{r}GlyPheLeuSerSerPheSerLeuAsnIleValLysG 1387561 : ..............ag{T}GGTTTTCTATCCTCATTCAGCCTCAACATAGTTAAAG : 1347627 51 : lyTyrArgArgValPheGluGluTyrMetArg{V} >>>> Target Intron : 61 ||||||||! !:!!!!...!! ! !!:!.!{ } 18952 bp lyTyrArgIleLeuLeuSerValMetIleHis{A}++ 1347626 : GATATAGGATTCTATTATCAGTGATGATTCAC{A}gt................... : 1347591 62 : 2 >>>> {al}IleSerGlnArgTyrProAspIleArg >>>> Target Int : 71 { !}|||... ||| |||::::::::: 27089 ++{rg}IleLysProArgSerProGluLeuGln++ 1347590 : ......ag{gg}atcaaacccaggtctcctgaattgcaggt............... : 1328610 72 : ron 3 >>>> IleGluGly >>>> Target Intron 4 >>>> GluAsn : 75 bp :!!..!||| 21163 bp ::: ++ValSerGly++ ++GlySer 1328609 : ..........agGTCTCAGGGgt.........................agggatca : 1280348 76 : TyrLeuProGlnProIleTyrArgHisIleAlaSerPheLeuSerValPhe >>> : 93 ||| ||||||...||| |||||| AsnProGlyLeuProHisTyrArgArgIleLeuHisGlnLeuSerHisLys+- 1280347 : aacccaggtctcccacattacaggaggattcttcaccagctgagccacaaggg... : 1280292 94 : > Target Intron 5 >>>> LysLeuValLeuIleGlyLeuIleIleValGl : 103 10279 bp !:!!||| |||::::::::: ++AlaAlaLeuLeu***PheLeuLeuLeuLeuVa 1280291 : ......................agGCTGCACTATTGTAGttcctcttgcttctggt : 1269985 104 : yLysAspProPhe{A} >>>> Target Intron 6 >>>> {la}PhePheG : 111 ...||||||!::{|} 28227 bp {||}...:::| lSerAspProTrp{A}++ -+{la}LeuTrpG 1269984 : gtctgaTCCCTGG{G}gt.........................cg{cA}Ctgtggg : 1241734 112 : lyMetGlnAla >>>> Target Intron 7 >>>> ProSerIleTrpGln : 120 |||||||| 72157 bp ||| |||||| lyMetGlnAsp-+ +-ProLeuHisTrpGln+ 1241733 : gcatgcaggatct.........................aacccctgcattggcagg : 1169550 121 : >>>> Target Intron 8 >>>> TrpGlyGlnGlu{A} >>>> Target : 124 41736 bp !::!.!!!.|||{ } 85 + +-PheAlaHisGlu{A}++ 1169549 : t.........................acTTTGCACATGAA{G}gt........... : 1127799 125 : Intron 9 >>>> {sn}LysValTyrAlaCysMetMetValPhePhe{L} > : 135 697 bp { !}...:::::: ::: |||||| {:} +-{la}SerIlePheProSerIleArgValPheSer{M}++ 1127798 : ..............ac{ct}tcaatctttcccagcatcagggtcttttct{a}gt. : 1042069 136 : >>> Target Intron 10 >>>> {eu}SerAsnMetIleGluAsnGlnCysM : 144 18960 bp {!!}::::::::::::|||::: ||| ++{et}AlaSerLeuValGluHisGlyCys* 1042068 : .........................ag{tg}gcttcccttgtggagcatgggtgct : 1023085 145 : etSerThrGlyAlaPheGluIleThrLeuAsnAspVal{P} >>>> Target I : 157 ...||| ||| :::...:::::: !{ } 1226 **GlyThrGlnAlaSerValValAlaValHisGlyPhe{T}++ 1023084 : agggcacacaggcttcagtagttgcggtgcatgggttC{A}gt............. : 1023043 158 : ntron 11 >>>> {ro}Val{Tr} >>>> Target Intron 12 >>>> : 159 85 bp {!!}|||{||} 26304 bp ++{hr}Val{Tr}++ ++ 1023042 : .............ag{ct}gta{tG}gt..........................ag : 874051 160 : {p}{Se} >>>> Target Intron 13 >>>> {r}LysLeuGlu >>>> : 164 {|}{!!} 64838 bp {!}||||||:!! {p}{Ar}++ ++{g}LysLeuGln++ 874050 : {G}{AG}gt..........................ag{G}AAACTACAGgt..... : 809196 165 : Target Intron 14 >>>> >>>> Target Intron 15 >>>> Ser : 164 62207 bp 42003 bp !:! ++++ ++Asn 809195 : .....................aggt..........................agAAC : 704988 165 : Gly >>>> Target Intron 16 >>>> HisLeu >>>> Target Int : 168 ||| 183869 bp |||||| 9046 Gly++ ++HisLeu++ 704987 : GGGgt..........................agCACCTGgt............... : 521105 169 : ron 17 >>>> ProSerMetGlnGlnLeuValGlnIleLeuAspAsnGluMetL : 182 bp ||||||::: :::::::::......|||||| -+ProSerIlePheProSerIleArgValPheSerAsnGluSerA 521104 : ...........tgccctcaatctttcctagcatcagggtcttttcaaatgagtcag : 512019 183 : ysLeuAsnVal{Hi} >>>> Target Intron 18 >>>> {s}MetAspSe : 189 ||| :::{..} 163002 bp {.}..!|||:! laLeuProIle{Ar}++ ++{g}GlnAspAl 512018 : ctcttcctatc{ag}gt..........................ag{G}CAGGATGC : 348996 190 : rIleProHisHisArg : 194 !:!: !||||||||| aLeuIleHisHisArg 348995 : TTTGATACACCACAGG : 348979 vulgar: SPP00000025_1.0 23 194 . NIVO01008816.1:subseq(494279,1406561) 1387605 348978 - 108 M 13 39 S 0 2 5 0 2 I 0 39896 3 0 2 S 1 1 M 23 69 S 0 1 5 0 2 I 0 18948 3 0 2 S 1 2 M 9 27 5 0 2 I 0 27085 3 0 2 M 3 9 5 0 2 I 0 21159 3 0 2 M 19 57 5 0 2 I 0 10275 3 0 2 M 15 45 S 0 1 5 0 2 I 0 28223 3 0 2 S 1 2 M 6 18 5 0 2 I 0 72153 3 0 2 M 5 15 5 0 2 I 0 41732 3 0 2 M 4 12 S 0 1 5 0 2 I 0 85693 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 18956 3 0 2 S 1 2 M 21 63 S 0 1 5 0 2 I 0 122681 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 26300 3 0 2 S 1 3 5 0 2 I 0 64834 3 0 2 S 1 1 M 3 9 5 0 2 I 0 62203 3 0 2 5 0 2 I 0 41999 3 0 2 M 2 6 5 0 2 I 0 183865 3 0 2 M 2 6 5 0 2 I 0 9042 3 0 2 M 18 54 S 0 2 5 0 2 I 0 162998 3 0 2 S 1 1 M 8 24 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 348979 1387605 108 - . gene_id 14 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1387565 1387605 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1387565 1387605 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1387563 1387564 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1347665 1387564 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1347665 1347666 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1347594 1347664 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1347594 1347664 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1347592 1347593 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1328642 1347593 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1328642 1328643 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1328613 1328641 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1328613 1328641 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1328611 1328612 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1301524 1328612 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1301524 1301525 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1301515 1301523 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1301515 1301523 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1301513 1301514 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1280352 1301514 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1280352 1280353 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1280295 1280351 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1280295 1280351 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1280293 1280294 . - . intron_id 5 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1270016 1280294 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1270016 1270017 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1269970 1270015 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1269970 1270015 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1269968 1269969 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1241743 1269969 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1241743 1241744 . - . intron_id 5 ; splice_site "cg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1241723 1241742 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1241723 1241742 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1241721 1241722 . - . intron_id 7 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1169566 1241722 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1169566 1169567 . - . intron_id 6 ; splice_site "aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1169551 1169565 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1169551 1169565 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1169549 1169550 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1127815 1169550 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1127815 1127816 . - . intron_id 7 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1127802 1127814 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1127802 1127814 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1127800 1127801 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1042105 1127801 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1042105 1042106 . - . intron_id 8 ; splice_site "ac" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1042072 1042104 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1042072 1042104 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1042070 1042071 . - . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1023112 1042071 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1023112 1023113 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1023046 1023111 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1023046 1023111 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1023044 1023045 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 1023045 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 874050 900353 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 874050 874051 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 874047 874049 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 874047 874049 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 874045 874046 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 809209 874046 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 809209 809210 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 809199 809208 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 809199 809208 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 809197 809198 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 809198 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 704989 746991 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 704989 704990 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 704983 704988 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 704983 704988 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 704981 704982 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 521114 704982 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 521114 521115 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 521108 521113 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 521108 521113 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 521106 521107 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 512062 521107 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 512062 512063 . - . intron_id 16 ; splice_site "tg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 512006 512061 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 512006 512061 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 512004 512005 . - . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 349004 512005 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 349004 349005 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 348979 349003 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 348979 349003 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 348979 1387605 108 - . alignment_id 14 ; Query SPP00000025_1.0 ; Align 1387606 24 39 ; Align 1347664 38 69 ; Align 1328640 62 27 ; Align 1301524 71 9 ; Align 1280352 74 57 ; Align 1270016 93 45 ; Align 1241741 109 18 ; Align 1169566 115 15 ; Align 1127815 120 12 ; Align 1042103 125 30 ; Align 1023110 136 63 ; Align 900359 158 3 ; Align 809208 161 9 ; Align 704989 164 6 ; Align 521114 166 6 ; Align 512062 168 54 ; Align 349003 187 24 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 110 Query range: 5 -> 193 Target range: 1395398 -> 226635 6 : LeuLeuLeuValAlaAlaSerAlaMetValArgSerGluAlaSer{A} >>>> T : 21 |||::: |||||| :::::: ... ...:::|||{!} LeuIleAlaValAlaLysThrSerLysThrMetLeuAsnSerSer{G}++ 1395398 : ctgattgctgtggccaaaacttccaaaactatgttgaatagtagt{g}gt...... : 1395350 22 : arget Intron 1 >>>> {la}AsnLeuGlyGlyValProSerLysArgLeuL : 32 3790 bp {.!}::!||||||..!..!||| !:!!...::: ++{ly}HisLeuGlySerThrProHisGlnGluIleG 1395349 : ...................ag{gg}caTCTGGGTTCAACTCCTCATCAGGAaatag : 1391530 33 : ysMetGlnTyrAlaThr{G} >>>> Target Intron 2 >>>> {ly}Pro : 39 ... {!} 9279 bp {.!}||| lySerHisLysPro***{A}++ ++{la}Pro 1391529 : gatcccacaagccatga{g}gt.........................ag{CA}CCT : 1382230 40 : >>>> Target Intron 3 >>>> LeuLeuLysPheGlnIleCysValSer : 48 42521 bp ||| |||...::: |||||| ++ ++ProLeuThrPheSerLeuTyrValSer 1382229 : gt.........................agcccttgactttcagtctgtatgtgtcc : 1339682 49 : UnkGlyTyrArg >>>> Target Intron 4 >>>> ArgValPheGluGlu : 57 :::... 124902 bp !..!|||:!!||| LeuValPheGlu++ ++AspThrPheGlnGlu 1339681 : cttgtttttgaggt.........................agGACACTTTTCAGGAA : 1214753 58 : {Ty} >>>> Target Intron 5 >>>> {r}MetArgValIleSer{G} : 64 {||} 154181 bp {|}:::||||||...|||{:} {Ty}-+ ++{r}IleArgValPheSer{A}++ 1214752 : {TA}ct.........................ag{t}ataagggtcttttca{a}gt : 1060550 65 : >>>> Target Intron 6 >>>> {ln}ArgTyrProAspIleArgIleGluG : 73 29292 bp {:!} |||::: |||||| ++{rg}AspLeuProAsnProGlyIleGluP 1060549 : .........................ag{gg}gatcttcccaacccagggattgaac : 1031232 74 : ly{Gl} >>>> Target Intron 7 >>>> {u}AsnTyrLeuPro{Gl} : 79 {..} 5123 bp {.}! ! ! ||||||{!!} ro{Se}++ ++{r}IleLysLeuPro{Hi}++ 1031231 : cc{ag}gt.........................ag{C}ATCAAGCTTCCA{CA}gt : 1026089 80 : >>>> Target Intron 8 >>>> {n}ProIleTyr{Ar} >>>> Target : 83 66854 bp {.} !! !|||{||} 19 ++{s}SerAlaTyr{Ar}++ 1026088 : .........................ag{c}tCTGCCTAC{AG}gt........... : 959221 84 : Intron 9 >>>> {g}HisIleAlaSerPheLeuSerValPheLysLeuValL : 96 347 bp {|}|||:::... ||||||||| ::: |||| -+{g}HisMetCysLeuPheLeuSerGlnTyrHisThrValL 959220 : ..............tg{a}catatgtgtctgtttttgagccagtaccatactgttt : 939839 97 : euIleGlyLeuIle{Il} >>>> Target Intron 10 >>>> {e}ValGl : 103 ||||| ::::::{:!} 4600 bp {!}:!!|| euIleThrIleVal{Le}++ ++{u}LeuGl 939838 : tgattactatagtt{tt}gt..........................ag{A}TTAGG : 935218 104 : yLysAspProPheAlaPhePheGlyMetGlnAlaProSerIleTrpGlnTrpGlyG : 122 |||| ! !! ! !.!.! !..!! .!. ! !!:!!:!!! ... ..!. yLysLeuSerAlaIleMetSerSerAsnAsnPheSerAlaLeuLeuSerLeuSerS 935217 : AAAGCTTTCTGCTATTATGTCTTCCAATAATTTCTCTGCTCTTTTATCTCTCTCTT : 935161 123 : lnGluAsnLysValTyrAlaCysMetMetValPhePheLeuSerAsnMetIle > : 140 ..! !! :!!:!! ||||||:!!!!::!!||| !||| !.!.!:: erValIleGlnMetIleAlaCysLeuIleLeuPheGlnLysSerLeuPheMet++ 935160 : CTGTAATACAAATGATAGCATGTTTGATATTATTTCAGAAGTCTCTTTTTAtggt. : 935105 141 : >>> Target Intron 11 >>>> >>>> Target Intron 12 >>>> : 140 24903 bp 163213 bp ++++ + 935104 : .........................aggt..........................a : 746993 141 : >>>> Target Intron 13 >>>> GluAsnGlnCysMetSer{T} >> : 146 62505 bp |||:::|||||| !..!{.} +++ ++GluSerGlnCysArgGlu{V}+- 746992 : ggt..........................agGAGTCACAGTGTCGGGAA{G}ga.. : 684465 147 : >> Target Intron 14 >>>> {hr}GlyAlaPheGluIle >>>> Targ : 152 61780 bp {.!}..!.!!|||:!!!!: ++{al}SerThrPheGlnMet++ 684464 : ........................ag{TC}TCAACTTTTCAAATGgt......... : 622668 153 : et Intron 15 >>>> ThrLeuAsn{As} >>>> Target Intron 16 : 155 122854 bp ||||||!!.{:!} 843 bp ++ThrLeuLys{As}++ 622667 : .................agaccTTGAAG{AA}gt...................... : 499803 156 : >>>> {p}ValProVal >>>> Target Intron 17 >>>> TrpSer{L : 161 {!}:::|||::: 9951 bp ||||||{! ++{n}LeuProIle++ ++TrpSer{S 499802 : ....ag{c}ctcccaattgt..........................agTGGAGC{A : 488995 162 : y} >>>> Target Intron 18 >>>> {s}LeuGlu{S} >>>> Targe : 164 .} 39578 bp {.}||||||{:} 6 e}++ ++{r}LeuGlu{A}++ 488994 : g}gt..........................ag{C}TTAGAA{G}gt.......... : 449405 165 : t Intron 19 >>>> {er}GlyHisLeuPro{S} >>>> Target Intro : 169 8474 bp {!!}! !|||||||||{.} 36620 bp ++{la}ValHisLeuPro{G}-+ 449404 : ................ag{CT}GTCCACCTCCCT{G}ct................. : 380916 170 : n 20 >>>> {er}MetGlnGlnLeuValGlnIleLeu{As} >>>> Target : 178 {!!} !:!!! !:!!:!!|||:!!|||{..} 11 ++{ly}TrpGluProValIleGlnLeuLeu{Se}++ 380915 : .........ag{gT}TGGGAACCAGTAATACAACTTCTC{AG}gt........... : 344268 179 : Intron 21 >>>> {p}AsnGluMetLysLeuAsnValHisMetAspSerIle : 190 7589 bp {!}......:::||| ...|||:::... ||| ++{r}LysSerLeuLysSerGlyValTyrPheThrLeuIle 344267 : ...............ag{t}aagtctttgaaatctggtgtgtattttacacttata : 226647 191 : ProHisHis : 193 !!|||:!! AlaHisTyr 226646 : GCACATTAC : 226636 vulgar: SPP00000025_1.0 5 193 . NIVO01008816.1:subseq(494279,1406561) 1395398 226635 - 110 M 15 45 S 0 1 5 0 2 I 0 3786 3 0 2 S 1 2 M 16 48 S 0 1 5 0 2 I 0 9275 3 0 2 S 1 2 M 1 3 5 0 2 I 0 42517 3 0 2 M 13 39 5 0 2 I 0 124898 3 0 2 M 5 15 S 0 2 5 0 2 I 0 154177 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 29288 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 5119 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 66850 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 19343 3 0 2 S 1 1 M 17 51 S 0 2 5 0 2 I 0 4596 3 0 2 S 1 1 M 38 114 5 0 2 I 0 24899 3 0 2 5 0 2 I 0 163209 3 0 2 5 0 2 I 0 62501 3 0 2 M 6 18 S 0 1 5 0 2 I 0 61776 3 0 2 S 1 2 M 5 15 5 0 2 I 0 122850 3 0 2 M 3 9 S 0 2 5 0 2 I 0 839 3 0 2 S 1 1 M 3 9 5 0 2 I 0 9947 3 0 2 M 2 6 S 0 2 5 0 2 I 0 39574 3 0 2 S 1 1 M 2 6 S 0 1 5 0 2 I 0 68470 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 36616 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 117585 3 0 2 S 1 1 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 226636 1395398 110 - . gene_id 15 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1395353 1395398 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1395353 1395398 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1395351 1395352 . - . intron_id 1 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1391563 1395352 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1391563 1391564 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1391512 1391562 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1391512 1391562 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1391510 1391511 . - . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1382233 1391511 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1382233 1382234 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1382228 1382232 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1382228 1382232 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1382226 1382227 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1339707 1382227 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1339707 1339708 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1339668 1339706 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1339668 1339706 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1339666 1339667 . - . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1214766 1339667 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1214766 1214767 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1214749 1214765 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1214749 1214765 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1214747 1214748 . - . intron_id 5 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1060568 1214748 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1060568 1060569 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1060551 1060567 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1060551 1060567 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1060549 1060550 . - . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1031259 1060550 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1031259 1031260 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1031228 1031258 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1031228 1031258 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1031226 1031227 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026105 1031227 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1026105 1026106 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1026090 1026104 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1026090 1026104 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026088 1026089 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1026089 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 939877 959223 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 939877 939878 . - . intron_id 8 ; splice_site "TG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 939823 939876 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 939823 939876 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 939821 939822 . - . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 935223 939822 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 935223 935224 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 935108 935222 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 935108 935222 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 935106 935107 . - . intron_id 11 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 935107 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 12 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 910204 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 684487 746991 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 684487 684488 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 684468 684486 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 684468 684486 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 684466 684467 . - . intron_id 14 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 622688 684467 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 622688 622689 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 622671 622687 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 622671 622687 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 622669 622670 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 499817 622670 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 499817 499818 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 499806 499816 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 499806 499816 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 499804 499805 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 498963 499805 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 498963 498964 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 498953 498962 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 498953 498962 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 498951 498952 . - . intron_id 17 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 489002 498952 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 489002 489003 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 488994 489001 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 488994 489001 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 488992 488993 . - . intron_id 18 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 449416 488993 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 449416 449417 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 449408 449415 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 449408 449415 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 449406 449407 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 380934 449407 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 380934 380935 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 380919 380933 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 380919 380933 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 380917 380918 . - . intron_id 20 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 344299 380918 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 344299 344300 . - . intron_id 19 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 344271 344298 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 344271 344298 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 344269 344270 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 226682 344270 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 226682 226683 . - . intron_id 20 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 226636 226681 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 226636 226681 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 226636 1395398 110 - . alignment_id 15 ; Query SPP00000025_1.0 ; Align 1395399 6 45 ; Align 1391561 22 48 ; Align 1382231 39 3 ; Align 1339707 40 39 ; Align 1214766 53 15 ; Align 1060567 59 15 ; Align 1031257 65 27 ; Align 1026104 75 12 ; Align 959235 80 9 ; Align 939876 84 51 ; Align 935222 102 114 ; Align 684487 140 18 ; Align 622686 147 15 ; Align 499817 152 9 ; Align 498962 156 9 ; Align 489002 159 6 ; Align 449415 162 6 ; Align 380932 165 12 ; Align 344297 170 24 ; Align 226681 179 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 108 Query range: 20 -> 195 Target range: 1387425 -> 621040 21 : AlaAsnLeuGlyGlyValProSer{Ly} >>>> Target Intron 1 >>>> : 29 |||::!||||||! !:!!||||||{!.} 32606 bp AlaSerLeuGlyAspLeuProSer{Se}-+ + 1387425 : GCCTCCCTAGGAGACCTGCCTAGC{AG}tt.........................a : 1354795 30 : {s}ArgLeuLysMetGlnTyrAlaThrGlyProLeuLeuLysPheGlnIleCysV : 47 {.}!.!! !! :!:||| ! !||| !|||||| ! !:!|||:!: ! +{r}Asn***ThrLeuGlnLeuGluThrPheProLeuGlyLeuTyrGlnLeuThrC 1354794 : g{C}AACTAAACCCTTCAACTGGAAACCTTTCCCCTGGGTCTTTACCAGCTGACTT : 1354741 48 : alSerUnkGlyTyr{Ar} >>>> Target Intron 2 >>>> {g}ArgVal : 54 !||| ! !!:!{||} 11098 bp {|} ... ysSerGlnValPhe{Ar}++ ++{g}SerThr 1354740 : GTTCACAGGTATTT{CG}gt.........................ag{c}tcaact : 1343622 55 : PheGlu >>>> Target Intron 3 >>>> GluTyrMetArgValIleSer : 63 ::: 57625 bp !!:|||!!: !..!:!:||| GluGln++ ++AspTyrIleValThrLeuSer 1343621 : gaacaagt.........................agGATTACATTGTGACTTTGTCC : 1285970 64 : GlnArgTyrPro{A} >>>> Target Intron 4 >>>> {sp}IleArgIl : 71 !|||! !{|} 36258 bp {||} |||:: IleArgLeuSer{A}++ +-{sp}SerArgMe 1285969 : ATAAGGTTAAGT{g}gt.........................ac{at}tccaggat : 1249688 72 : eGluGlyGlu{As} >>>> Target Intron 5 >>>> {n}TyrLeuProG : 79 :...|||...{!.} 121841 bp {.} ||| !! tSerGlySer{Ar}++ ++{g}ProLeuPheP 1249687 : gtctggctct{ag}gt.........................ag{G}CCACTTTTTC : 1127823 80 : lnProIleTyrArgHisIle{A} >>>> Target Intron 6 >>>> {la} : 86 ||| !!:! !||| !{|} 72310 bp {||} roProHisPheAlaHisGlu{A}++ ++{la} 1127822 : CCCCTCACTTTGCACATGAA{G}gt.........................ag{CA} : 1055491 87 : SerPheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGly{L} : 104 |||!:: :::::: ||| :::|||! ! !! !:!::!:||||||{.} SerTyrSerAlaIleGlnLysSerIleLeuAsnLeuTrpLeuLeuValGly{S}++ 1055490 : AGTTActctgctatccaaaaatctattCTTAATCTCTGGTTGCTGGTGGGG{T}gt : 1055437 105 : >>>> Target Intron 7 >>>> {ys}AspProPheAlaPhePhe{Gl} > : 111 38157 bp {..}||| ||| ||||||{||} ++{er}AspValPheIlePhePhe{Gl}++ 1055436 : .........................ag{ct}gatgtttttattttcttt{gg}gt. : 1017256 112 : >>> Target Intron 8 >>>> {y}MetGlnAlaPro{Se} >>>> Targ : 116 44552 bp {|}|||...... {||} ++{y}MetSerGlySer{Se}++ 1017255 : ........................ag{g}atgtctggctct{ag}gt......... : 972689 117 : et Intron 9 >>>> {r}IleTrpGlnTrpGlyGlnGluAsnLysValTyr : 128 14887 bp {|}||| :::......|||::: :::::: ++{r}IleLysValPheSerAsnGluSerThrLeuHis++ 972688 : ................ag{c}atcaaagtcttttccaatgagtcaactcttcacgt : 957770 129 : >>>> Target Intron 10 >>>> >>>> Target Intron 11 >>>> : 128 47566 bp 4545 bp ++++ 957769 : ..........................aggt.......................... : 910202 129 : AlaCysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCys<->Met : 144 ! !..!||| !||||||||| !!..:!!:!:|||! !! !||| :!: ++LeuThrGlnMetProPhePheLeuValArgLeuLeuGluIleProCysProLeu 910201 : agCTAACTCAGATGCCTTTCTTCCTTGTGAGGCTGCTGGAAATCCCGTGCCCACTA : 905608 145 : SerThrGlyAlaPheGluIleThr >>>> Target Intron 12 >>>> Le : 153 ||||||||| !! ... ! ! 5221 bp || SerThrGlyProGluSerArgGln++ ++Le 905607 : TCCACTGGACCAGAGTCTCGTCAGgt..........................agct : 900360 154 : uAsn{A} >>>> Target Intron 13 >>>> {sp}ValProValTrpSer : 160 | {!} 17159 bp {!:}:::||| |||... uTyr{G}++ ++{lu}IleProGluTrpAsp 900359 : gtat{G}gt..........................ag{aa}atcccagaatgggat : 883180 161 : LysLeuGluSerGlyHis >>>> Target Intron 14 >>>> >>>> T : 167 |||::::::||| 136168 bp LeuLeuGlnAsnGlyLeu++ ++++ 883179 : ctccttcagaatggactggt..........................aggt...... : 746989 168 : arget Intron 15 >>>> LeuProSerMetGlnGlnLeu{V} >>>> Tar : 174 61162 bp |||||| :::|||... {!} ++LeuProHisLeuGlnAsnGly{G}++ 746988 : ....................agcttcctcatttgcaaaatggt{g}gt........ : 685805 175 : get Intron 16 >>>> {al}GlnIleLeuAspAsnGluMetLysLeuAsnVa : 185 64702 bp { !}..!|||||| ! ! !! ! |||||| ++{ly}MetIleLeuLysProProThrPheLeuAsnPr 685804 : ..................ag{GA}ATGATTCTCAAACCTCCAACGTTCCTCAACCC : 621073 186 : lHisMetAspSerIleProHisHisArgSer : 195 !|||:!: !! !! !||||||:!!!.!||| oHisLeuThrMetThrProHisTyrHisSer 621072 : ACACCTTACCATGACTCCTCACTATCATTCA : 621041 vulgar: SPP00000025_1.0 20 195 . NIVO01008816.1:subseq(494279,1406561) 1387425 621040 - 108 M 8 24 S 0 2 5 0 2 I 0 32602 3 0 2 S 1 1 M 22 66 S 0 2 5 0 2 I 0 11094 3 0 2 S 1 1 M 4 12 5 0 2 I 0 57621 3 0 2 M 11 33 S 0 1 5 0 2 I 0 36254 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 121837 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 72306 3 0 2 S 1 2 M 17 51 S 0 1 5 0 2 I 0 38153 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 44548 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 14883 3 0 2 S 1 1 M 11 33 5 0 2 I 0 47562 3 0 2 5 0 2 I 0 4541 3 0 2 M 16 48 G 0 3 M 9 27 5 0 2 I 0 5217 3 0 2 M 2 6 S 0 1 5 0 2 I 0 17155 3 0 2 S 1 2 M 11 33 5 0 2 I 0 136164 3 0 2 5 0 2 I 0 61158 3 0 2 M 7 21 S 0 1 5 0 2 I 0 64698 3 0 2 S 1 2 M 21 63 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 621041 1387425 108 - . gene_id 16 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1387400 1387425 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1387400 1387425 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1387398 1387399 . - . intron_id 1 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1354794 1387399 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1354794 1354795 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1354725 1354793 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1354725 1354793 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1354723 1354724 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1343627 1354724 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1343627 1343628 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1343614 1343626 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1343614 1343626 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1343612 1343613 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1285989 1343613 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1285989 1285990 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1285955 1285988 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1285955 1285988 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1285953 1285954 . - . intron_id 4 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1249697 1285954 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1249697 1249698 . - . intron_id 3 ; splice_site "ac" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1249675 1249696 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1249675 1249696 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1249673 1249674 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1127834 1249674 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1127834 1127835 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1127802 1127833 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1127802 1127833 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1127800 1127801 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1055492 1127801 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1055492 1055493 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1055438 1055491 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1055438 1055491 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1055436 1055437 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1017281 1055437 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1017281 1017282 . - . intron_id 6 ; splice_site "Ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1017259 1017280 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1017259 1017280 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1017257 1017258 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 972707 1017258 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 972707 972708 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 972692 972706 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 972692 972706 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 972690 972691 . - . intron_id 9 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 957805 972691 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 957805 957806 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 957771 957804 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 957771 957804 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 957769 957770 . - . intron_id 10 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 957770 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 11 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 905660 910204 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 905660 905661 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 905582 905659 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 905582 905659 . - . insertions 3 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 905580 905581 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 905581 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 883195 900353 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 883195 883196 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 883160 883194 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 883160 883194 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 883158 883159 . - . intron_id 14 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 883159 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 15 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 685830 746991 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 685830 685831 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 685808 685829 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 685808 685829 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 685806 685807 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 621106 685807 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 621106 621107 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 621041 621105 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 621041 621105 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 621041 1387425 108 - . alignment_id 16 ; Query SPP00000025_1.0 ; Align 1387426 21 24 ; Align 1354793 30 66 ; Align 1343626 53 12 ; Align 1285989 57 33 ; Align 1249695 69 18 ; Align 1127833 76 30 ; Align 1055490 87 51 ; Align 1017279 105 18 ; Align 972706 112 12 ; Align 957804 117 33 ; Align 905660 128 48 ; Align 905609 144 27 ; Align 900361 153 6 ; Align 883193 156 33 ; Align 685830 167 21 ; Align 621104 175 63 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 107 Query range: 0 -> 149 Target range: 1177250 -> 47997 1 : MetArgLeuLeuLeuLeuLeuLeuVal >>>> Target Intron 1 >>>> : 10 ::: ||||||||||||||||||::: 105936 bp LeuLeuLeuLeuLeuLeuLeuLeuLeu-+ ++ 1177250 : ctgctgctgctgctgctgctgctgctact.........................ag : 1071289 11 : AlaAlaSerAlaMetValArgSerGluAla >>>> Target Intron 2 >>> : 20 !.!::!! !|||:!!:!!!:!|||:!! ! 47820 bp ValSer***AlaLeuIleLysSerGlnGln-+ 1071288 : GTCAGCTAGGCTCTGATAAAATCCCAGCAGat........................ : 1071255 21 : > SerAlaAsnLeuGlyGlyValProSer >>>> Target Intron 3 >>> : 29 !!!!.!|||||| !||| !!|||!:! 64175 bp ++ArgGlyAsnLeuGlnGlyPheProAsn++ 1071254 : .agAGAGGAAATTTACAGGGGTTCCCCAATgt........................ : 1023408 30 : > LysArgLeuLys >>>> Target Intron 4 >>>> >>>> Targe : 33 !!|||:!! 49019 bp 15 ++LeuCysLeuGln++ ++++ 1023407 : .agctCTGCCTACAGgt.........................aggt.......... : 910202 34 : t Intron 5 >>>> MetGlnTyrAlaThrGlyProLeuLeuLysPheGlnIle : 45 0804 bp ! |||::! !||| !:!! !:!!!!.... ! ++ProLeuTyrSerGlnGlyAspMetLysGluLeuSerHis 910201 : ...............agCCACTCTATAGCCAGGGAGATATGAAAGAGTTATCTCAT : 759364 46 : Cys >>>> Target Intron 6 >>>> >>>> Target Intron 7 > : 47 ||| 12367 bp 50455 bp Cys++ ++++ 759363 : TGTgt.........................aggt...................... : 746989 48 : >>> ValSerUnkGlyTyrArgArgValPheGluGluTyrMetArg{V} >>>> : 61 |||! ! !:!!|||!:!! !!::|||||| ||||||{|} ++ValMetValLeuHisArgLysGlyTrpGluGluLeuMetArg{V}++ 746988 : ...agGTGATGGTCTTACACAGAAAGGGGTGGGAGGAACTAATGAGA{G}gt.... : 696491 62 : Target Intron 8 >>>> {al}IleSerGlnArg >>>> Target Int : 66 130284 bp {||}:!!||| !:! 6407 b ++{al}ValSerIleLys++ 696490 : .....................ag{TC}GTTTCAATCAAAgt............... : 566193 67 : ron 9 >>>> TyrProAspIle{Ar} >>>> Target Intron 10 >>>> : 70 p !|||.!.:!!{||} 133004 bp ++ProProGlnVal{Ar}++ 566192 : ..........agCCCCCACAGGTC{AG}gt.......................... : 559772 71 : {g}IleGlu >>>> Target Intron 11 >>>> GlyGluAsnTyr > : 77 {|} ... 10048 bp |||! !||| ! ++{g}CysHis++ ++GlyAlaAsnGln++ 559771 : ag{a}tgtcatgt..........................agGGAGCAAATCAGgt. : 416701 78 : >>> Target Intron 12 >>>> LeuPro >>>> Target Intron 13 : 79 48403 bp !||| 11127 bp ++AlaPro++ 416700 : .........................agGCTCCTgt..................... : 368292 80 : >>>> >>>> Target Intron 14 >>>> GlnProIleTyrArgHisI : 85 33879 bp ||| ! ||| !!|||! ++++ ++GlnValGluTyr***HisL 368291 : .....aggt..........................agCAGGTAGAGTACTGACACA : 323270 86 : leAlaSer >>>> Target Intron 15 >>>> >>>> Target Intr : 88 !|||!.! 110644 bp 68635 b ysAlaLys-+ ++++ 323269 : AAGCCAAGat..........................aggt................ : 212615 89 : on 16 >>>> PheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleVa : 102 p ......||||||||| !:!!|||:!!! !||| !|||:! ++AspPheLysValPheLysSerLeuLeuLeuAspLeuSerIleLe 212614 : ..........aggactttaaagtatttaaatCTCTACTTCTTGATTTATCAATTTT : 143940 103 : l >>>> Target Intron 17 >>>> GlyLysAspProPheAlaPhePhe{ : 111 ! 85695 bp |||...:::||| ...|||{ u++ ++GlySerAsnProHisLeuLeuPhe{ 143939 : Agt..........................agggatcaaacccacatctcctattt{ : 58218 112 : G} >>>> Target Intron 18 >>>> {ly}MetGlnAlaProSerIleTr : 118 |} 3363 bp {||} ! !!||||||||||| G}++ ++{ly}SerValProProSerIleTr 58217 : G}gt..........................ag{GG}TCTGTGCCACCTTCTATCTG : 54834 119 : pGlnTrp{Gl} >>>> Target Intron 19 >>>> {y}GlnGluAsnLys : 125 |...! !{ !} 6741 bp {!} :::... pSerLeu{Ar}++ ++{g}ValValSerSer 54833 : GTCTTTG{AG}gt..........................ag{g}gtggtgtcatct : 48072 126 : ValTyrAlaCysMetMetValPhePheLeuSerAsnMetIleGluAsnGlnCysMe : 144 ...||| :::::::::...||||||::: :::||| ... AlaTyrLeuArgLeuLeuIleLeuPheLeuAlaIleLeuIleProAlaCysAlaSe 48071 : gcatatctgaggttattgatacttttcctggcaatcttgattccagcttgtgcttc : 48015 145 : tSerThrGlyAlaPhe : 149 |||::: |||||| rSerSerProAlaPhe 48014 : ttccagcccagcattt : 47998 vulgar: SPP00000025_1.0 0 149 . NIVO01008816.1:subseq(494279,1406561) 1177250 47997 - 107 M 9 27 5 0 2 I 0 105932 3 0 2 M 10 30 5 0 2 I 0 47816 3 0 2 M 9 27 5 0 2 I 0 64171 3 0 2 M 4 12 5 0 2 I 0 49015 3 0 2 5 0 2 I 0 150800 3 0 2 M 14 42 5 0 2 I 0 12363 3 0 2 5 0 2 I 0 50451 3 0 2 M 14 42 S 0 1 5 0 2 I 0 130280 3 0 2 S 1 2 M 4 12 5 0 2 I 0 6403 3 0 2 M 4 12 S 0 2 5 0 2 I 0 133000 3 0 2 S 1 1 M 2 6 5 0 2 I 0 10044 3 0 2 M 4 12 5 0 2 I 0 48399 3 0 2 M 2 6 5 0 2 I 0 11123 3 0 2 5 0 2 I 0 33875 3 0 2 M 9 27 5 0 2 I 0 110640 3 0 2 5 0 2 I 0 68631 3 0 2 M 15 45 5 0 2 I 0 85691 3 0 2 M 8 24 S 0 1 5 0 2 I 0 3359 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 6737 3 0 2 S 1 1 M 28 84 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 47998 1177250 107 - . gene_id 17 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1177224 1177250 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1177224 1177250 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1177222 1177223 . - . intron_id 1 ; splice_site "ct" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1071288 1177223 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1071288 1071289 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1071258 1071287 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1071258 1071287 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1071256 1071257 . - . intron_id 2 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1023438 1071257 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1023438 1023439 . - . intron_id 1 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1023411 1023437 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1023411 1023437 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1023409 1023410 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1023410 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 959223 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 5 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 759401 910204 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 759401 759402 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 759359 759400 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 759359 759400 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 759357 759358 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 759358 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 696537 746991 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 696537 696538 . - . intron_id 6 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 696494 696536 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 696494 696536 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 696492 696493 . - . intron_id 8 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 566210 696493 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 566210 566211 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 566196 566209 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 566196 566209 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 566194 566195 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559789 566195 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559789 559790 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559775 559788 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559775 559788 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559773 559774 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 426771 559774 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 426771 426772 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 426764 426770 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 426764 426770 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 426762 426763 . - . intron_id 11 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 416716 426763 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 416716 416717 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 416704 416715 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 416704 416715 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 416702 416703 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 368301 416703 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 368301 368302 . - . intron_id 11 ; splice_site "aG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 368295 368300 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 368295 368300 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 368293 368294 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 368294 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 323289 357167 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 323289 323290 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 323262 323288 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 323262 323288 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 323260 323261 . - . intron_id 15 ; splice_site "AT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 323261 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 16 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 143983 212617 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 143983 143984 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 143938 143982 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 143938 143982 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 143936 143937 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 58243 143937 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 58243 58244 . - . intron_id 16 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 58218 58242 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 58218 58242 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 58216 58217 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 54855 58217 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 54855 54856 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 54824 54854 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 54824 54854 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 54822 54823 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 48083 54823 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 48083 48084 . - . intron_id 18 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 47998 48082 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 47998 48082 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 47998 1177250 107 - . alignment_id 17 ; Query SPP00000025_1.0 ; Align 1177251 1 27 ; Align 1071288 10 30 ; Align 1023438 20 27 ; Align 959236 29 12 ; Align 759401 33 42 ; Align 696537 47 42 ; Align 566208 62 12 ; Align 559789 66 12 ; Align 426770 71 6 ; Align 416716 73 12 ; Align 368301 77 6 ; Align 323289 79 27 ; Align 143983 88 45 ; Align 58243 103 24 ; Align 54853 112 27 ; Align 48082 122 84 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 103 Query range: 3 -> 184 Target range: 1329437 -> 116877 4 : LeuLeuLeuLeuLeuValAlaAlaSerAla{M} >>>> Target Intron 1 : 14 |||::::::::::::::::::|||!!!!.!{ } 65276 bp LeuIleValIleIleIleSerAlaThrVal{G}++ 1329437 : TtaattgtgataatcatttctgCTACAGTT{G}gt..................... : 1329404 15 : >>>> {et}ValArgSerGluAlaSerAlaAsnLeuGly{G} >>>> Target : 25 { }:!!|||||| !! !:!!.!.||| !!{|} 97 ++{lu}IleArgSerIleLeuIleSerGlnLeuTrp{G}++ 1329403 : ....ag{aa}ATAAGAAGCATCCTAATATCTCAACTATGG{G}gt........... : 1264095 26 : Intron 2 >>>> {ly}ValProSerLysArgLeuLysMetGln >>>> Ta : 35 920 bp {||}::: ::: ||| ||| ++{ly}IleLysProArgSerLeuAlaProGln++ 1264094 : ..............ag{gg}atcaaacccaggtctcttgcaccgcaggt....... : 1166146 36 : rget Intron 3 >>>> TyrAlaThrGly{P} >>>> Target Intron : 39 38334 bp !:!||| !! !{ } 47117 bp +-PheAlaHisGlu{G}++ 1166145 : ..................acTTTGCACATGAA{G}gt................... : 1127799 40 : 4 >>>> {ro}LeuLeuLysPheGlnIleCysValSerUnkGlyTyrArg{Ar} : 53 { !} ::: :::|||::: :::||| |||::: {||} ++{ly}ThrIleAlaTyrGlnValSerLeuSerMetGlyPheSer{Ar}+ 1127798 : ......ag{gg}actatagcctaccaagtttctctgtccatgggattttcc{ag}g : 1080641 54 : >>>> Target Intron 5 >>>> {g}ValPheGlu{G} >>>> Target : 57 38559 bp {|}||||||...{ } 118 - ++{g}ValPheSer{T}++ 1080640 : a.........................ag{g}gtcttttct{a}gt........... : 1042069 58 : Intron 6 >>>> {lu}TyrMetArgValIleSerGlnArgTyrProAspIle : 69 336 bp { } ! :!:||| ! !..!!:!||| ! ||| ! ! ++{hr}GluLeuArgLysCysGlnArgArgGluProLeuGly 1042068 : ..............ag{CT}GAACTCAGGAAATGCCAGCGGCGGGAGCCCCTTGGT : 923700 70 : ArgIleGluGlyGlu >>>> Target Intron 7 >>>> >>>> Targe : 75 !.!:!:! |||||| 13478 bp 9 HisLeuGlyGlyGlu++ ++++ 923699 : CACCTGGGCGGAGAGgt.........................aggt.......... : 910202 76 : t Intron 8 >>>> AsnTyr{L} >>>> Target Intron 9 >>>> { : 77 844 bp |||{:} 9369 bp { ++LeuTyr{V}++ ++{ 910201 : ...............agctgtat{G}gt.........................ag{ : 890984 78 : eu}ProGlnProIleTyrArgHisIleAla >>>> Target Intron 10 >> : 87 !!}|||.!.|||.!! ! ! !|||.!! ! 23075 bp al}ProAspProPheGlnThrHisPheGln++ 890983 : TG}CCTGATCCATTCCAAACCCATTTCCAGgt........................ : 890953 88 : >> SerPheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGlyL : 104 !.!! !! !|||:!!.!...!! !:!!! !:!!|||:!!|||||| !.!!: ++LysSerSerSerLeuMetSer***IleSerLeuGlyValIleIleTyrSerG 890952 : ..agAAATCCTCCTCTTTAATGTCATGAATATCCTTAGGAGTCATTATTTATAGCC : 867829 105 : ysAspProPheAlaPhePheGly{Me} >>>> Target Intron 11 >>>> : 112 !!.!. !.!!||||||||| !{||} 20740 bp lnGln***IleAlaPhePheGln{Me}-+ + 867828 : AGCAGTGAATTGCTTTCTTCCAA{AT}ct..........................a : 847065 113 : {t}Gln >>>> Target Intron 12 >>>> >>>> Target Intro : 114 {|}||| 100068 bp 187203 b +{t}Gln++ ++++ 847064 : g{G}CAGgt..........................aggt................. : 746989 115 : n 13 >>>> AlaProSerIle{Tr} >>>> Target Intron 14 >>>> : 118 p !!|||..!:!!{ !} 19103 bp ++ProProGlnVal{Ar}++ + 746988 : .........agCCCCCACAGGTC{AG}gt..........................a : 540673 119 : {p}GlnTrpGly{Gl} >>>> Target Intron 15 >>>> {n}GluAsn : 124 {!} ||||||{::} 30813 bp {!}:::... +{g}GlyTrpGly{Ar}+- ++{g}AspGln 540672 : g{g}ggctgggga{ag}ga..........................ag{g}gatcaa : 509842 125 : LysValTyrAlaCysMetMetValPhePheLeuSer{As} >>>> Target In : 137 :::|||::: |||...:::{! } 7951 ThrGlnValSerCysIleAlaGlyArgPhePheThr{Me}++ 509841 : acccaggtgtcatgcattgcgggcagattctttacc{at}gt.............. : 509799 138 : tron 16 >>>> {n}MetIleGluAsnGlnCysMetSerThrGlyAlaPheGlu : 150 bp { }...||| ||| |||::: ||| ++{t}GlnIleLeuTyrGlnLeuSerTyrGlnGlySerAsnGlu 509798 : ............ag{g}cagattctttaccagctgagctaccagggaagtaatGAA : 501813 151 : IleThrLeuAsn >>>> Target Intron 17 >>>> AspValProVal{T : 159 ! ..!|||||| 25378 bp ||| ! !:!!{| LysValLeuAsn++ ++AspSerGlyLeu{T 501812 : AAGGTACTTAATgt..........................agGATTCAGGTCTC{T : 476408 160 : r} >>>> Target Intron 18 >>>> {p}SerLysLeu{Gl} >>>> T : 163 |} 59691 bp {|}..!:!!:!!{..} r}++ ++{p}GluGlnIle{Ar}++ 476407 : G}gt..........................ag{G}GAGCAAATC{AG}gt...... : 416701 164 : arget Intron 19 >>>> {u}SerGlyHis >>>> Target Intron 2 : 167 16538 bp {!}!.!|||.!. 42988 bp ++{g}LysGlyGlu++ 416700 : ....................ag{G}AAGGGGGAGgt.................... : 400153 168 : 0 >>>> >>>> Target Intron 21 >>>> LeuProSerMetGln > : 172 22921 bp :!!|||!!! ||| ++++ ++IleProTrpTyrGln++ 400152 : ......aggt..........................agATACCTTGGTACCAGgt. : 334229 173 : >>> Target Intron 22 >>>> >>>> Target Intron 23 >>>> : 172 121614 bp 53854 bp ++++ + 334228 : .........................aggt..........................a : 158765 173 : GlnLeuValGln >>>> Target Intron 24 >>>> IleLeuAspAsnG : 180 |||! ! !||| 41847 bp !||| |||. +GlnHisLysGln++ ++GlnLeuTyrAsnS 158764 : gCAGCATAAACAGgt..........................agCAATTatacaatt : 116892 181 : luMetLysLeuAsn : 184 ..:::|||:::||| erLeuLysIleAsn 116891 : ctttaaaaattaat : 116878 vulgar: SPP00000025_1.0 3 184 . NIVO01008816.1:subseq(494279,1406561) 1329437 116877 - 103 M 10 30 S 0 1 5 0 2 I 0 65272 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 97916 3 0 2 S 1 2 M 9 27 5 0 2 I 0 38330 3 0 2 M 4 12 S 0 1 5 0 2 I 0 47113 3 0 2 S 1 2 M 13 39 S 0 2 5 0 2 I 0 38555 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 118332 3 0 2 S 1 2 M 17 51 5 0 2 I 0 13474 3 0 2 5 0 2 I 0 9840 3 0 2 M 2 6 S 0 1 5 0 2 I 0 9365 3 0 2 S 1 2 M 9 27 5 0 2 I 0 23071 3 0 2 M 25 75 S 0 2 5 0 2 I 0 20736 3 0 2 S 1 1 M 1 3 5 0 2 I 0 100064 3 0 2 5 0 2 I 0 187199 3 0 2 M 4 12 S 0 2 5 0 2 I 0 19099 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 30809 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 7947 3 0 2 S 1 1 M 17 51 5 0 2 I 0 25374 3 0 2 M 4 12 S 0 2 5 0 2 I 0 59687 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 16534 3 0 2 S 1 1 M 3 9 5 0 2 I 0 42984 3 0 2 5 0 2 I 0 22917 3 0 2 M 5 15 5 0 2 I 0 121610 3 0 2 5 0 2 I 0 53850 3 0 2 M 4 12 5 0 2 I 0 41843 3 0 2 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 116878 1329437 103 - . gene_id 18 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1329407 1329437 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1329407 1329437 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1329405 1329406 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1264131 1329406 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1264131 1264132 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1264098 1264130 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1264098 1264130 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1264096 1264097 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1166178 1264097 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1166178 1166179 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1166149 1166177 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1166149 1166177 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1166147 1166148 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1127815 1166148 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1127815 1127816 . - . intron_id 2 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1127802 1127814 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1127802 1127814 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1127800 1127801 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1080685 1127801 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1080685 1080686 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1080642 1080684 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1080642 1080684 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1080640 1080641 . - . intron_id 5 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1042083 1080641 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1042083 1042084 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1042072 1042082 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1042072 1042082 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1042070 1042071 . - . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 923736 1042071 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 923736 923737 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 923683 923735 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 923683 923735 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 923681 923682 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 923682 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 8 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 910204 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 890985 900353 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 890985 890986 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 890956 890984 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 890956 890984 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 890954 890955 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 867881 890955 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 867881 867882 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 867804 867880 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 867804 867880 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 867802 867803 . - . intron_id 11 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 847064 867803 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 847064 847065 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 847060 847063 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 847060 847063 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 847058 847059 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 847059 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 559789 746991 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 559789 559790 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 559775 559788 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 559775 559788 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 559773 559774 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 540672 559774 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 540672 540673 . - . intron_id 13 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 540660 540671 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 540660 540671 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 540658 540659 . - . intron_id 15 ; splice_site "ga" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 509847 540659 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 509847 509848 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 509802 509846 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 509802 509846 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 509800 509801 . - . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 501851 509801 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 501851 501852 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 501799 501850 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 501799 501850 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 501797 501798 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 476421 501798 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 476421 476422 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 476407 476420 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 476407 476420 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 476405 476406 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 416716 476406 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 416716 416717 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 416704 416715 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 416704 416715 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 416702 416703 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 400166 416703 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 400166 400167 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 400156 400165 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 400156 400165 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 400154 400155 . - . intron_id 20 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 400155 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357166 357167 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 334247 357167 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 334247 334248 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 334232 334246 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 334232 334246 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 334230 334231 . - . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 334231 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 21 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 23 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 158764 212617 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 158764 158765 . - . intron_id 22 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 158752 158763 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 158752 158763 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 158750 158751 . - . intron_id 24 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 116905 158751 . - . intron_id 24 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 116905 116906 . - . intron_id 23 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 116878 116904 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 116878 116904 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 116878 1329437 103 - . alignment_id 18 ; Query SPP00000025_1.0 ; Align 1329438 4 30 ; Align 1264129 15 30 ; Align 1166176 26 27 ; Align 1127815 35 12 ; Align 1080683 40 39 ; Align 1042082 54 9 ; Align 923734 58 51 ; Align 900361 75 6 ; Align 890983 78 27 ; Align 867881 87 75 ; Align 847063 113 3 ; Align 559789 114 12 ; Align 540671 119 9 ; Align 509846 123 42 ; Align 501850 138 51 ; Align 476421 155 12 ; Align 416715 160 9 ; Align 400165 164 9 ; Align 334247 167 15 ; Align 158764 172 12 ; Align 116905 176 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 109 Query range: 3 -> 195 Target range: 1109900 -> 32947 4 : LeuLeuLeuLeuLeuValAlaAlaSerAlaMetValArg >>>> Target Int : 17 ::: |||||| !|||! !..!|||! !!!::!!||| 83757 IleTyrLeuLeuSerValGluCysSerAspIleLeuArg++ 1109900 : atatatttgctttCAGTTGAATGTTCTGATATTTTGAGGgt............... : 1109859 18 : ron 1 >>>> SerGluAlaSerAla >>>> Target Intron 2 >>>> : 22 bp !:!!||||||.!! 115885 bp ++HisGlnAlaSerThr++ ++ 1109858 : ..........agCATCAAGCTTCCACAgt.........................ag : 910206 23 : >>>> Target Intron 3 >>>> AsnLeuGlyGlyValProSerLysArg : 30 16764 bp :!!||| !!.!|||||||||:!!||| ++ ++HisLeuHisAlaValProSerGlnArg 910205 : gt.........................agCATTTACATGCTGTACCTTCACAAAGA : 893416 31 : Leu{Ly} >>>> Target Intron 4 >>>> {s}Met >>>> Target : 34 |||{ } 46345 bp {!}..! 412 Leu{Tr}++ ++{p}Gln++ 893415 : CTC{TG}gt.........................ag{G}CAGgt............ : 847057 35 : Intron 5 >>>> GlnTyrAlaThrGlyProLeuLeuLysPheGlnIleCysVa : 47 01 bp !:!||| !|||||| ! ! !... :!!||||| ++ArgTyr***ThrGlyAsnArgThrSerGluGlyLeuCysVa 847056 : .............agCGATACTAAACTGGGAACAGGACCTCTGAGGGCCTTTGTGT : 805819 48 : lSerUnkGlyTyrArgArgValPheGluGluTyr >>>> Target Intron 6 : 59 | !!...! ! !|||||||||.!. .!.||| 24844 bp lProSerAspLeuArgArgValLeuPheHisTyr++ 805818 : GCCAAGTGACCTCCGTCGTGTTCTATTTCACTATgt.................... : 805781 60 : >>>> MetArgValIleSerGlnArgTyr >>>> Target Intron 7 >> : 67 |||!:! !! !! !|||!:! ! 33924 bp ++MetLysPheSerTyrGlnLysLys++ 805780 : .....agATGAAGTTCTCATACCAGAAAAAGgt....................... : 780913 68 : >> >>>> Target Intron 8 >>>> ProAspIleArgIleGlu{Gl} : 73 42893 bp !!!!: !!:!|||!!:{.!} ++++ ++ThrGlu***GlnIleAsp{Se}+ 780912 : ..aggt.........................agACAGAGTGACAGATTGAC{AG}g : 704078 74 : >>>> Target Intron 9 >>>> {y}GluAsnTyrLeuProGlnProIleT : 82 92961 bp {!} ! ! :!!|||.!.|||! ! + ++{r}***AlaAlaMetProAsnProThrL 704077 : t.........................ag{C}TGAGCTGCAATGCCTAACCCAACAC : 611092 83 : yrArg >>>> Target Intron 10 >>>> HisIle{Al} >>>> Targ : 86 !||| 3654 bp |||:::{::} euArg++ ++HisVal{Se}++ 611091 : TCCGGgt..........................agcatgtg{ag}gt......... : 607422 87 : et Intron 11 >>>> {a}SerPheLeuSerValPheLysLeuValLeuIleG : 98 81 bp {!} |||||| ||| |||:::|||.... ++{r}ProPheLeuLeuCysPheTrpLeuIleLeuPheS 607421 : .................ag{t}ccttttctcctttgcttttggcttatcctctttt : 607309 99 : lyLeuIleIle >>>> Target Intron 12 >>>> ValGlyLysAspPro : 106 .. :::... 85927 bp :::...::::::||| erGlnLeuPhe++ ++IleSerGlnGluPro 607308 : ctcagctatttgt..........................agatttctcaggaacca : 521358 107 : {P} >>>> Target Intron 13 >>>> {he}AlaPhePheGlyMetGlnA : 114 { } 19504 bp { !} |||||| | {G}++ ++{ly}ArgPhePheThrSer***A 521357 : {g}gt..........................ag{gc}agattctttaccagctgag : 501830 115 : laPro{Se} >>>> Target Intron 14 >>>> {r}IleTrpGlnTrp{G : 121 || {!!} 25402 bp {!}||| ! ! {| laThr{Ar}+- ++{g}IleGlnValSer{G 501829 : ctacc{ag}gg..........................ag{G}ATTCAGGTCTCT{G : 476407 122 : } >>>> Target Intron 15 >>>> {ly}GlnGluAsnLysValTyrAla : 128 } 119239 bp {||}:!!|||||||||!.!||| ! }++ ++{ly}GluGluAsnLysAlaTyrLys 476406 : }gt..........................ag{GT}GAGGAAAACAAGGCTTACAAA : 357147 129 : {C} >>>> Target Intron 16 >>>> {ys}MetMetValPhePheLeuS : 136 {.} 33855 bp {..} ! |||.!. ! !| {A}-+ ++{la}GlyArgValLeuThrGlnS 357146 : {G}ct..........................ag{CA}GGTAGAGTACTGACACAAA : 323268 137 : erAsnMetIleGluAsnGlnCysMetSerThrGly >>>> Target Intron : 148 ||.!. ! ! ||||||||| !:!! !..! 110615 bp erGlnAspLysAlaAsnGlnCysGluAlaLeuAsn++ 323267 : GCCAAGATAAGGCCAACCAGTGTGAGGCCCTGAATgt................... : 323230 149 : 17 >>>> >>>> Target Intron 18 >>>> AlaPheGluIleThr{L : 153 4401 bp !.!|||.!.! !|||{ ++++ ++GlyPheHisArgThr{A 323229 : .......aggt..........................agGGTTTCCATAGAACT{A : 208201 154 : e} >>>> Target Intron 19 >>>> {u}AsnAspValProValTrpSer : 160 } 80605 bp {!}:::|||..!|||||| ||| r}++ -+{g}SerAspThrProValSerSer 208200 : G}gt..........................tg{G}TCAGATACTCCTGtcagctct : 127575 161 : LysLeu >>>> Target Intron 20 >>>> GluSerGlyHisLeuProSe : 169 :::||| 2449 bp ! !!!||||||||| !! GlnLeu++ ++ValThrGlyHisLeuAlaVa 127574 : cagctggt..........................agGTCACAGGGCATCTCGCAGT : 125099 170 : rMetGlnGlnLeuValGlnIleLeuAsp{A} >>>> Target Intron 21 > : 179 !! :!! !!!:!!|||:!! ! {:} 10211 bp lArgGluGlyPheIleGlnLeuAsnThr{S}++ 125098 : TAGAGAAGGCTTTATCCAATTAAATACA{T}gt....................... : 125066 180 : >>> {sn}GluMetLysLeuAsnValHisMetAsp{S} >>>> Target Int : 189 {:!} :::||| ||| |||::: {.} 81860 +-{er}PheLeuLysTyrAsn***HisIleLeu{G}++ 125065 : ...aa{ct}tttttgaaatataactgacatatactG{G}gt............... : 114825 190 : ron 22 >>>> {er}IleProHisHisArgSer : 195 bp {!!}|||||| ||| ||| ++{ly}IleProAlaHisSerSer 114824 : ...........ag{gg}attcctgcccacagtagt : 32948 vulgar: SPP00000025_1.0 3 195 . NIVO01008816.1:subseq(494279,1406561) 1109900 32947 - 109 M 13 39 5 0 2 I 0 83753 3 0 2 M 5 15 5 0 2 I 0 115881 3 0 2 5 0 2 I 0 16760 3 0 2 M 10 30 S 0 2 5 0 2 I 0 46341 3 0 2 S 1 1 M 1 3 5 0 2 I 0 41197 3 0 2 M 25 75 5 0 2 I 0 24840 3 0 2 M 8 24 5 0 2 I 0 33920 3 0 2 5 0 2 I 0 42889 3 0 2 M 6 18 S 0 2 5 0 2 I 0 92957 3 0 2 S 1 1 M 10 30 5 0 2 I 0 3650 3 0 2 M 2 6 S 0 2 5 0 2 I 0 77 3 0 2 S 1 1 M 15 45 5 0 2 I 0 85923 3 0 2 M 5 15 S 0 1 5 0 2 I 0 19500 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 25398 3 0 2 S 1 1 M 4 12 S 0 1 5 0 2 I 0 119235 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 33851 3 0 2 S 1 2 M 18 54 5 0 2 I 0 110611 3 0 2 5 0 2 I 0 4397 3 0 2 M 5 15 S 0 2 5 0 2 I 0 80601 3 0 2 S 1 1 M 9 27 5 0 2 I 0 2445 3 0 2 M 16 48 S 0 1 5 0 2 I 0 10207 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 81856 3 0 2 S 1 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 32948 1109900 109 - . gene_id 19 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1109862 1109900 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1109862 1109900 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1109860 1109861 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1026105 1109861 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1026105 1026106 . - . intron_id 0 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1026090 1026104 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1026090 1026104 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1026088 1026089 . - . intron_id 2 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 1026089 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 3 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 893441 910204 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 893441 893442 . - . intron_id 2 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 893409 893440 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 893409 893440 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 893407 893408 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 847064 893408 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 847064 847065 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 847060 847063 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 847060 847063 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 847058 847059 . - . intron_id 5 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 805859 847059 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 805859 805860 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 805784 805858 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 805784 805858 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 805782 805783 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 780940 805783 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 780940 780941 . - . intron_id 5 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 780916 780939 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 780916 780939 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 780914 780915 . - . intron_id 7 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 780915 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 704099 746991 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 704099 704100 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 704079 704098 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 704079 704098 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 704077 704078 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 611118 704078 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 611118 611119 . - . intron_id 8 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 611087 611117 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 611087 611117 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 611085 611086 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 607433 611086 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 607433 607434 . - . intron_id 9 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 607425 607432 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 607425 607432 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 607423 607424 . - . intron_id 11 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 607344 607424 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 607344 607345 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 607298 607343 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 607298 607343 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 607296 607297 . - . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 521371 607297 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 521371 521372 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 521355 521370 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 521355 521370 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 521353 521354 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 501851 521354 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 501851 501852 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 501823 501850 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 501823 501850 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 501821 501822 . - . intron_id 14 ; splice_site "gg" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 476421 501822 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 476421 476422 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 476407 476420 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 476407 476420 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 476405 476406 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 357168 476406 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 357168 357169 . - . intron_id 14 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 357144 357167 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 357144 357167 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 357142 357143 . - . intron_id 16 ; splice_site "CT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 323289 357143 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 323289 323290 . - . intron_id 15 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 323233 323288 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 323233 323288 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 323231 323232 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 212618 323232 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 212618 212619 . - . intron_id 16 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 212616 212617 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 208217 212617 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 208217 208218 . - . intron_id 17 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 208200 208216 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 208200 208216 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 208198 208199 . - . intron_id 19 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 127595 208199 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 127595 127596 . - . intron_id 18 ; splice_site "tG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 127567 127594 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 127567 127594 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 127565 127566 . - . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 125118 127566 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 125118 125119 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 125069 125117 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 125069 125117 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 125067 125068 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 114858 125068 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 114858 114859 . - . intron_id 20 ; splice_site "aa" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 114828 114857 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 114828 114857 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 114826 114827 . - . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 32968 114827 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 32968 32969 . - . intron_id 21 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 32948 32967 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 32948 32967 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 32948 1109900 109 - . alignment_id 19 ; Query SPP00000025_1.0 ; Align 1109901 4 39 ; Align 1026105 17 15 ; Align 893441 22 30 ; Align 847063 33 3 ; Align 805859 34 75 ; Align 780940 59 24 ; Align 704099 67 18 ; Align 611117 74 30 ; Align 607433 84 6 ; Align 607343 87 45 ; Align 521371 102 15 ; Align 501849 108 24 ; Align 476420 117 12 ; Align 357166 122 21 ; Align 323287 130 54 ; Align 208217 148 15 ; Align 127594 154 27 ; Align 125118 163 48 ; Align 114856 180 27 ; Align 32966 190 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 108 Query range: 10 -> 192 Target range: 1391836 -> 146319 11 : AlaSerAlaMetValArg{S} >>>> Target Intron 1 >>>> {er}Gl : 18 |||!!!..!||||||!:!{:} 48191 bp {!!}:: AlaThrCysMetValLys{A}++ ++{la}Gl 1391836 : GCTACTTGTATGGTCAAA{G}gt.........................ag{ct}ca : 1343624 19 : uAlaSer{Al} >>>> Target Intron 2 >>>> {a}AsnLeuGlyGlyV : 26 : :::{ } 27309 bp {!}:::||||||||| nLeuAsn{Ly}++ ++{s}HisLeuGlyGlyC 1343623 : actgaac{aa}gt.........................ag{g}cacctgggaggat : 1316291 27 : alProSer{Ly} >>>> Target Intron 3 >>>> {s}ArgLeuLysMet : 33 |||{! } 89168 bp {!} |||||| ys***Ser{Me}++ ++{t}GlyLysLysMet 1316290 : gttaatca{at}gt.........................ag{g}ggaaaaaaaatg : 1227102 34 : GlnTyrAlaThrGly{Pr} >>>> Target Intron 4 >>>> {o}LeuLe : 41 ::: {! } 68911 bp {!}...|| TyrPheAsnLysLys{Ar}++ ++{g}PheLe 1227101 : tactttaataaaaaa{cG}gt.........................ag{g}tttct : 1158167 42 : uLysPheGln >>>> Target Intron 5 >>>> IleCysValSerUnkGl : 50 |||| ||| 63985 bp |||||||||...|| uLysArgGln++ ++SerCysValSerSerGl 1158166 : caagaggcaggt.........................agtcctgtgtaagttctgg : 1094155 51 : yTyrArgArg >>>> Target Intron 6 >>>> ValPheGluGlu >>> : 58 | 25429 bp |||:::...::: ySerSerMet++ ++ValTyrSerLys++ 1094154 : cagctctatggt.........................aggtatatagcaaggt... : 1068700 59 : > Target Intron 7 >>>> TyrMetArg >>>> Target Intron 8 : 61 57277 bp ::::::... 52181 bp ++PheLeuGlu++ 1068699 : ......................agttccttgaggt..................... : 1011414 62 : >>>> ValIleSerGln >>>> Target Intron 9 >>>> >>>> Ta : 65 ::! ! !||| 49019 bp ++LeuCysLeuGln++ ++++ 1011413 : ....agctCTGCCTACAGgt.........................aggt....... : 910202 66 : rget Intron 10 >>>> ArgTyrProAspIle{A} >>>> Target Int : 70 21249 bp !:! !|||:!!{|} 59824 ++LysAlaSerAspLeu{A}++ 910201 : ...................agAAGGCAAGTGACTTA{A}gt............... : 888937 71 : ron 11 >>>> {rg}IleGlu{G} >>>> Target Intron 12 >>>> : 73 bp {||}:!::!!{|} 28180 bp ++{rg}LeuLys{G}++ ++ 888936 : ...........ag{GA}TTGAAA{G}gt..........................ag : 800928 74 : {ly}GluAsnTyrLeuProGlnPro{Il} >>>> Target Intron 13 >>> : 81 {||}:::... |||...|||{! } 9349 bp {ly}GlnGluGlyArgProHisPro{Se}++ 800927 : {gt}caggagggacgacctcatcca{ag}gt......................... : 800899 82 : > {e}TyrArgHisIleAlaSerPheLeuSerValPheLysLeu{Va} >>>> : 95 {!}:!! !|||:!: !.!!! !|||!:!:!!!:!! |||{:!} ++{r}His***HisLeuHisGlySerLeuAsnIleTyrThrLeu{Il}++ 800898 : .ag{C}CACTAACATTTGCATGGATCCCTTAATATATATACTCTT{AT}gt..... : 791508 96 : Target Intron 14 >>>> {l}LeuIleGlyLeuIleIle >>>> Targe : 102 29206 bp {!}|||:!:||| !:!!||| 1 ++{e}LeuLeuGlyArgValIle++ 791507 : .....................ag{T}CTATTGGGCAGGGTCATCgt.......... : 762283 103 : t Intron 15 >>>> >>>> Target Intron 16 >>>> ValGlyLy : 104 5294 bp 66484 bp ++++ ++AspLeuLe 762282 : ................aggt..........................aggatttact : 680501 105 : sAspProPheAlaPhePheGlyMetGlnAlaProSerIle{T} >>>> Target : 118 ! ! !||| ! !!:!.!!!!::!!:!! !!||||||{|} 13 uGlyTyrPheLeuArgTyrSerIleLysSerThrSerIle{T}++ 680500 : TGGTTATTTTTTACGTTATAGTATAAAATCAACATCCATA{T}gt........... : 680456 119 : Intron 17 >>>> {rp}GlnTrpGlyGlnGluAsnLysValTyr{A} >>> : 128 2541 bp {||}! |||||||||..!! ! ! :!! {!} -+{rp}ProTrpGlyGlnSerIleTyrLeuArg{G}++ 680455 : ...............gg{GG}CCCTGGGGCCAGTCAATTTATCTCAGG{G}gt... : 547885 129 : > Target Intron 18 >>>> {la}CysMetMetVal{P} >>>> Targe : 133 124663 bp {.!}|||::: :::{ } 1 ++{ly}CysLeuAlaLeu{G}++ 547884 : .......................ag{ga}tgtctggctcta{g}gt.......... : 423207 134 : t Intron 19 >>>> {he}PheLeuSerAsnMetIleGluAsnGlnCysMetS : 145 11036 bp { }!:!||||||.!.:!!:!! ||||||||| . ++{ly}TyrLeuSerGluValLeuCysAsnGlnCysAlaA 423206 : ................ag{GA}TATCTTTCAGAGGTGCTCTGTAATCAATGTGCTG : 312138 146 : erThrGly{Al} >>>> Target Intron 20 >>>> {a}PheGluIleTh : 152 .!! !...{ } 103911 bp {!} !!...||| spIleAsn{Me}++ ++{t}ValSerIleGl 312137 : ACATAAac{at}gt..........................ag{G}GTTTCCATAGA : 208206 153 : rLeu{A} >>>> Target Intron 21 >>>> {sn}{A} >>>> Targe : 155 !|||{.} 4886 bp {..}{|} 1 uLeu{G}++ ++{ly}{A}++ 208205 : ACTA{G}gt..........................ag{GA}{G}gt.......... : 203308 156 : t Intron 22 >>>> {sp}ValProVal{T} >>>> Target Intron 2 : 159 5377 bp {||}:!!|||...{|} 7634 bp +-{sp}IleProThr{T}++ 203307 : ................ac{aC}ATAcctaca{t}gt.................... : 187919 160 : 3 >>>> {rp}SerLysLeuGluSerGly{H} >>>> Target Intron 24 : 166 {||}! !! ||||||..! !{ } 32686 bp ++{rp}TyrThrLeuGluGluGln{G}++ 187918 : ......ag{GG}TACACTTTAGAGGAGCAA{G}gt..................... : 180264 167 : >>>> {is}LeuProSerMetGlnGlnLeuValGlnIleLeuAspAsn >>>> : 180 { } ||| ::::::||||||:::||||||::: ++{ly}ProProValIleLysGlnLeuMetGlnIleValThrMet++ 180263 : .....ag{ga}cctcctgtcataaaacaactcatgcaaatagttactatggt.... : 147537 181 : Target Intron 25 >>>> GluMetLysLeuAsnValHisMetAspSerIl : 190 1181 bp |||::: :::|||||| ... ++GluValLeuTyrHisValHisHisLeuGlySe 147536 : ......................aggaggttctttaccacgtgcatcatctgggaag : 146328 191 : eProHis : 192 |||||| rProHis 146327 : cccacat : 146320 vulgar: SPP00000025_1.0 10 192 . NIVO01008816.1:subseq(494279,1406561) 1391836 146319 - 108 M 6 18 S 0 1 5 0 2 I 0 48187 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 27305 3 0 2 S 1 1 M 7 21 S 0 2 5 0 2 I 0 89164 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 68907 3 0 2 S 1 1 M 5 15 5 0 2 I 0 63981 3 0 2 M 9 27 5 0 2 I 0 25425 3 0 2 M 4 12 5 0 2 I 0 57273 3 0 2 M 3 9 5 0 2 I 0 52177 3 0 2 M 4 12 5 0 2 I 0 49015 3 0 2 5 0 2 I 0 21245 3 0 2 M 5 15 S 0 1 5 0 2 I 0 59820 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 28176 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 9345 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 29202 3 0 2 S 1 1 M 6 18 5 0 2 I 0 15290 3 0 2 5 0 2 I 0 66480 3 0 2 M 16 48 S 0 1 5 0 2 I 0 132537 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 124659 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 111032 3 0 2 S 1 2 M 14 42 S 0 2 5 0 2 I 0 103907 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 4882 3 0 2 S 1 3 5 0 2 I 0 15373 3 0 2 S 1 2 M 3 9 S 0 1 5 0 2 I 0 7630 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 32682 3 0 2 S 1 2 M 13 39 5 0 2 I 0 1177 3 0 2 M 13 39 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 146320 1391836 108 - . gene_id 20 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1391818 1391836 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1391818 1391836 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1391816 1391817 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1343627 1391817 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1343627 1343628 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1343614 1343626 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1343614 1343626 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1343612 1343613 . - . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1316305 1343613 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1316305 1316306 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1316281 1316304 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1316281 1316304 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1316279 1316280 . - . intron_id 3 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1227113 1316280 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1227113 1227114 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1227083 1227112 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1227083 1227112 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1227081 1227082 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1158172 1227082 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1158172 1158173 . - . intron_id 3 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1158156 1158171 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1158156 1158171 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1158154 1158155 . - . intron_id 5 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1094171 1158155 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1094171 1094172 . - . intron_id 4 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1094144 1094170 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1094144 1094170 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1094142 1094143 . - . intron_id 6 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1068715 1094143 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1068715 1068716 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1068703 1068714 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1068703 1068714 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1068701 1068702 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1011426 1068702 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1011426 1011427 . - . intron_id 6 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1011417 1011425 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1011417 1011425 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1011415 1011416 . - . intron_id 8 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 959236 1011416 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 959236 959237 . - . intron_id 7 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 959224 959235 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 959224 959235 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 959222 959223 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 910205 959223 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 910205 910206 . - . intron_id 8 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 910203 910204 . - . intron_id 10 ; splice_site "gT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 888956 910204 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 888956 888957 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 888940 888955 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 888940 888955 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 888938 888939 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 829116 888939 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 829116 829117 . - . intron_id 10 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 829107 829115 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 829107 829115 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 829105 829106 . - . intron_id 12 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 800927 829106 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 800927 800928 . - . intron_id 11 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 800902 800926 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 800902 800926 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 800900 800901 . - . intron_id 13 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 791553 800901 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 791553 791554 . - . intron_id 12 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 791511 791552 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 791511 791552 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 791509 791510 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 762305 791510 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 762305 762306 . - . intron_id 13 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 762286 762304 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 762286 762304 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 762284 762285 . - . intron_id 15 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 762285 . - . intron_id 15 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 14 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 16 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 680508 746991 . - . intron_id 16 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 680508 680509 . - . intron_id 15 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 680459 680507 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 680459 680507 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 680457 680458 . - . intron_id 17 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 547918 680458 . - . intron_id 17 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 547918 547919 . - . intron_id 16 ; splice_site "GG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 547888 547917 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 547888 547917 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 547886 547887 . - . intron_id 18 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 423225 547887 . - . intron_id 18 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 423225 423226 . - . intron_id 17 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 423210 423224 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 423210 423224 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 423208 423209 . - . intron_id 19 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 312174 423209 . - . intron_id 19 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 312174 312175 . - . intron_id 18 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 312128 312173 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 312128 312173 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 312126 312127 . - . intron_id 20 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 208217 312127 . - . intron_id 20 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 208217 208218 . - . intron_id 19 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 208200 208216 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 208200 208216 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 208198 208199 . - . intron_id 21 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 203314 208199 . - . intron_id 21 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 203314 203315 . - . intron_id 20 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 203311 203313 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 203311 203313 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 203309 203310 . - . intron_id 22 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 187934 203310 . - . intron_id 22 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 187934 187935 . - . intron_id 21 ; splice_site "ac" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 187922 187933 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 187922 187933 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 187920 187921 . - . intron_id 23 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 180288 187921 . - . intron_id 23 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 180288 180289 . - . intron_id 22 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 180267 180287 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 180267 180287 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 180265 180266 . - . intron_id 24 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 147581 180266 . - . intron_id 24 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 147581 147582 . - . intron_id 23 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 147540 147580 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 147540 147580 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 147538 147539 . - . intron_id 25 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 146359 147539 . - . intron_id 25 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 146359 146360 . - . intron_id 24 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 146320 146358 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 146320 146358 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 146320 1391836 108 - . alignment_id 20 ; Query SPP00000025_1.0 ; Align 1391837 11 18 ; Align 1343625 18 9 ; Align 1316304 22 21 ; Align 1227112 30 27 ; Align 1158171 40 15 ; Align 1094171 45 27 ; Align 1068715 54 12 ; Align 1011426 58 9 ; Align 959236 61 12 ; Align 888956 65 15 ; Align 829114 71 6 ; Align 800925 74 21 ; Align 791552 82 39 ; Align 762304 96 18 ; Align 680508 102 48 ; Align 547916 119 27 ; Align 423223 129 12 ; Align 312172 134 42 ; Align 208216 149 15 ; Align 187932 156 9 ; Align 180286 160 18 ; Align 147579 167 39 ; Align 146359 180 39 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000025_1.0 # Protein # Selenoprotein T (SelT) # Homo sapiens # Complete Target: NIVO01008816.1:subseq(494279,1406561) Ammotragus lervia isolate NAZ scaffold20_len1890866_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 103 Query range: 1 -> 188 Target range: 1170979 -> 375401 2 : Arg{L} >>>> Target Intron 1 >>>> {eu}LeuLeuLeuLeuLeuVa : 9 |||{ } 169147 bp { !}:::::: :::::::: Arg{G}++ ++{lu}ValIleSerIleIleLe 1170979 : AGA{G}gt.........................ag{aa}gttatttccatcatttt : 1001811 10 : lAlaAlaSerAlaMetValArgSerGluAlaSerAlaAsnLeuGlyGlyValProS : 28 :::::::|||::: :::...|||...|||||| ||| ||||||| uSerSerSerSerProIleHisSerSerAlaSerAspIleLeuLeuLeuValProS 1001810 : atcttccagctcaccaattcattcttctgcttcagatattctgctattggttcctt : 1001754 29 : erLys >>>> Target Intron 2 >>>> ArgLeuLysMetGlnTyr{A} : 36 ||::: 62604 bp ||| ......||||||{|} erArg++ ++ArgLysSerPheGlnTyr{A}+ 1001753 : ctagagt.........................agaggaaaagctttcagtat{G}g : 939125 37 : >>>> Target Intron 3 >>>> {la}Thr{Gl} >>>> Target Int : 38 38765 bp {||}...{ !} 113300 + ++{la}Val{Tr}++ 939124 : t.........................ag{ct}gta{tG}gt............... : 900351 39 : ron 4 >>>> {y}ProLeuLeuLysPheGlnIleCysValSerUnkGlyTyrAr : 52 bp {!} !!|||! !...||| !!:||||||:!! !!||| ++{p}ThrLeuHisSerPheThrMetCysValAlaTyrArgTyrVa 900350 : ..........ag{G}ACCTTACATTCCTTTACTATGTGTGTGGCATATCGCTATGT : 787013 53 : gArgValPheGluGluTyrMetArgValIleSerGlnArgTyrPro{A} >>>> : 68 ! !! !!:!:!!!!:||| ! ! !||||||!!. ! !|||{|} l***ProTyrLysAspTyrTyrLeuCysIleSerHisSerIlePro{A}+- 787012 : ATGACCTTACAAGGATTATTACCTTTGTATTTCTCACTCTATCCCA{G}ga..... : 786962 69 : Target Intron 5 >>>> {sp}IleArgIleGluGlyGlu >>>> Targe : 75 25340 bp {||}|||!.!:!! !|||:!! 1 ++{sp}IleAsnLeuThrGlyLys++ 786961 : ....................ag{AC}ATTAACCTCACAGGAAAGgt.......... : 761602 76 : t Intron 6 >>>> >>>> Target Intron 7 >>>> AsnTyrLeuP : 78 4613 bp 82711 bp |||! |||| ++++ +-AsnLeuLeuP 761601 : ...............aggt.........................acAACTTACTTC : 664271 79 : roGlnProIleTyrArgHisIleAlaSer >>>> Target Intron 8 >>>> : 88 ||||| !! ! ! !:!|||:!!:!!!:! 60207 bp roGlnArgThrLysLysHisLeuSerAsn-+ 664270 : CTCAAAGGACAAAGAAACATTTATCTAATtt......................... : 664239 89 : PheLeuSerValPheLysLeuValLeuIleGlyLeuIleIleValGly{Ly} : 104 ! ! !||| ||| ::: :::... |||::::::||||||{::} ++SerProSerPhePheLeuValPheValPheLeuLeuLeuLeuValGly{Ar}++ 664238 : agTCACCAagttttttcttggtttttgtgttcttgttgttgttagtcGGA{CG}gt : 603984 105 : >>>> Target Intron 9 >>>> {s}AspPro{Ph} >>>> Target In : 107 84563 bp {!}! |||{!:} 5487 +-{g}GlyPro{Tr}++ 603983 : .........................ac{G}GGACCC{TG}gt.............. : 519410 108 : tron 10 >>>> {e}AlaPhePheGlyMetGlnAlaProSerIleTrpGln > : 120 bp {:} !||| ! !|||:!! ! !!:!|||||| ! ++{p}IlePheValLysMetLysGlnGlyAsnIleTrpVal++ 519409 : ............ag{G}ATTTTTGTGAAGATGAAACAGGGTAACATTTGGGTGgt. : 513886 121 : >>> Target Intron 11 >>>> TrpGly{Gl} >>>> Target Intro : 122 24887 bp |||.!!{::} 72278 bp ++TrpSer{Ar}++ 513885 : .........................agTGGAGC{Ag}gt................. : 488991 123 : n 12 >>>> {n}GluAsnLys{Va} >>>> Target Intron 13 >>>> : 126 {!}|||.!.! { } 7709 bp ++{g}GluGlnIle{Ar}++ + 488990 : .........ag{G}GAGCAAATC{AG}gt..........................a : 408996 127 : {l}TyrAlaCysMetMetValPhePheLeuSerAsnMetIleGlu{A} >>>> : 141 {!} ! !||| :!: !!:!|||! !||| !:!::!!:!!{|} +{g}Pro***CysSerLeuCysTyrPheSerSerProValLeuLys{A}++ 408995 : g{a}CCTTGATGCTCACTCTGTTATTTTTCATCACCTGTATTAAAA{A}gt..... : 408948 142 : Target Intron 14 >>>> {sn}GlnCysMetSerThrGlyAlaPheGluIl : 151 33406 bp {||} |||:!: !|||..! ...... +-{sn}ThrCysLeuLeuThrSerArgLeuHisGl 408947 : .....................aa{AT}ACCTGTCTTCTAACTTCCCgacttcatca : 375515 152 : eThrLeuAsnAspValProValTrpSerLysLeuGluSerGlyHisLeuProSerM : 170 !!: !! !:!! |||:!! !... !!||||||||| ! |||: nGluAlaLeuGluCysHisLeuIleSerGluThrSerProGlyHisLeuSerSerL 375514 : agaggcactgGAATGTCATCTCATCTCTGAGACCTCCCCTGGCCATCTCTCttccc : 375458 171 : etGlnGlnLeuValGlnIleLeuAspAsnGluMetLysLeuAsnValHisMetAsp : 188 :: ...:::! :!! ! :!!.!.! ::!:!!||| !...|||||| euLeuTyrPheIleLeuLeuSerThrHisHisThrArgIleAsnTyrArgMetAsp 375457 : tgctttattttattCTCCTTAGTACACATCACACTCGGATAAACTATAGAATGGAC : 375404 vulgar: SPP00000025_1.0 1 188 . NIVO01008816.1:subseq(494279,1406561) 1170979 375401 - 103 M 1 3 S 0 1 5 0 2 I 0 169143 3 0 2 S 1 2 M 26 78 5 0 2 I 0 62600 3 0 2 M 6 18 S 0 1 5 0 2 I 0 38761 3 0 2 S 1 2 M 1 3 S 0 2 5 0 2 I 0 113296 3 0 2 S 1 1 M 29 87 S 0 1 5 0 2 I 0 25336 3 0 2 S 1 2 M 6 18 5 0 2 I 0 14609 3 0 2 5 0 2 I 0 82707 3 0 2 M 13 39 5 0 2 I 0 60203 3 0 2 M 16 48 S 0 2 5 0 2 I 0 84559 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 5483 3 0 2 S 1 1 M 12 36 5 0 2 I 0 24883 3 0 2 M 2 6 S 0 2 5 0 2 I 0 72274 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 7705 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 33402 3 0 2 S 1 2 M 47 141 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-19 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local gene 375402 1170979 103 - . gene_id 21 ; sequence SPP00000025_1.0 ; gene_orientation + NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1170976 1170979 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1170976 1170979 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1170974 1170975 . - . intron_id 1 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 1001829 1170975 . - . intron_id 1 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 1001829 1001830 . - . intron_id 0 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 1001749 1001828 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 1001749 1001828 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 1001747 1001748 . - . intron_id 2 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 939145 1001748 . - . intron_id 2 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 939145 939146 . - . intron_id 1 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 939126 939144 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 939126 939144 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 939124 939125 . - . intron_id 3 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 900361 939125 . - . intron_id 3 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 900361 900362 . - . intron_id 2 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 900354 900360 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 900354 900360 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 900352 900353 . - . intron_id 4 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 787054 900353 . - . intron_id 4 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 787054 787055 . - . intron_id 3 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 786965 787053 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 786965 787053 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 786963 786964 . - . intron_id 5 ; splice_site "GA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 761625 786964 . - . intron_id 5 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 761625 761626 . - . intron_id 4 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 761605 761624 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 761605 761624 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 761603 761604 . - . intron_id 6 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 746992 761604 . - . intron_id 6 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 746992 746993 . - . intron_id 5 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 746990 746991 . - . intron_id 7 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 664281 746991 . - . intron_id 7 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 664281 664282 . - . intron_id 6 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 664242 664280 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 664242 664280 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 664240 664241 . - . intron_id 8 ; splice_site "TT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 604035 664241 . - . intron_id 8 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 604035 604036 . - . intron_id 7 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 603985 604034 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 603985 604034 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 603983 603984 . - . intron_id 9 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 519422 603984 . - . intron_id 9 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 519422 519423 . - . intron_id 8 ; splice_site "AC" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 519413 519421 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 519413 519421 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 519411 519412 . - . intron_id 10 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 513926 519412 . - . intron_id 10 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 513926 513927 . - . intron_id 9 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 513889 513925 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 513889 513925 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 513887 513888 . - . intron_id 11 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 489002 513888 . - . intron_id 11 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 489002 489003 . - . intron_id 10 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 488994 489001 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 488994 489001 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 488992 488993 . - . intron_id 12 ; splice_site "gt" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 416716 488993 . - . intron_id 12 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 416716 416717 . - . intron_id 11 ; splice_site "AG" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 416704 416715 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 416704 416715 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 416702 416703 . - . intron_id 13 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 408995 416703 . - . intron_id 13 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 408995 408996 . - . intron_id 12 ; splice_site "ag" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 408951 408994 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 408951 408994 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice5 408949 408950 . - . intron_id 14 ; splice_site "GT" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local intron 375545 408950 . - . intron_id 14 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local splice3 375545 375546 . - . intron_id 13 ; splice_site "AA" NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local cds 375402 375544 . - . NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local exon 375402 375544 . - . insertions 0 ; deletions 0 NIVO01008816.1:subseq(494279,1406561) exonerate:protein2genome:local similarity 375402 1170979 103 - . alignment_id 21 ; Query SPP00000025_1.0 ; Align 1170980 2 3 ; Align 1001827 4 78 ; Align 939145 30 18 ; Align 900359 37 3 ; Align 787053 39 87 ; Align 761623 69 18 ; Align 664281 75 39 ; Align 604035 88 48 ; Align 519421 105 6 ; Align 513925 108 36 ; Align 489002 120 6 ; Align 416715 123 9 ; Align 408994 127 42 ; Align 375543 142 141 # --- END OF GFF DUMP --- # -- completed exonerate analysis