Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q ../TR3-human.fa -t TR3-NIVO01001699.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 2679 Query range: 39 -> 754 Target range: 9972 -> 84981 40 : ProMetThrGlyCysGlyArgAlaGlyAspPro{I} >>>> Target Intron 1 > : 51 |||:!! !|||||||||!.!!.!||| !!|||{ } 667 bp ProLeuAspGlyCysGlyHisGlyGlyHisPro{G}+- 9973 : CCCCTGGATGGATGTGGTCATGGTGGTCACCCA{G}gg...................... : 10009 52 : >>> {le}SerHisAlaArgGly{G} >>>> Target Intron 2 >>>> {ly} : 57 { !} !|||||| !! !{|} 9694 bp {||} ++{ly}ValHisAlaTrpPro{G}++ ++{ly} 10010 : ...ag{GC}GTCCACGCTTGGCCA{G}gt.........................ag{GG} : 20386 58 : ValGlyGlyArgGlyGluArgLeuProArgGlyPheAlaArgValValArgValAlaSer : 77 ||||||||||||!.!... !! ! !||| ! ! !|||||| !!:! ! ! ! ValGlyGlyArgAlaSerValProGluArgLysGlyGluArgValLysGlnLysGlnVal 20387 : GTAGGAGGGAGAGCAAGTGTTCCTGAGCGGAAAGGGGAGAGGGTGAAACAGAAGCAGGTG : 20445 78 : Glu{G} >>>> Target Intron 3 >>>> {ly}SerValArgArgProSerGly : 86 |||{|} 19110 bp {||}...::: ...|||... Glu{G}+- ++{ly}AspLeuProAsnProGluIle 20446 : GAA{G}gg.........................ag{gg}gatcttccaaacccagagatc : 39582 87 : ProValProAlaProGlnProProAlaPheArgPheValSerArgPro{G} >>>> Ta : 103 ...||| ||||||...:::... ||| |||{|} GlnProAlaCysProValSerProAlaLeuGlnLeuAspSerLeuPro{G}-+ 39583 : caacccgcgtgtcctgtgtctcctgcattgcagctggactctttacct{g}ct....... : 39636 104 : rget Intron 4 >>>> {ly}ArgAlaArgSerGluSerGluThrLeuGluArgSer : 115 2741 bp {||}||| ! !!:!!! !!!!.!. !! !||| ! !! ++{ly}ArgArg***AlaGlyArgHisProAlaGluAlaArg 39637 : ..................ag{GG}CGTCGCTGAGCGGGGAGACATCCTGCGGAAGCCCGG : 42410 116 : ProProGlnSerProGlyProGly >>>> Target Intron 5 >>>> LysAlaG : 126 ||||||!:!|||! !||| !! ! 7566 bp ! !| ProProArgSerArgGlyAlaGln++ -+GlyArgG 42411 : CCCCCGCGGTCCCGGGGCGCCCAGgt.........................cgGGGAGGG : 50009 127 : lyAspAlaProAsnArgArgSerGlyHisValArgGlyAlaArg<->ValLeuSerProP : 145 ||...:!!|||!:!|||||| !|||:!!|||||||||||| ! !! !||||||| lySerSerProSerArgArgLeuGlyAsnValArgGlyAlaAlaGlyProSerSerProP 50010 : GCTCGTCCCCCAGCCGCCGACTGGGCAATGTCCGCGGCGCGGCCGGGCCGTCGTCGCCGC : 50069 146 : roGlyArgArgAlaArgLeuSerSerProGlyProSerArg<->SerSerGluAlaArgG : 164 |||||||||||||| !!! ! !!:!!|||||| !!|||||| ||| !!! !||||||| roGlyArgArgAlaCysProProAlaProGlyAlaSerArgLeuSerArgAlaAlaArgG 50070 : CCGGGCGCCGGGCCTGCCCGCCGGCTCCCGGGGCCAGCCGCTTGTCCCGCGCGGCCCGCG : 50129 165 : luGluLeuArgArgHisLeuValGlyLeuIleGluArgSerArgValValIlePheSerL : 184 ||||||||||||||!.!|||:!!|||||||||||| !! !||||||||||||||||||| luGluLeuArgArgArgLeuLeuGlyLeuIleGluGlyHisArgValValIlePheSerL 50130 : AGGAGCTGCGGCGCCGCCTGCTGGGCCTCATTGAGGGCCACCGCGTGGTCATCTTCAGCA : 50189 185 : ysSerTyrCysProHisSerThrArg >>>> Target Intron 6 >>>> ValLy : 194 ||!!!|||||||||||||||.!!||| 8584 bp ||||| ysThrTyrCysProHisSerAlaArg++ ++ValLy 50190 : AGACCTACTGCCCGCACAGCGCGCGGgt.........................agGTTAA : 58803 195 : sGluLeuPheSerSerLeuGlyValGluCysAsnValLeuGluLeuAspGlnVal{A} : 213 |||||||||||||||||||||||||!!:||||||:!!|||||||||||||||!.!{|} sGluLeuPheSerSerLeuGlyValAspCysAsnIleLeuGluLeuAspGlnAla{A}++ 58804 : AGaactcttttcttctctgggagTTGACTGTAACATCTTGGAACTTGATCAAGCT{G}gt : 58861 214 : >>>> Target Intron 7 >>>> {sp}AspGlyAlaArgValGlnGluValLeuSe : 223 898 bp {||}!!:||||||!!!||||||||||||||||| ++{sp}GluGlyAlaSerValGlnGluValLeuSe 58862 : .........................ag{AT}GAGGGGGCCAGTGTCCAGGAGGTTCTATC : 59788 224 : rGluIleThrAsnGlnLysThrValProAsnIlePheValAsnLysValHisValGlyGl : 243 ||||!!:|||||||||!:!|||||||||!:!||||||||||||!:!|||||||||||||| rGluMetThrAsnGlnArgThrValProSerIlePheValAsnArgValHisValGlyGl 59789 : AGAGATGACCAACCAGAGGACTGTGCCCAGCATCTTTGTGAATAGAGTGCACGTGGGCGG : 59848 244 : yCysAspGlnThrPheGln >>>> Target Intron 8 >>>> AlaTyrGlnSer : 253 |||||||!!.||||||||| 2653 bp |||:!!|||||| yCysAspHisThrPheGln++ ++AlaHisGlnSer 59849 : TTGTGACCACACTTTCCAGgt.........................agGCACATCAGAGT : 62531 254 : GlyLeuLeuGlnLysLeuLeuGlnGluAspLeuAlaTyrAspTyrAspLeuIleIleIle : 273 ||||||||||||:!!|||||||||:!!|||||||||||||||||||||||||||:!!||| GlyLeuLeuGlnGlnLeuLeuGlnGlnAspLeuAlaTyrAspTyrAspLeuIleValIle 62532 : GGTTTATTACAGCAGCTCCTCCAGCAGGACCTGGCGTACGACTACGACCTCATCGTCATC : 62591 274 : GlyGlyGlySerGlyGlyLeuSerCysAlaLys >>>> Target Intron 9 >>>> : 285 ||||||||||||||||||||||||||||||:!! 213 bp GlyGlyGlySerGlyGlyLeuSerCysAlaGln++ 62592 : GGCGGGGGCTCCGGGGGCCTCTCGTGCGCTCAGgt......................... : 62629 286 : GluAlaAlaIleLeuGlyLysLysValMetValLeuAspPheValValProSerProG : 304 |||||||||:!!||||||!:!||||||||||||||||||||||||||||||||||||! ++GluAlaAlaValLeuGlyArgLysValMetValLeuAspPheValValProSerProA 62630 : agGAAGCCGCCGTCCTGGGGAGGAAGGTCATGGTTCTGGACTTCGTGGTCCCATCCCCCC : 62897 305 : lnGlyThrSerTrp{G} >>>> Target Intron 10 >>>> {ly}LeuGlyGly : 312 ::||||||:!!|||{|} 894 bp {||}||||||||| rgGlyThrAlaTrp{G}++ ++{ly}LeuGlyGly 62898 : GCGGCACGGCCTGG{G}gt..........................ag{GT}CTTGGTGGC : 63815 313 : ThrCysValAsnValGlyCysIleProLysLysLeuMetHisGlnAlaAlaLeuLeuGly : 332 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ThrCysValAsnValGlyCysIleProLysLysLeuMetHisGlnAlaAlaLeuLeuGly 63816 : ACGTGTGTGAATGTTGGCTGTATCCCGAAGAAGCTGATGCACCAGGCTGCGCTGCTAGGG : 63875 333 : GlnAlaLeuCysAspSerArgLysPheGlyTrpGluTyrAsnGlnGln{V} >>>> Ta : 349 ||||||||| !|||||||||||||||||||||||||||!:!||||||{|} GlnAlaLeuThrAspSerArgLysPheGlyTrpGluTyrSerGlnGln{V}++ 63876 : CAGGCGCTGACCGACTCCAGGAAGTTCGGCTGGGAGTACAGTCAGCAA{G}gt....... : 63929 350 : rget Intron 11 >>>> {al}ArgHisAsnTrpGluThrMetThrLysAlaIleGl : 361 2144 bp {||}||||||!:!|||! |||||||||:!!|||||||| ++{al}ArgHisSerTrpAlaThrMetThrGluAlaIleGl 63930 : ...................ag{TG}AGGCACAGCTGGGCCACTATGACGGAGGCCATCCA : 66106 362 : nAsnHisIleSerSerLeuAsnTrpGlyTyrArgLeuSerLeuArgGluLysAlaValAl : 381 |!:!|||:!!.!!||||||!:!|||||| !||||||:!!|||||||||!!.||||||.! nSerHisValGlySerLeuSerTrpGlyArgArgLeuAlaLeuArgGluAsnAlaValTh 66107 : GAGCCACGTCGGCTCGCTGAGCTGGGGCCGCCGGCTGGCCCTGCGGGAGAACGCAGTGAC : 66166 382 : aTyrValAsnSerTyrGlyGluPheValGluHisHisLysIleLys >>>> Target : 397 !|||||||||||||||||||||||||||||||||||||||:!!||| 16 rTyrValAsnSerTyrGlyGluPheValGluHisHisLysValLys++ 66167 : CTACGTCAACTCCTACGGGGAGTTTGTTGAGCACCACAAAGTCAAGgt............ : 66216 398 : Intron 12 >>>> AlaThrAsnLysLysGlyGlnGluThrTyrTyrThrAlaAlaGl : 411 8 bp |||||||||:!!||||||||||||.!! !||||||||||||:! ++AlaThrAsnGluLysGlyGlnGluAlaLeuTyrThrAlaAlaLy 66217 : ..............agGCAACCAATGAGAAAGGACAGGAGGCGCTTTACACTGCTGCGAA : 66424 412 : nPheValIleAlaThrGlyGluArgProArgTyrLeuGlyIleGlnGlyAspLysGluTy : 431 !||||||||||||||||||:!!|||||||||||||||||||||! !||||||!:!||||| sPheValIleAlaThrGlyGlnArgProArgTyrLeuGlyIleProGlyAspArgGluTy 66425 : GTTTGTCATCGCGACAGGACAGAGGCCGCGCTACTTGGGAATCCCGGGAGACAGAGAGTA : 66484 432 : rCysIleThr{Se} >>>> Target Intron 13 >>>> {r}AspAspLeuPheS : 440 ||||||||||{||} 599 bp {|}||||||||||||| rCysIleThr{Se}++ ++{r}AspAspLeuPheS 66485 : CTGCATCACC{AG}gt..........................ag{C}GACGACCTGTTCT : 67110 441 : erLeuProTyrCysProGlyLysThrLeuValValGlyAlaSerTyrValAlaLeuGluC : 460 ||||||||||||||||||||! !||||||||||||||||||||||||||||||||||||| erLeuProTyrCysProGlyThrThrLeuValValGlyAlaSerTyrValAlaLeuGluC 67111 : CGCTGCCCTACTGCCCGGGCACGACCCTGGTGGTGGGCGCGTCCTACGTGGCGCTGGAGT : 67170 461 : ysAlaGlyPheLeuAlaGlyPheGlyLeuAspValThrValMetValArgSerIleLeuL : 480 ||||||||||||||||||||.!.||||||!!:|||||||||||||||||||||:!:|||| ysAlaGlyPheLeuAlaGlyLeuGlyLeuGluValThrValMetValArgSerValLeuL 67171 : GTGCAGGCTTCCTGGCCGGCCTGGGCCTGGAGGTCACAGTCATGGTGCGCTCGGTGCTCC : 67230 481 : euArgGlyPheAspGlnGluMetAlaGluLysValGlySerTyrMetGluGlnHisGlyV : 500 ||||||||||||||||||||||||||||||||||||||:!!! !:!!:!!|||! !|||| euArgGlyPheAspGlnGluMetAlaGluLysValGlyAlaCysLeuGlnGlnLeuGlyV 67231 : TGCGGGGCTTCGACCAGGAGATGGCCGAGAAGGTGGGCGCCTGCCTGCAGCAGCTCGGCG : 67290 501 : alLysPheLeuArgLysPheIleProValMet >>>> Target Intron 14 >>>> : 511 ||:::|||||||||||||||:!:|||||| ! 688 bp alArgPheLeuArgLysPheValProValGlu++ 67291 : TGCGCTTCCTGCGCAAGTTCGTGCCCGTGGAGgt.......................... : 67325 512 : ValGlnGlnLeuGluLysGlySerProGlyLysLeuLysValLeuAlaLysSerThrG : 530 ||||||||||||||||||||| !||||||!:!|||||||||:!!||||||||||||| ++ValGlnGlnLeuGluLysGlyLeuProGlyArgLeuLysValValAlaLysSerThrG 67326 : agGTCCAGCAGCTGGAGAAGGGCCTGCCCGGGAGGCTGAAGGTCGTGGCTAAATCCACGG : 68068 531 : luGlyThrGluThrIleGluGlyValTyrAsnThr >>>> Target Intron 15 > : 542 ||||||||||||||!!:|||||||||||||||||| 6481 bp luGlyThrGluThrMetGluGlyValTyrAsnThr++ 68069 : AAGGGACAGAGACAATGGAGGGCGTTTACAACACGgt....................... : 68106 543 : >>> ValLeuLeuAlaIleGlyArgAspSerCysThrArgLysIleGlyLeuGluLysI : 560 |||||||||||||||||||||||||||||||||!:!|||:!!||||||||||||| ++ValLeuLeuAlaIleGlyArgAspSerCysThrLysLysLeuGlyLeuGluLysI 68107 : ...agGTTTTGTTAGCAATTGGTCGTGACTCCTGCACGAAGAAGTTAGGGCTGGAGAAGA : 74639 561 : leGlyValLysIleAsnGlu{Ly} >>>> Target Intron 16 >>>> {s}Ser : 568 ||||||||!!.|||!:!|||{||} 735 bp {|}!!! leGlyValAsnIleSerGlu{Ly}++ ++{s}Thr 74640 : TTGGTGTGAATATCAGTGAG{AA}gt..........................ag{G}ACG : 75398 569 : GlyLysIleProValAsnAspValGluGlnThrAsnValProTyrValTyrAlaValGly : 588 ||||||||||||||||||! !! !|||||||||!:!|||||||||||||||||||||||| GlyLysIleProValAsnGlyGluGluGlnThrSerValProTyrValTyrAlaValGly 75399 : GGCAAGATCCCAGTAAATGGCGAGGAGCAGACCAGTGTGCCCTATGTCTACGCTGTCGGG : 75458 589 : AspIleLeuGluAspLysProGluLeuThrProValAlaIleGlnSerGlyLysLeuLeu : 608 |||:!!||||||! !||||||:!!|||||||||||||||:!:!:!:!!|||||||||||| AspValLeuGluGlyLysProGlnLeuThrProValAlaValArgAlaGlyLysLeuLeu 75459 : GACGTCCTGGAGGGCAAGCCGCAGCTCACCCCGGTCGCCGTGCGGGCGGGCAAGCTGCTG : 75518 609 : AlaGlnArgLeuPheGlyAlaSerLeuGluLys >>>> Target Intron 17 >>> : 620 |||!:!||||||||||||!.! !!! !|||||| 612 bp AlaArgArgLeuPheGlyGlyArgSerGluLys++ 75519 : GCGCGAAGGCTTTTTGGGGGCCGATCAGAGAAGgt......................... : 75556 621 : > CysAspTyrIleAsnValProThrThrValPheThrProLeuGluTyrGlyCysCys : 638 |||||||||:!!||||||||||||..!|||||||||||||||||||||||||||||| ++CysAspTyrValAsnValProThrValValPheThrProLeuGluTyrGlyCysCys 75557 : .agTGTGACTACGTCAACGTCCCCACCGTGGTGTTCACGCCCTTGGAGTACGGCTGCTGT : 76220 639 : GlyLeuSerGluGluLysAlaIleGluValTyrLysLysGluAsnLeuGlu >>>> Ta : 656 |||! !||||||||||||||| !||||||! !:!! !|||||||||! GlyTyrSerGluGluLysAlaGlyGluValCysGlnAlaGluAsnLeuGly++ 76221 : GGGTACTCAGAGGAGAAGGCTGGCGAGGTGTGCCAGGCGGAGAATCTGGGTgt....... : 76276 657 : rget Intron 18 >>>> IleTyrHisThrLeuPheTrpProLeuGluTrpThrVal : 668 4627 bp :!!|||||||||||||||||||||||||||||||||||| ++ValTyrHisThrLeuPheTrpProLeuGluTrpThrVal 76277 : ...................agGTCTACCACACCCTGTTCTGGCCTCTCGAGTGGACAGTG : 80937 669 : AlaGlyArgGluAsnAsnThrCysTyrAlaLysIleIleCysAsnLysPheAspHis > : 688 ||| !!|||!!:||||||||||||||||||||||||||||||||||||.!.|||:!! AlaCysArgAspAsnAsnThrCysTyrAlaLysIleIleCysAsnLysLeuAspAsn++ 80938 : GCCTGCAGAGACAACAACACTTGCTACGCGAAGATAATCTGCAATAAACTGGACAACgt. : 80999 689 : >>> Target Intron 19 >>>> AspArgValIleGlyPheHisIleLeuGlyPro : 698 3645 bp |||||||||||||||||||||:!!||||||||| ++AspArgValIleGlyPheHisValLeuGlyPro 81000 : .........................agGATCGGGTGATAGGATTTCACGTCCTCGGACCG : 84672 699 : AsnAlaGlyGluValThrGlnGlyPheAlaAlaAlaMetLysCysGlyLeuThrLysGln : 718 ||||||||||||:!!||||||||||||||||||||||||||||||||||||||||||||| AsnAlaGlyGluIleThrGlnGlyPheAlaAlaAlaMetLysCysGlyLeuThrLysGln 84673 : AACGCCGGGGAGATCACTCAGGGGTTTGCCGCTGCCATGAAGTGTGGGCTCACAAAGCAG : 84732 719 : LeuLeuAspAspThrIleGlyIleHisProThrCysGlyGlu >>>> Target Intr : 733 |||||||||! !|||||||||||||||||||||||||||||| 139 bp LeuLeuAspAlaThrIleGlyIleHisProThrCysGlyGlu++ 84733 : CTGCTGGATGCCACCATCGGGATCCACCCCACGTGTGGAGAGgt................ : 84779 734 : on 20 >>>> ValPheThrThrLeuGluIleThrLysSerSerGlyLeuAspIleThr : 748 |||||||||||||||||||||||||||:!!|||||||||||||||||| ++ValPheThrThrLeuGluIleThrLysAlaSerGlyLeuAspIleThr 84780 : ..........agGTGTTCACCACCTTGGAGATCACCAAGGCGTCGGGACTGGACATCACG : 84961 749 : GlnLysGlyCysUnkGly : 754 |||||||||||| ||| GlnLysGlyCys***Gly 84962 : CAGAAGGGCTGCTGAGGC : 84981 vulgar: SPP00000036_1.0 39 754 . NIVO01001699.1:subseq(4481833,134981) 9972 84981 + 2679 M 11 33 S 0 1 5 0 2 I 0 663 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 9690 3 0 2 S 1 2 M 21 63 S 0 1 5 0 2 I 0 19106 3 0 2 S 1 2 M 23 69 S 0 1 5 0 2 I 0 2737 3 0 2 S 1 2 M 20 60 5 0 2 I 0 7562 3 0 2 M 17 51 G 0 3 M 18 54 G 0 3 M 34 102 5 0 2 I 0 8580 3 0 2 M 20 60 S 0 1 5 0 2 I 0 894 3 0 2 S 1 2 M 36 108 5 0 2 I 0 2649 3 0 2 M 35 105 5 0 2 I 0 209 3 0 2 M 24 72 S 0 1 5 0 2 I 0 890 3 0 2 S 1 2 M 39 117 S 0 1 5 0 2 I 0 2140 3 0 2 S 1 2 M 47 141 5 0 2 I 0 164 3 0 2 M 38 114 S 0 2 5 0 2 I 0 595 3 0 2 S 1 1 M 75 225 5 0 2 I 0 684 3 0 2 M 31 93 5 0 2 I 0 6477 3 0 2 M 25 75 S 0 2 5 0 2 I 0 731 3 0 2 S 1 1 M 52 156 5 0 2 I 0 608 3 0 2 M 36 108 5 0 2 I 0 4623 3 0 2 M 32 96 5 0 2 I 0 3641 3 0 2 M 45 135 5 0 2 I 0 135 3 0 2 M 22 66 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 9973 84981 2679 + . gene_id 1 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 9973 10006 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 9973 10006 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 10007 10008 . + . intron_id 1 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 10007 10673 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 10672 10673 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 10674 10691 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 10674 10691 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 10692 10693 . + . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 10692 20385 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 20384 20385 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 20386 20451 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 20386 20451 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 20452 20453 . + . intron_id 3 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 20452 39561 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 39560 39561 . + . intron_id 2 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 39562 39633 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 39562 39633 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 39634 39635 . + . intron_id 4 ; splice_site "ct" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 39634 42374 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 42373 42374 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 42375 42436 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 42375 42436 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 42437 42438 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 42437 50002 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 50001 50002 . + . intron_id 4 ; splice_site "CG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 50003 50215 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 50003 50215 . + . insertions 6 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 50216 50217 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 50216 58799 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 58798 58799 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 58800 58860 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 58800 58860 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 58861 58862 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 58861 59758 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 59757 59758 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 59759 59868 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 59759 59868 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 59869 59870 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 59869 62521 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 62520 62521 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 62522 62626 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 62522 62626 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 62627 62628 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 62627 62839 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 62838 62839 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 62840 62912 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 62840 62912 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 62913 62914 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 62913 63806 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 63805 63806 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 63807 63926 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 63807 63926 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 63927 63928 . + . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 63927 66070 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 66069 66070 . + . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 66071 66213 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 66071 66213 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 66214 66215 . + . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 66214 66381 . + . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 66380 66381 . + . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 66382 66497 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 66382 66497 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 66498 66499 . + . intron_id 13 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 66498 67096 . + . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 67095 67096 . + . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 67097 67322 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 67097 67322 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 67323 67324 . + . intron_id 14 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 67323 68010 . + . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 68009 68010 . + . intron_id 13 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 68011 68103 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 68011 68103 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 68104 68105 . + . intron_id 15 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 68104 74584 . + . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 74583 74584 . + . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 74585 74661 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 74585 74661 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 74662 74663 . + . intron_id 16 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 74662 75396 . + . intron_id 16 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 75395 75396 . + . intron_id 15 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 75397 75553 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 75397 75553 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 75554 75555 . + . intron_id 17 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 75554 76165 . + . intron_id 17 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 76164 76165 . + . intron_id 16 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 76166 76273 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 76166 76273 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 76274 76275 . + . intron_id 18 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 76274 80900 . + . intron_id 18 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 80899 80900 . + . intron_id 17 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 80901 80996 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 80901 80996 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 80997 80998 . + . intron_id 19 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 80997 84641 . + . intron_id 19 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 84640 84641 . + . intron_id 18 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 84642 84776 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 84642 84776 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 84777 84778 . + . intron_id 20 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 84777 84915 . + . intron_id 20 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 84914 84915 . + . intron_id 19 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 84916 84981 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 84916 84981 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 9973 84981 2679 + . alignment_id 1 ; Query SPP00000036_1.0 ; Align 9973 40 33 ; Align 10676 52 15 ; Align 20388 58 63 ; Align 39564 80 69 ; Align 42377 104 60 ; Align 50003 124 51 ; Align 50057 141 54 ; Align 50114 159 102 ; Align 58800 193 60 ; Align 59761 214 108 ; Align 62522 250 105 ; Align 62840 285 72 ; Align 63809 310 117 ; Align 66073 350 141 ; Align 66382 397 114 ; Align 67098 436 225 ; Align 68011 511 93 ; Align 74585 542 75 ; Align 75398 568 156 ; Align 76166 620 108 ; Align 80901 656 96 ; Align 84642 688 135 ; Align 84916 733 66 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 150 Query range: 1 -> 369 Target range: 7633 -> 128674 2 : GlyHisValHisArgLeuValSer >>>> Target Intron 1 >>>> GlyLy : 11 |||! !:!!|||! ! !:!!..! 9931 bp !.! GlyProIleHisProAspIleGln+- ++AlaPr 7634 : GGCCCCATCCATCCAGACATCCAGgg.........................agGCCCC : 17592 12 : sArgArgMetHisLeuThrSerArgPro{V} >>>> Target Intron 2 >>>> : 21 ||| !! |||! !|||:!!! !|||{!} 21325 bp oArgGlyAlaHisGlnThrAlaProPro{G}++ 17593 : CAGGGGGGCCCACCAAACTGCACCACCT{G}gt......................... : 17625 22 : {al}AlaSerThrHisSerProLeuIleLeuAspMet >>>> Target Intro : 33 { !}.!! !!:!!|||!!!||||||:!!! ! :!! 10660 bp ++{ly}ThrProSerHisCysProLeuValCysArgLeu+- 17626 : ag{gC}ACCCCTTCCCACTGCCCCCTGGTTTGCAGGCTGgc................. : 38985 34 : n 3 >>>> CysProHisLeuAsnAsnGlyProMetThrGlyCysGlyArgAlaGly : 48 |||...:!!......|||! ! ! !||| ! |||..! ! !! +-GluProArgValGlyArgGlyGlnArgArgGlyArgGlyGluArgArg 38986 : ........aaGAGCCGAGGGTGGGGCGGGGCCAGCGGCGTGGACGGGGCGAGCGTCGG : 49688 49 : AspProIleSerHisAlaArgGlyGlyValGlyGlyArgGlyGluArgLeuProArgG : 68 ! ! ! ||| !!.! !||| !!!.!..!|||||||||||||||! ! !|||| GlyGlyAlaSerValGlyAlaGlyArgAlaSerGlyArgGlyGluArgArgGlyArgG 49689 : GGCGGGGCGAGCGTCGGGGCGGGGCGAGCGTCGGGGCGGGGCGAGCGCCGGGGGCGGG : 49748 69 : lyPheAlaArgValValArgValAlaSerGluGlySerValArgArgProSerGlyPr : 87 || ! :!! !!:!!! !|||!.! !!.!!! !||| !!:!!||| ! !:!!.!! ! lyValSerGlyIleGlyArgAlaProGlyAlaGlyArgIleArgAspTrpAlaSerAl 49749 : GCGTATCCGGGATTGGGCGAGCGCCGGGGGCGGGGCGTATCCGGGATTGGGCGAGCGC : 49805 88 : o{Va} >>>> Target Intron 4 >>>> {l}ProAlaProGlnProPro{A} : 95 !{! } 7686 bp {!}|||! !||| ||| !!{!} a{Gl}+- ++{y}ProGluProCysProAla{G} 49806 : C{GG}gg.........................ag{C}CCGGAGCCCTGCCCTGCA{G} : 57515 96 : >>>> Target Intron 5 >>>> {la}PheArgPheValSerArgProGlyA : 104 1046 bp { !}|||!:! ! !.!! ! !! !| ++ -+{lu}PheGlnAsnArgGlyLeuSerGluA 57516 : gt.........................tg{AG}TTCCAAAACAGAGGTTTGAGTGAAA : 58588 105 : rgAlaArgSerGluSerGluThrLeuGluArgSerProProGlnSerProGlyProGl : 123 ||..!|||! !! !||||||||| !! ... :::... ||| !|| rgCysArgPheGlySerGluThrAlaGlyCysGluArgArgGluGluAlaGlyGlyGl 58589 : GGTGCAGATTCGGAAGTGAGACAGCGGgttgtgaaagaagagaagaggcgGGTGGAGG : 58645 124 : yLysAlaGlyAspAlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeu : 142 |::::!!||| ! ||||||.....!!:!..! !! !! !|||||||||:!!! ! yArgSerGlyLysAlaProArgGluGlnGluArgAlaTrpProGlyAlaArgIlePro 58646 : TCGTTCTGGGAAGGCTCCCCGAGAACAGGAGAGAGCGTGGCCCGGGGCGCGCATCCCT : 58702 143 : SerProProGlyArgArgAlaArgLeuSerSerProGlyProSerArgSerSerGluA : 162 ..! !|||! ! !! !:!!! !:!! !!!!||| !|||! ! !:!!|||! GluGlyProVal***AlaSerProValLeuCysProHisProIleAlaAlaSerGlyL 58703 : GAAGGGCCTGTCTGAGCGTCCCCAGTGCTCTGCCCACACCCCATAGCTGCGTCTGGTC : 58762 163 : laArgGluGluLeuArgArg >>>> Target Intron 6 >>>> HisLeuVal : 171 ! !!|||..! !! !!:! 4011 bp ! !||| euCysGluArgArgMetGln++ ++GlyLysVal 58763 : TGTGCGAGAGGAGAATGCAGgt.........................agGGCAAGGTC : 62800 172 : GlyLeuIleGluArgSer{Ar} >>>> Target Intron 7 >>>> {g}ValV : 180 ||| !!!: !||||||{! } 4274 bp {!}! !! GlyGluMetThrArgSer{Pr}++ ++{o}AspA 62801 : GGGGAAATGACGAGGTCT{CC}gt.........................ag{C}GACG : 67101 181 : alIlePheSerLysSerTyrCysProHisSerThrArgVal >>>> Target Int : 194 !:!:|||||| ! !!||||||||| !!!!|||! !||| 1901 b spLeuPheSerLeuProTyrCysProGlyThrThrLeuVal++ 67102 : ACCTGTTCTCGCTGCCCTACTGCCCGGGCACGACCCTGGTGgt............... : 67145 195 : ron 8 >>>> LysGluLeuPheSerSer >>>> Target Intron 9 >>>> : 200 p ! !..! ! |||||| 27824 bp ++ThrSerArgAlaSerSer++ + 67146 : ..........agACATCAAGAGCATCTTCTgt.........................a : 96884 201 : LeuGlyValGluCysAsnValLeuGluLeuAspGlnValAspAspGlyAlaArgVal : 218 !||||||.....! !!..! ! ||| ..!!.! .!.||| !||| ! +GlyGlyValSerAlaTyrThrArgProLeuProSerAlaProGlnGlyGlnArgSer 96885 : gGGAGGGGTCTCCGCCTACACCAGGCCCCTCCCATCGGCACCACAAGGGCAGAGGTCC : 96940 219 : {Gl} >>>> Target Intron 10 >>>> {n}GluValLeuSerGluIleThr : 226 {::} 1753 bp {!}:!!:!!!!!.!!:!! !.!! {Ar}++ ++{g}GlnIlePheGlyLysGlnAla 96941 : {AG}gt..........................ag{A}CAAATCTTTGGCAAACAAGCA : 98717 227 : AsnGlnLysThrValProAsnIlePheValAsnLysValHisValGlyGlyCysAspG : 246 ||| !!!.!:!:!! !||| !! !|||..!!:!:!! !...|||... ...| AsnLeuAsnSerLeuValAsnCysCysValGlyArgLeuThrThrGlySerGlySerG 98718 : AACTTGAACAGTTTGGTGAACTGCTGTGTTGGCAGACTGACCACaggcagtggttccc : 98777 247 : ln{Th} >>>> Target Intron 11 >>>> {r}PheGlnAlaTyrGlnSerG : 254 ||{||} 6789 bp {|}.!!|||||| |||| ln{Th}-+ ++{r}LeuGlnAlaLeuCysSerG 98778 : aa{ac}tt..........................ag{C}CTCCAAGCGCTGTGCTCTG : 105590 255 : lyLeuLeuGlnLysLeuLeuGlnGluAspLeuAlaTyrAspTyrAspLeuIleIleIl : 273 |||||! !! !::!! !|||! !|||:!!! !!.! !! :!! ! ! lyLeuProLeuArgProLeuProGluAsnArgGlyArgArgAlaGlyValProHisAl 105591 : GCCTGCCCCTGCGACCCCTCCCGGAGAACCGGGGCCGGCGGGCCGGGGTGCCCCACGC : 105647 274 : eGlyGlyGlySerGlyGlyLeuSerCysAlaLysGluAla >>>> Target Intr : 287 ! !! ! !!!!! !||||||||| ! !:!!||| ! 1601 b aProValArgThrProGlyLeuSerProArgGluGluGln++ 105648 : CCCAGTCAGGACCCCTGGCCTCAGCCCCCGTGAGGAGCAGgt................ : 105691 288 : on 12 >>>> AlaIleLeuGlyLys{L} >>>> Target Intron 13 >>>> : 292 p ::!:!:|||||| { } 20106 bp ++SerValLeuGlyCys{A}++ 105692 : ..........agAGTGTGCTCGGCTGT{G}gt.......................... : 107308 293 : {ys}ValMetValLeuAspPheValValProSerProGlnGlyThrSerTrpGlyL : 310 {! }:!! |||! !:!!||||||! ! !:!! !!::|||.!!!!!|||! ! ++{sp}MetAlaValGlnAsnPheValGlyAspAlaPheArgGlyAlaThrTrpValA 107309 : ag{AC}ATGGCTGTGCAGAACTTCGTGGGCGACGCGTTCCGTGGGGCCACCTGGGTCG : 127465 311 : euGlyGlyThrCysValAsnValGly{Cy} >>>> Target Intron 14 >>>> : 319 ! ! !!.! !!! !..!||||||{||} 703 bp laLeuHisAsnGlyGlyGlyValGly{Cy}++ 127466 : CCCTGCACAATGGCGGGGGCGTTGGC{TG}gt.......................... : 127496 320 : {s}IleProLysLysLeuMetHisGlnAlaAlaLeuLeuGlyGlnAlaLeuCysAs : 337 {|} ! !||| ::: ::: ||| ! !|||!! ++{s}SerArgLysAlaGlyIleSerGluLysAsnTyrLysGlyValLysGlyCysGl 127497 : ag{c}tcaCGGAAGGCaggaatttctgaaaaaaattacaaaggcgTCAAAGGGTGTGA : 128249 338 : pSerArgLysPheGlyTrpGluTyrAsn{G} >>>> Target Intron 15 >>> : 347 :||| ! ||| ! !!: .!.{ } 327 bp uSerValAlaArgGlyGlyAspThrGln{G}++ 128250 : GTCAGTAGCCAGAGGAGGAGACACACAG{G}gt......................... : 128282 348 : > {ln}GlnValArgHisAsnTrpGluThrMetThrLysAlaIleGlnAsnHisIle : 364 { !}.!. !!:! ! !!...::: ||||||::: ||| ++{ly}AsnTyrLysSerLeuArgSerSerSerGluLysAlaMetAlaProHisSer 128283 : .ag{GA}AATTACAAGAGTTTAAGGAgctcttcggagaaggcaatggcaccccactcc : 128657 365 : SerSerLeuAsnTrp : 369 |||:::||| ||| SerThrLeuAlaTrp 128658 : agtactcttgcctgg : 128674 vulgar: SPP00000036_1.0 1 369 . NIVO01001699.1:subseq(4481833,134981) 7633 128674 + 150 M 8 24 5 0 2 I 0 9927 3 0 2 M 11 33 S 0 1 5 0 2 I 0 21321 3 0 2 S 1 2 M 11 33 5 0 2 I 0 10656 3 0 2 M 55 165 S 0 2 5 0 2 I 0 7682 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 1042 3 0 2 S 1 2 M 73 219 5 0 2 I 0 4007 3 0 2 M 9 27 S 0 2 5 0 2 I 0 4270 3 0 2 S 1 1 M 15 45 5 0 2 I 0 1897 3 0 2 M 6 18 5 0 2 I 0 27820 3 0 2 M 19 57 S 0 2 5 0 2 I 0 1749 3 0 2 S 1 1 M 27 81 S 0 2 5 0 2 I 0 6785 3 0 2 S 1 1 M 39 117 5 0 2 I 0 1597 3 0 2 M 5 15 S 0 1 5 0 2 I 0 20102 3 0 2 S 1 2 M 26 78 S 0 2 5 0 2 I 0 699 3 0 2 S 1 1 M 27 81 S 0 1 5 0 2 I 0 323 3 0 2 S 1 2 M 22 66 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 7634 128674 150 + . gene_id 2 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 7634 7657 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 7634 7657 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 7658 7659 . + . intron_id 1 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 7658 17588 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 17587 17588 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17589 17622 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17589 17622 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17623 17624 . + . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17623 38947 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 38946 38947 . + . intron_id 1 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 38948 38982 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 38948 38982 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 38983 38984 . + . intron_id 3 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 38983 49642 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 49641 49642 . + . intron_id 2 ; splice_site "AA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 49643 49809 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 49643 49809 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 49810 49811 . + . intron_id 4 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 49810 57495 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57494 57495 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57496 57515 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57496 57515 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57516 57517 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57516 58561 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 58560 58561 . + . intron_id 4 ; splice_site "TG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 58562 58782 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 58562 58782 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 58783 58784 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 58783 62793 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 62792 62793 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 62794 62822 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 62794 62822 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 62823 62824 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 62823 67096 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 67095 67096 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 67097 67142 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 67097 67142 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 67143 67144 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 67143 69043 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 69042 69043 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 69044 69061 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 69044 69061 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 69062 69063 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 69062 96885 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96884 96885 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96886 96944 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96886 96944 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96945 96946 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96945 98697 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 98696 98697 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 98698 98781 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 98698 98781 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 98782 98783 . + . intron_id 11 ; splice_site "tt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 98782 105570 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 105569 105570 . + . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 105571 105688 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 105571 105688 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 105689 105690 . + . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 105689 107289 . + . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 107288 107289 . + . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 107290 107305 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 107290 107305 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 107306 107307 . + . intron_id 13 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 107306 127411 . + . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 127410 127411 . + . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 127412 127493 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 127412 127493 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 127494 127495 . + . intron_id 14 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 127494 128196 . + . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 128195 128196 . + . intron_id 13 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 128197 128279 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 128197 128279 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 128280 128281 . + . intron_id 15 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 128280 128606 . + . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 128605 128606 . + . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 128607 128674 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 128607 128674 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 7634 128674 150 + . alignment_id 2 ; Query SPP00000036_1.0 ; Align 7634 2 24 ; Align 17589 10 33 ; Align 38950 22 33 ; Align 49643 33 165 ; Align 57497 89 18 ; Align 58564 96 219 ; Align 62794 169 27 ; Align 67098 179 45 ; Align 69044 194 18 ; Align 96886 200 57 ; Align 98699 220 81 ; Align 105572 248 117 ; Align 107290 287 15 ; Align 127414 293 78 ; Align 128198 320 81 ; Align 128609 348 66 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 140 Query range: 6 -> 336 Target range: 28661 -> 126957 7 : LeuValSerGlyLysArgArgMetHisLeuThrSerArgProValAlaSerThrHis{ : 26 |||..!.!! ! !||||||:!!|||! !!:! !!||||||!.! !!!!|||!!.{ LeuThrGlyTyrProArgArgValHisHisSerProArgProAlaLeuArgThrGln{ 28662 : CTGACGGGATACCCGCGAAGGGTGCACCACAGCCCACGGCCCGCGCTGAGGACTCAA{ : 28719 27 : Se} >>>> Target Intron 1 >>>> {r}ProLeuIleLeuAspMetCysPr : 34 !!} 28007 bp {!} !:!! !|||! !:!!||| Th}++ ++{r}GlyValAlaLeuGlyLeuCysSe 28720 : AC}gt.........................ag{A}GGTGTGGCCTTGGGTCTGTGCAG : 56750 35 : oHisLeuAsn<->AsnGlyProMetThrGlyCysGlyArgAlaGlyAspProIleSer : 52 !|||! !... !..||| !! !.!!! !|||! !! ! !..!||||||:!!||| rHisProGlyValThrGlySerProAlaValCysValThrLeuSerAspProLeuSer 56751 : CCACCCTGGGGTGACGGGTTCACCGGCCGTCTGTGTTACACTGTCTGACCCTCTCAGC : 56807 53 : HisAlaArg{Gl} >>>> Target Intron 2 >>>> {y}GlyValGlyGlyA : 61 !!.!! !{||} 26560 bp {|}!.!!.!||||||| ValValPro{Gl}++ ++{y}AlaAlaGlyGlyA 56808 : GTCGTGCCC{GG}gt.........................ag{G}GCAGCGGGAGGCC : 83394 62 : rgGlyGluArgLeuProArgGlyPheAlaArgValValArgValAlaSerGluGlySe : 80 |||||! ! !! ! ! !!|||.!.! !! !|||! ! !!!.!!.!||||||||| ! rgGlyGlyGlyThrGlyTrpGlyLeuGluProValGlyGlyAlaValSerGluGlyPr 83395 : GAGGAGGGGGGACTGGCTGGGGGCTGGAGCCAGTCGGTGGAGCTGTGAGCGAAGGTCC : 83451 81 : rValArgArg >>>> Target Intron 3 >>>> ProSerGlyProValProA : 90 !||| !||| 4231 bp |||||| |||::: oValSerArg+- ++ProSerHisProLeuSerP 83452 : CGTGTCACGTgg.........................agccatcacatcctctgtcgc : 87712 91 : laProGlnProProAlaPheArgPheValSerArgProGlyArgAla{Ar} >>>> : 106 |||...|||||||||||| ... ...... ||| {!.} roProSerProProAlaPheSerLeuSerGlnHisGlnGlyLeuPhe{Hi}++ 87713 : ccccttctcctcccgccttcagtctttcccagcatcagggtcttttc{ca}gt..... : 87764 107 : Target Intron 4 >>>> {g}SerGluSerGluThrLeuGluArgSerProPro : 117 8839 bp {!}|||..!:!!! ! !...||| !!||| !! ++{s}SerArgAlaGlyArgAlaArgArgProProAla 87765 : ....................ag{C}AGTAGAGCAGGCCGCGCGCGTCGTCCACCAGCA : 96632 118 : GlnSerProGlyProGlyLysAlaGlyAspAlaProAsnArgArgSerGlyHisValA : 137 !:::!! !!|||||| !! |||!.!|||||| !! ! !! !!.!!|||!.! !| ArgAlaAlaGlyProArgAlaAlaAlaAspAlaAlaAlaGlyCysGlyGlyArgArgA 96633 : CGTGCCGCAGGTCCTCGGGCCGCAGCAGACGCTGCCGCCGGGTGTGGCGGCCGCAGGC : 96692 138 : rgGlyAlaArgValLeuSerProProGlyArgArgAlaArgLeuSerSerProGlyPr : 156 |||||||| !!.!|||:!! !! !!||| !! ! !! ! ! !!||| !!||||| rgGlyAlaAlaAlaLeuAlaAlaAlaGlyAlaProArgProArgArgSerAlaGlyPr 96693 : GCGGCGCAGCAGCTCTCGCCGCTGCCGGTGCACCTCGGCCAAGGCGGAGCGCGGGCCC : 96749 157 : oSerArgSerSerGluAla{A} >>>> Target Intron 5 >>>> {rg}Glu : 164 |:!! !! !!.!! ! !{|} 115 bp {||}..! oAlaGlyProGlyProArg{A}+- ++{rg}Arg 96750 : TGCGGGGCCAGGGCCACGG{A}gg.........................ag{GG}AGG : 96888 165 : GluLeuArgArgHisLeuValGlyLeuIleGluArgSerArgValValIlePhe >> : 183 ! ||||||! !|||! !!.! !! !|||! ! !!!!|||!.!! !:!! GlyLeuArgLeuHisGlnAlaProProIleGlyThrThrArgAlaGluValGln++ 96889 : GGTCTCCGCCTACACCAGGCCCCTCCCATCGGCACCACAAGGGCAGAGGTCCAGgt.. : 96947 184 : >> Target Intron 6 >>>> SerLysSerTyrCysProHisSerThrArgVal : 193 4158 bp ..! !||| ||||||....!!!:!|||:!! -+GlnValSerValCysProArgGlySerArgLeu 96948 : .......................ggCAGGTGTCTGTGTGCCCCAGGGGGAGTCGGCTC : 101133 194 : Lys{Gl} >>>> Target Intron 7 >>>> {u}LeuPheSer{S} >>>> : 199 !..{||} 242 bp {|}:::||||||{!} Ser{Gl}+- ++{u}ValPheSer{A}++ 101134 : AGC{GA}gg.........................ag{g}gtcttctcc{a}gt..... : 101396 200 : Target Intron 8 >>>> {er}LeuGlyValGluCysAsnValLeuGluLeuAs : 210 8903 bp {:!}|||!.!||||||||| ! !! !..!||| ++{sn}LeuAlaValGluCysAlaSerSerArgLeuAr 101397 : ....................ag{AC}CTTGCTGTGGAGTGTGCCTCCTCCAGGCTGCG : 110329 211 : pGlnValAsp{As} >>>> Target Intron 9 >>>> {p}GlyAlaArgVal : 218 ! |||.!.{ } 180 bp { }!.! !! !||| gProValGln{Tr}++ ++{p}AlaTyrProVal 110330 : GCCTGTCCAG{TG}gt.........................ag{G}GCCTACCCGGTG : 110533 219 : GlnGluValLeuSerGluIleThrAsnGlnLysThrValProAsnIlePheValAsnL : 238 :!!:!! !! !!!!..!! ! ! !.!!:!! ! !!!:.!!:!!|||! GluGlnTyrProCysArgThrArgAlaAlaAlaAlaIleMetLeuMetIleMetAsnA 110534 : GAGCAATATCCCTGCCGGACGAGGGCGGCTGCAGCCATCATGCTCATGATCATGAACA : 110593 239 : ysValHisValGlyGlyCysAspGlnThrPheGlnAlaTyrGlnSerGlyLeuLeuGl : 257 !.:!! !! !!.!! !....!. !||| !!:!!.!! ! ! !!|||! !! ! snLeuAspProAlaValAlaGlnValThrAlaArgValCysGlyArgGlyArgGlnTr 110594 : ACCTGGACCCAGCCGTGGCACAGGTAACAGCCCGGGTGTGCGGGCGGGGTCGGCAGTG : 110650 258 : nLysLeuLeuGlnGluAspLeuAlaTyrAspTyrAspLeuIleIleIleGlyGlyGly : 276 !:!!:!! ! !..!||| ! !! !... ! ! !! !:!!:!: !|||||| pGluValGlyValArgAspThrProSerSerLeuThrAlaSerValLeuLeuGlyGly 110651 : GGAGGTCGGCGTGCGAGACACACCCAGCTCACTCACTGCAAGCGTTCTGCTTGGAGGC : 110707 277 : SerGlyGlyLeuSerCysAlaLysGluAlaAlaIleLeuGlyLysLysValMetValL : 296 |||||||||!!!.!! ... :::::::::.........::: : SerGlyGlyPheGlyValTyrAlaSerArgSerValValSerAsnSerLeuArgProM 110708 : AGTGGCGGATTTGGGGTGTAcgcaagtcgctcagttgtgtccaactctttgcgaccca : 110767 297 : euAspPheValValProSerProGlnGlyThrSer{Tr} >>>> Target Intro : 308 ::|||:::...||| |||::: |||{ !} 8521 bp etAspTyrThrValSerArgProGluHisTrpSer{Gl}++ 110768 : tggactatacagtctccaggccagagcactggagt{gg}gt................. : 110807 309 : n 10 >>>> {p}GlyLeuGlyGlyThrCysValAsnValGlyCysIleProLys{L : 323 { }..! !||| !..!||||||...! !! !||| ! !::!{! ++{y}SerAlaGlyHisValCysValGlyGlyAspCysCysCysArg{A 110808 : .........ag{A}TCGGCTGGCCACGTCTGCGTTGGAGGAGATTGTTGCTGCCGG{A : 119369 324 : y} >>>> Target Intron 11 >>>> {s}LeuMetHisGlnAlaAlaLeuLe : 331 :} 7547 bp {!} !.!. :!!! ! !! ! r}++ -+{g}GlyPheGlyGluGluProThrAr 119370 : G}gt..........................gg{G}GGCTTTGGGGAAGAGCCCACCAG : 126940 332 : uGlyGlnAlaLeuCys : 336 !||||||||||||||| gGlyGlnAlaLeuCys 126941 : GGGCCAAGCCCTTTGT : 126957 vulgar: SPP00000036_1.0 6 336 . NIVO01001699.1:subseq(4481833,134981) 28661 126957 + 140 M 19 57 S 0 2 5 0 2 I 0 28003 3 0 2 S 1 1 M 11 33 G 0 3 M 18 54 S 0 2 5 0 2 I 0 26556 3 0 2 S 1 1 M 27 81 5 0 2 I 0 4227 3 0 2 M 22 66 S 0 2 5 0 2 I 0 8835 3 0 2 S 1 1 M 56 168 S 0 1 5 0 2 I 0 111 3 0 2 S 1 2 M 19 57 5 0 2 I 0 4154 3 0 2 M 12 36 S 0 2 5 0 2 I 0 238 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 8899 3 0 2 S 1 2 M 14 42 S 0 2 5 0 2 I 0 176 3 0 2 S 1 1 M 93 279 S 0 2 5 0 2 I 0 8517 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 7543 3 0 2 S 1 1 M 13 39 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 28662 126957 140 + . gene_id 3 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 28662 28720 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 28662 28720 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 28721 28722 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 28721 56727 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 56726 56727 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 56728 56820 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 56728 56820 . + . insertions 3 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 56821 56822 . + . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 56821 83380 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 83379 83380 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 83381 83462 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 83381 83462 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 83463 83464 . + . intron_id 3 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 83463 87693 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 87692 87693 . + . intron_id 2 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 87694 87761 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 87694 87761 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 87762 87763 . + . intron_id 4 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 87762 96600 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96599 96600 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96601 96770 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96601 96770 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96771 96772 . + . intron_id 5 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96771 96885 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96884 96885 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96886 96944 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96886 96944 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96945 96946 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96945 101102 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101101 101102 . + . intron_id 5 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101103 101140 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101103 101140 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101141 101142 . + . intron_id 7 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101141 101382 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101381 101382 . + . intron_id 6 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101383 101393 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101383 101393 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101394 101395 . + . intron_id 8 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101394 110296 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 110295 110296 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 110297 110342 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 110297 110342 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 110343 110344 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 110343 110522 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 110521 110522 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 110523 110804 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 110523 110804 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 110805 110806 . + . intron_id 10 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 110805 119325 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 119324 119325 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 119326 119370 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 119326 119370 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 119371 119372 . + . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 119371 126917 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 126916 126917 . + . intron_id 10 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 126918 126957 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 126918 126957 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 28662 126957 140 + . alignment_id 3 ; Query SPP00000036_1.0 ; Align 28662 7 57 ; Align 56729 27 33 ; Align 56765 38 54 ; Align 83382 57 81 ; Align 87694 84 66 ; Align 96602 107 168 ; Align 96888 164 57 ; Align 101103 183 36 ; Align 101384 196 9 ; Align 110299 200 42 ; Align 110524 215 279 ; Align 119327 309 42 ; Align 126919 324 39 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 129 Query range: 36 -> 445 Target range: 3967 -> 134003 37 : AsnAsnGlyProMetThrGlyCysGlyArgAlaGlyAspProIleSerHisAlaArgG : 56 ::!::!||||||:!!..! !!|||||| !! ! !! !:!!!!! !.!||| SerSerGlyProLeuValArgCysGlyGlyArgArgProAsnLeu***GlyGlyArgG 3968 : TCCTCTGGTCCTTTGGTCCGCTGCGGTGGCCGAAGACCAAATTTATGAGGAGGGAGGC : 4025 57 : lyGlyValGlyGlyArgGlyGluArgLeu{P} >>>> Target Intron 1 >>> : 66 !..!:!!||| !! !||| ||| !{ } 3321 bp lnSerLeuGlyLysProGlyProArgSer{A}++ 4026 : AGTCCCTGGGGAAGCCTGGGCCCAGGAGC{A}gt........................ : 4058 67 : > {ro}ArgGlyPheAlaArgValValArgValAlaSerGluGlySerValArgArg : 83 { !}! ! !.!! !! !! !!.! !!:!!|||!!! !||| !!|||! !||| ++{rg}LeuHisIleProGlyArgAla***LeuAlaThrLeuGlyProValProArg 4059 : .ag{GA}CTGCACATCCCCGGTCGGGCATGACTGGCTACCCTGGGCCCTGTACCCAGA : 7427 84 : ProSerGlyProValProAlaProGlnPro{Pr} >>>> Target Intron 2 > : 94 ||||||||||||! !! !!.! !||||||{||} 3070 bp ProSerGlyProGluGlnGlyLysGlnPro{Pr}+- 7428 : CCGTCTGGACCGGAGCAGGGAAAGCAGCCA{CC}gg...................... : 7464 95 : >>> {o}AlaPheArgPheValSerArgProGlyArgAlaArgSerGluSerGluTh : 111 {|} ! !! ! |||||||||! ! !|||:!!! !|||...|||...|| ++{o}LysAsnProGlyValSerArgGlnThrArgSerLeuSerSerSerSerTh 7465 : ...ag{C}AAGAACCCGGGGGTCTCCAGGCAAACCCGCTCACTGTCCTCCTCCAGCAC : 10581 112 : rLeuGlu{Ar} >>>> Target Intron 3 >>>> {g}SerProProGlnSer : 119 |! !..!{!:} 1591 bp {!}:!! !!||||||||| rArgArg{Gl}++ ++{n}AlaAlaProGlnSer 10582 : GCGGCGA{CA}gt.........................ag{G}GCCGCGCCGCAAAGT : 12196 120 : ProGlyProGlyLysAlaGlyAspAlaProAsn >>>> Target Intron 4 >> : 131 |||!.!|||!.! !||| ! ::!|||.!. 30342 bp ProAlaProAlaProAlaProTrpSerProGln++ 12197 : CCCGCTCCCGCGCCGGCTCCCTGGAGCCCCCAAgt....................... : 12234 132 : >> ArgArgSerGlyHisValArgGlyAlaArgValLeuSerProProGlyArgArg : 148 |||! !||| !! !:!!! !||| !! !|||! !..!|||||||||! !||| ++ArgLeuSerArgAlaLeuProGlyProValValArgGluProProGlyLeuArg 12235 : ..agCGTCTGAGCCGAGCCCTTCCCGGCCCGGTTGTCCGAGAACCCCCGGGGCTGCGC : 42625 149 : AlaArgLeuSerSerProGly >>>> Target Intron 5 >>>> ProSerAr : 158 ! !! ! !!.!!|||||| 4854 bp !:!!!! IleSerProArgGlyProGly++ +-LysAlaSe 42626 : ATCTCCCCGCGGGGGCCCGGGgt.........................acAAAGCCAG : 47509 159 : gSerSerGluAlaArgGluGluLeuArgArgHisLeuValGlyLeuIleGluArg{Se : 177 !|||!!!! !|||||| !||||||||| ! ||| !||| !:!:.....!{.! rSerThrValArgArgGluThrLeuArgArgLysLeuGlnGlyAlaValSerGlu{Gl 47510 : TTCCACAGTCAGGAGGGAGACACTTAGAAGGAAACTGCAAGGGGCTGTGAGCGAA{GG : 47566 178 : } >>>> Target Intron 6 >>>> {r}ArgValValIlePheSerLysSerT : 186 } 1184 bp {!}::: :::::: :::|||| }++ ++{y}LysPheIleLeuLysCysArgSerT 47567 : }gt.........................ag{g}aaattcattttaaaatgtcgtAGCT : 48777 187 : yrCysProHisSerThrArgValLysGluLeuPheSerSer{Le} >>>> Target : 200 || !:!! !|||..!...::: |||... |||{! } 42 yrMetArgTyrLeuThrGluThrGlnLeuLeuLeuPheSer{Cy}-+ 48778 : ATATGAGGTATCTAACAGAAAcccagttgttgctgtttagt{tg}ct........... : 48823 201 : Intron 7 >>>> {u}GlyValGluCysAsnValLeuGluLeuAspGlnValAsp : 213 84 bp {!}|||..!||| ! ! !.!! !! !!!: ! ! ! ++{s}GlyThrGluVal***AlaCysAlaAlaGluCysGlyPro 48824 : ..............ag{T}GGTACTGAGGTCTAAGCGTGTGCTGCTGAGTGTGGACCT : 53142 214 : AspGlyAlaArgValGlnGlu{V} >>>> Target Intron 8 >>>> {al}L : 222 ||||||!.!|||:!!:!!|||{:} 2356 bp {!!}| AspGlyValArgLeuGluGlu{I}++ ++{le}L 53143 : GATGGCGTCAGGCTGGAGGAG{A}gt.........................ag{tt}c : 55525 223 : euSerGluIleThr >>>> Target Intron 9 >>>> AsnGlnLysThrVal : 231 || ... 15662 bp |||||| euTrpSerPro***++ -+AsnGln***CysHis 55526 : tttggtctccttaggt.........................tgaaccagtgatgccat : 71214 232 : ProAsnIlePheValAsnLysValHisValGlyGlyCysAspGlnThrPheGlnAlaT : 251 ||| ||| ::: ::: ...||| |||:::||||||||| ProAlaIleSerCysSerValIleProPheProSerCysLeuGlnSerPheGlnAlaS 71215 : ccggccatctcatgctctgtcatccccttcccctcctgccttcaatctttccaggcat : 71274 252 : yrGlnSerGlyLeuLeuGlnLysLeuLeuGlnGlu{A} >>>> Target Intron : 263 :::||| ...:::...... ...{|} 210 bp erArgSerPheProLysSerGlnPhePheThrSer{A}++ 71275 : caaggtcttttccaaagagtcagttctttacatca{g}gt.................. : 71313 264 : 10 >>>> {sp}LeuAlaTyrAsp{T} >>>> Target Intron 11 >>>> : 268 {||}|||..!!::.!.{ } 11464 bp ++{sp}LeuCysTrpGln{P}++ + 71314 : ........ag{AC}CTGTGTTGGCAa{c}gt..........................a : 82998 269 : {yr}AspLeuIleIleIleGlyGlyGlySerGlyGlyLeuSerCysAlaLysGluAl : 286 { !}..!! !:!::!!:!! !||| !!!!||||||! !.!!|||||| !||||| +{ro}SerProLeuLeuLeuHisGlyThrArgGlyGlyHisGlyCysAlaProGluAl 82999 : g{CC}TCCCCGCTGCTCCTTCACGGAACCAGAGGGGGTCACGGCTGTGCTCCGGAGGC : 83053 287 : aAlaIleLeuGlyLysLysVal{Me} >>>> Target Intron 12 >>>> {t : 294 | !||| !|||::: ! !{ } 4666 bp { aLeuIleArgGlyArgGlyGly{Cy}++ ++{s 83054 : TTTGATCAGAGGGCGTGGCGGC{TG}gt..........................ag{c : 87745 295 : }ValLeuAspPheVal{V} >>>> Target Intron 13 >>>> {al}ProSe : 302 }::: ||| { } 5301 bp { !}|||.. }IleArgValPheSer{S}++ ++{er}ProGl 87746 : }atcagggtcttttcc{a}gt..........................ag{GC}CCCCA : 93068 303 : rProGlnGlyThrSerTrpGlyLeu{Gl} >>>> Target Intron 14 >>>> : 311 !|||::!.!!||| !|||! ! !{ !} 452 bp nProArgSerThrLeuTrpGluThr{**}++ + 93069 : GCCCAGGAGCACCCTCTGGGAAACG{TG}gt..........................a : 93547 312 : {y}GlyThrCysValAsnValGlyCysIleProLysLys{L} >>>> Target I : 324 {!} !! !||| ! !||| !||| :!!{ } 162 +{*}ArgArgCysCysProArgGlyProCysProProGlu{A}++ 93548 : g{A}AGACGCTGCTGCCCACGAGGTCCATGCCCACCCGAG{G}gt............. : 93589 325 : ntron 15 >>>> {eu}MetHisGlnAlaAlaLeuLeuGly{Gl} >>>> Targ : 333 0 bp { !} !! ..!||||||||||||{::} ++{la}SerAspThrCysAlaLeuLeuGly{Ar}++ 93590 : .............ag{CC}TCTGACACCTGCGCCCTGCTGGGA{AG}gt......... : 95237 334 : et Intron 16 >>>> {n}AlaLeuCysAspSerArg{L} >>>> Target I : 340 371 bp {!}||| ! !!!! !{ } 2082 ++{g}AlaAlaValThrArgAla{G}++ 95238 : .................ag{G}GCCGCAGTGACCAGGGCA{G}gt............. : 95628 341 : ntron 17 >>>> {ys}PheGlyTrpGluTyrAsnGlnGlnValArgHisAsnTrp : 353 3 bp { !} !!.!|||... ||| ! ! !||| |||! ++{ly}SerAlaTrpSerMetAsnTrpThrGlnArgGlyAsnSer 95629 : .............ag{GG}AGCGCCTGGTCCATGAACTGGACACAACGGGGGAACTCC : 116487 354 : GluThrMetThr{L} >>>> Target Intron 18 >>>> {ys}AlaIleGln : 361 ! !! !{ } 5075 bp { !}!.!|||..! TrpTrpThrTrp{G}++ ++{ly}ValIleSer 116488 : TGGTGGACCTGG{G}gt..........................ag{GG}GTGATTTCA : 121586 362 : AsnHisIleSerSerLeuAsnTrpGlyTyrArgLeuSerLeuArgGluLysAlaValA : 381 !.. ! !.!!||| ! ! ||| !||||||||| !!!!:!!|||.!! ! ArgLysArgGlySerThr***SerGlySerArgLeuSerThrSerGlnLysThrSerA 121587 : AGGAAGCGAGGCTCCACGTGAAGTGGGAGCAGGTTGTCCACCAGCCAGAAAACCTCGA : 121646 382 : laTyrValAsnSerTyrGly >>>> Target Intron 19 >>>> GluPheVa : 390 !:!! !::!! !|||||| 1745 bp ! ! ! ! rgHisSerSer***TyrGly+- ++ValValGl 121647 : GGCACAGCTCCTAGTACGGGgc..........................agGTGGTGGG : 123418 391 : lGluHisHisLysIleLysAlaThrAsnLysLysGlyGlnGluThrTyrTyrThrAla : 409 !...!!. !!:!||| ! !:!!:!!:!!||||||!::! !.!! ! ! !||| ySerGlnAlaArgIleLeuTyrSerAspGlnLysGlyArgValAlaIleAlaLeuAla 123419 : CTCCCAGGCCAGGATCCTGTACTCGGACCAGAAAGGCCGTGTGGCCATCGCCCTGGCC : 123475 410 : AlaGlnPheValIleAlaThrGlyGluArgPro >>>> Target Intron 20 > : 421 !.!. !.!|||||| !||||||! ! ! 3493 bp PheAsnGlnAlaIleAlaArgGlyGluLeuLys++ 123476 : TTCAACCAAGCCATCGCCCGTGGGGAGCTCAAGgt....................... : 123513 422 : >>> ArgTyrLeuGlyIle{Gl} >>>> Target Intron 21 >>>> {n}G : 427 !:! !|||||| {:!} 6925 bp {!}| ++GlnAlaLeuGlyGln{Gl}++ ++{u}G 123514 : ...agCAGGCCCTTGGACAG{GA}gt..........................ag{G}G : 133947 428 : lyAspLysGluTyrCysIleThrSerAspAspLeuPheSerLeuProTyrCysPro : 445 ||:!!||| ! !! ! !!.! ! !|||!!!! !|||!:!|||||| lyAsnLysCysValPheSerLeuLysThrArgAlaPheCysHisProPheCysPro 133948 : GAAACAAATGTGTGTTCAGTTTGAAGACCAGGGCCTTCTGTCATCCTTTCTGCCCA : 134003 vulgar: SPP00000036_1.0 36 445 . NIVO01001699.1:subseq(4481833,134981) 3967 134003 + 129 M 29 87 S 0 1 5 0 2 I 0 3317 3 0 2 S 1 2 M 27 81 S 0 2 5 0 2 I 0 3066 3 0 2 S 1 1 M 19 57 S 0 2 5 0 2 I 0 1587 3 0 2 S 1 1 M 16 48 5 0 2 I 0 30338 3 0 2 M 25 75 5 0 2 I 0 4850 3 0 2 M 21 63 S 0 2 5 0 2 I 0 1180 3 0 2 S 1 1 M 22 66 S 0 2 5 0 2 I 0 4280 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 2352 3 0 2 S 1 2 M 5 15 5 0 2 I 0 15658 3 0 2 M 36 108 S 0 1 5 0 2 I 0 206 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 11460 3 0 2 S 1 2 M 25 75 S 0 2 5 0 2 I 0 4662 3 0 2 S 1 1 M 5 15 S 0 1 5 0 2 I 0 5297 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 448 3 0 2 S 1 1 M 12 36 S 0 1 5 0 2 I 0 1616 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 367 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 20819 3 0 2 S 1 2 M 17 51 S 0 1 5 0 2 I 0 5071 3 0 2 S 1 2 M 29 87 5 0 2 I 0 1741 3 0 2 M 33 99 5 0 2 I 0 3489 3 0 2 M 5 15 S 0 2 5 0 2 I 0 6921 3 0 2 S 1 1 M 19 57 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 3968 134003 129 + . gene_id 4 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 3968 4055 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 3968 4055 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 4056 4057 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 4056 7376 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 7375 7376 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 7377 7461 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 7377 7461 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 7462 7463 . + . intron_id 2 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 7462 10531 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 10530 10531 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 10532 10591 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 10532 10591 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 10592 10593 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 10592 12182 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 12181 12182 . + . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 12183 12231 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 12183 12231 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 12232 12233 . + . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 12232 42573 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 42572 42573 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 42574 42648 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 42574 42648 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 42649 42650 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 42649 47502 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 47501 47502 . + . intron_id 4 ; splice_site "AC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 47503 47567 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 47503 47567 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 47568 47569 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 47568 48751 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 48750 48751 . + . intron_id 5 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 48752 48820 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 48752 48820 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 48821 48822 . + . intron_id 7 ; splice_site "ct" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 48821 53104 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 53103 53104 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 53105 53166 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 53105 53166 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 53167 53168 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 53167 55522 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 55521 55522 . + . intron_id 7 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 55523 55539 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 55523 55539 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 55540 55541 . + . intron_id 9 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 55540 71201 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 71200 71201 . + . intron_id 8 ; splice_site "tg" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 71202 71310 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 71202 71310 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 71311 71312 . + . intron_id 10 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 71311 71520 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 71519 71520 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 71521 71535 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 71521 71535 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 71536 71537 . + . intron_id 11 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 71536 82999 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 82998 82999 . + . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 83000 83078 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 83000 83078 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 83079 83080 . + . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 83079 87744 . + . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 87743 87744 . + . intron_id 11 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 87745 87761 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 87745 87761 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 87762 87763 . + . intron_id 13 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 87762 93062 . + . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 93061 93062 . + . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 93063 93096 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 93063 93096 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 93097 93098 . + . intron_id 14 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 93097 93548 . + . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 93547 93548 . + . intron_id 13 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 93549 93586 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 93549 93586 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 93587 93588 . + . intron_id 15 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 93587 95206 . + . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95205 95206 . + . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95207 95234 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95207 95234 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95235 95236 . + . intron_id 16 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95235 95605 . + . intron_id 16 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95604 95605 . + . intron_id 15 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95606 95625 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95606 95625 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95626 95627 . + . intron_id 17 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95626 116448 . + . intron_id 17 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 116447 116448 . + . intron_id 16 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 116449 116502 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 116449 116502 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 116503 116504 . + . intron_id 18 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 116503 121577 . + . intron_id 18 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 121576 121577 . + . intron_id 17 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 121578 121666 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 121578 121666 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 121667 121668 . + . intron_id 19 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 121667 123411 . + . intron_id 19 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 123410 123411 . + . intron_id 18 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 123412 123510 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 123412 123510 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 123511 123512 . + . intron_id 20 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 123511 127003 . + . intron_id 20 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 127002 127003 . + . intron_id 19 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 127004 127020 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 127004 127020 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 127021 127022 . + . intron_id 21 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 127021 133945 . + . intron_id 21 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 133944 133945 . + . intron_id 20 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 133946 134003 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 133946 134003 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 3968 134003 129 + . alignment_id 4 ; Query SPP00000036_1.0 ; Align 3968 37 87 ; Align 7379 67 81 ; Align 10533 95 57 ; Align 12184 115 48 ; Align 42574 131 75 ; Align 47503 156 63 ; Align 48753 178 66 ; Align 53106 201 60 ; Align 55525 222 15 ; Align 71202 227 108 ; Align 71523 264 12 ; Align 83002 269 75 ; Align 87746 295 15 ; Align 93065 301 30 ; Align 93550 312 36 ; Align 95209 325 24 ; Align 95607 334 18 ; Align 116451 341 51 ; Align 121580 359 87 ; Align 123412 388 99 ; Align 127004 421 15 ; Align 133947 427 57 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 128 Query range: 38 -> 188 Target range: 49728 -> 130202 39 : GlyProMetThrGlyCysGlyArgAlaGlyAspProIleSerHisAlaArgGlyGlyV : 58 |||! ! ! !!|||...|||||| ! !!||| ! ||| !!.! !!|||!.! GlyArgAlaProGlyAlaGlyArgIleArgAspTrpAlaSerAlaGlyGlyGlyAlaT 49729 : GGGCGAGCGCCGGGGGCGGGGCGTATCCGGGATTGGGCGAGCGCCGGGGGCGGGGCGT : 49786 59 : alGlyGlyArgGlyGluArgLeuProArgGlyPheAlaArgValValArgValAlaSe : 77 ! !||| !|||||||||! ! !|||||| ||| !!! !! ! !! ! !!.! yrProGlyLeuGlyGluArgArgGlyArgGlyGlyAlaGlyGlyGlyAlaGluProGl 49787 : ATCCGGGATTGGGCGAGCGCCGGGGACGGGGCGGAGCCGGGGGCGGGGCAGAGCCGGG : 49843 78 : rGluGlySerValArgArgProSerGlyProValProAlaProGln{Pr} >>>> T : 93 !|||||| !!!.! !||||||||| !|||:!! !||| !! {! } yGluGlyArgAlaValArgProSerLeuProLeuGlyAlaSerThr{Ar}++ 49844 : AGAGGGGCGAGCGGTCCGGCCTTCGCTTCCACTCGGCGCCTCAACT{CG}gt...... : 49895 94 : arget Intron 1 >>>> {o}ProAlaPheArgPheValSerArgProGlyArgA : 105 50182 bp {!}|||||| ||| :!!:!! !!||||||!:! ++{g}ProAlaAlaArgGlyLeuAlaCysProGlyGlnH 49896 : ...................ag{G}CCCGCTGCACGTGGGCTGGCATGTCCTGGGCAGC : 100109 106 : laArgSerGluSerGluThrLeuGluArg >>>> Target Intron 2 >>>> : 115 !||||||! !!|||||| !|||!:! 1972 bp isArgSerGlyArgGluThrGlyGluGln+- ++ 100110 : ACCGGAGTGGCCGGGAGACTGGGGAGCAGgc.........................ag : 102109 116 : SerProProGlnSerProGlyProGlyLysAlaGlyAspAlaProAsnArgArgSerG : 134 !!! !|||:!! !||| !||||||:::!.! ! ! !!|||!.!||||||.!! ArgArgProLysValProProProGlyArgValProProProProThrArgArgGlyA 102110 : AGGAGACCAAAGGTGCCCCCACCCGGTCGCGTACCGCCTCCCCCCACCCGCCGCGGCA : 102168 135 : lyHisValArgGlyAlaArgValLeuSerProProGlyArg{A} >>>> Target : 148 !!||| !! !||| !|||!.!! !.!! !! !! !|||{|} 159 rgHisSerProGlyArgArgAlaArgGlyAlaAlaProArg{A}+- 102169 : GGCACTCACCCGGGCGCAGGGCGCGGGGCGCGGCGCCCAGG{A}gc............ : 102213 149 : Intron 3 >>>> {rg}AlaArgLeuSerSerProGlyProSerArgSerSerGlu : 161 02 bp {||}||| !:!!.!!!.!|||||| !!!:!|||!!!..! ++{rg}AlaAspValGlyLysProGlyAlaAsnArgThrGluPhe 102214 : .............ag{GG}GCCGACGTGGGGAAGCCGGGCGCCAACAGGACAGAGTTC : 118151 162 : AlaArgGluGluLeuArgArgHisLeuVal{Gl} >>>> Target Intron 4 > : 172 ! ! ...! ! !!:!|||:!!:!!{||} 11968 bp ArgTyrProSerTyrValGlnHisIleMet{Gl}++ 118152 : CGCTACCCTTCCTACGTCCAGCACATCATG{GG}gt...................... : 118188 173 : >>> {y}LeuIleGluArgSerArgValValIlePheSerLysSerTyrCysPro : 188 {|}||| !! ! !||| !!.! !:!! !||||||||| ! ||| ++{y}LeuProAlaAlaSerAlaAlaSerLeuAlaSerLysSerArgLeuPro 118189 : ...ag{T}CTTCCTGCAGCTTCAGCTGCATCTCTTGCTTCCAAGTCACGGTTGCCC : 130202 vulgar: SPP00000036_1.0 38 188 . NIVO01001699.1:subseq(4481833,134981) 49728 130202 + 128 M 54 162 S 0 2 5 0 2 I 0 50178 3 0 2 S 1 1 M 21 63 5 0 2 I 0 1968 3 0 2 M 33 99 S 0 1 5 0 2 I 0 15898 3 0 2 S 1 2 M 23 69 S 0 2 5 0 2 I 0 11964 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 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 49729 130202 128 + . gene_id 5 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 49729 49892 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 49729 49892 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 49893 49894 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 49893 100074 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 100073 100074 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 100075 100138 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 100075 100138 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 100139 100140 . + . intron_id 2 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 100139 102110 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 102109 102110 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 102111 102210 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 102111 102210 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 102211 102212 . + . intron_id 3 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 102211 118112 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 118111 118112 . + . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 118113 118185 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 118113 118185 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 118186 118187 . + . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 118186 130153 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 130152 130153 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 130154 130202 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 130154 130202 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 49729 130202 128 + . alignment_id 5 ; Query SPP00000036_1.0 ; Align 49729 39 162 ; Align 100076 94 63 ; Align 102111 115 99 ; Align 118115 149 69 ; Align 130155 173 48 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 124 Query range: 26 -> 265 Target range: 5221 -> 134014 27 : ProLeuIleLeuAspMetCysProHisLeuAsnAsn{G} >>>> Target Intro : 39 ||||||:!:|||||| |||! ! !||| .!.{|} 9401 bp ProLeuLeuLeuAspGlyCysGlnSerLeuLeuGlu{G}+- 5222 : CCGCTGCTGCTCGACGGCTGCCAGAGCCTCCTGGAG{G}gc................. : 5261 40 : n 1 >>>> {ly}ProMetThrGlyCysGlyArgAlaGlyAspPro{Il} >>>> : 51 {||}||| !!.!! ..!|||!.! !||||||{! } ++{ly}ProAlaProSerValSerArgGlyProAspPro{Th}+- 5262 : ........ag{GA}CCTGCACCCAGTGTATCCAGGGGCCCCGACCCC{AC}gg..... : 14699 52 : Target Intron 2 >>>> {e}SerHis{Al} >>>> Target Intron 3 : 54 13626 bp { }||||||{ } 1465 bp ++{r}SerHis{Ar}++ 14700 : ....................ag{G}TCACAC{AG}gt..................... : 28334 55 : >>>> {a}ArgGlyGlyValGlyGlyArgGlyGluArgLeuProArgGlyPheAlaA : 71 {!} |||||| |||||| !!..!..!||| ! !!! !! ! !.!. ++{g}GlyGlyGlyGlyGlyGlyGlyAsnSerArgAlaAlaProGluAlaGlyG 28335 : ....ag{g}ggaggaggcgggggaggAGGAAATTCGCGCGCGGCCCCAGAGGCGGGAG : 29846 72 : rgValValArgValAlaSerGluGlySerValArgArgProSerGly{Pr} >>>> : 87 .!! !! !|||! !:!!|||..!! !|||||||||..!! !||||||{||} luGlyGlyArgGlySerSerSerGluSerValArgGluGlnSerGly{Pr}+- 29847 : AAGGAGGCCGAGGGTCCAGCTCGGAGAGCGTGAGGGAGCAGAGCGGA{CC}gg..... : 29898 88 : Target Intron 4 >>>> {o}ValProAlaProGlnProProAlaPheArgPhe : 98 7067 bp {|}||| !.!! !!! !||||||!.! !||| ++{o}ValAsnThrAlaLeuProProGlyArgArgAla 29899 : ....................ag{G}GTGAACACAGCCCTGCCACCAGGACGCAGAGCA : 36994 99 : ValSerArgProGlyArgAlaArgSerGluSerGluThrLeuGluArgSerProProG : 118 ..!..!!.! !!!.!|||:!!!.! !! |||! !|||! ! ! ! !!||||||| ThrGlnAsnThrAlaArgSerHisHisAlaSerValThrProProSerArgProProG 36995 : ACACAGAACACCGCCAGGTCTCATCACGCTTCCGTGACGCCGCCATCACGCCCACCAC : 37054 119 : ln >>>> Target Intron 5 >>>> {Se} >>>> Target Intron 6 : 119 || 19671 bp {||} 766 bp ln++ ++{Se}++ 37055 : AGgt.........................ag{AG}gt..................... : 56732 120 : >>>> {r}ProGlyProGlyLysAla{G} >>>> Target Intron 7 >>>> : 126 {|}|||! !||| !! |||{|} 5324 bp ++{r}ProGluProCysProAla{G}++ + 56733 : ....ag{C}CCGGAGCCCTGCCCTGCA{G}gt.........................a : 62838 127 : {ly}AspAlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeuSerPr : 144 {||}..! !! ! ! !!..!..!||||||! ! !||| !|||! !! !! !|| +{ly}SerArgArgProGlyGluGluGlyHisGlySerGlyLeuArgGlyProIlePr 62839 : g{GA}AGCCGCCGTCCTGGGGAGGAAGGTCATGGTTCTGGACTTCGTGGTCCCATCCC : 62893 145 : oProGlyArgArgAla{Ar} >>>> Target Intron 8 >>>> {g}LeuSer : 152 |||| !!!.! !! !{ !} 27271 bp {!}! !:!! oProArgHisGlyLeu{Gl}++ ++{y}ProAla 62894 : CCCGCGGCACGGCCTG{GG}gt.........................ag{C}CCGGCC : 90188 153 : SerProGlyProSerArgSerSerGluAla{Ar} >>>> Target Intron 9 > : 163 !!!|||||||||..!! !.!! !..!:!!{||} 2840 bp ThrProGlyProGlnProGlyLeuArgSer{Ar}++ 90189 : ACTCCTGGGCCGCAGCCAGGGCTCAGGTCA{AG}gt...................... : 90225 164 : >>> {g}GluGluLeuArgArgHisLeuValGlyLeuIle >>>> Target Int : 175 {|} ! !!:!..!|||! !:!!||| !:!: 6418 ++{g}ProProAlaGlnGluHisProLeuGlyAsnVal++ 90226 : ...ag{G}CCCCCAGCCCAGGAGCACCCTCTGGGAAACGTGgt............... : 93099 176 : ron 10 >>>> GluArgSerArgValValIle{Ph} >>>> Target Intron : 182 bp ...|||||||||..!:!!|||{ } 2120 bp ++ArgArgSerArgThrLeuIle{Ar}++ 93100 : ...........agCGCAGGAGCAGAACCCTGATC{CG}gt.................. : 99540 183 : 11 >>>> {e}SerLysSerTyrCysProHisSerThrArgValLysGluLeuPhe : 197 { }||| !:!!:!! !!||| :!!:!! !!|||!..:!!:!! ++{g}SerAlaAlaHisGlyProSerAlaSerGlyValSerGlnValAla 99541 : ........ag{G}TCAGCGGCCCACGGCCCCTCGGCCTCTGGAGTGAGTCAAGTCGCA : 101701 198 : SerSerLeuGlyVal{G} >>>> Target Intron 12 >>>> {lu}CysAsn : 205 :!!..! !|||!.!{!} 7080 bp { !}||| AlaGlnAlaGlyAla{G}+- ++{ly}CysLeu 101702 : GCGCAGGCTGGAGCA{G}gc..........................ag{ga}tgtctg : 108805 206 : ValLeu{G} >>>> Target Intron 13 >>>> {lu}LeuAspGlnValAsp : 213 ...|||{!} 3420 bp { }! !..!|||:!! ! AlaLeu{G}++ ++{ly}HisSerGlnLeuLeu 108806 : gctcta{g}gt..........................ag{GT}CATTCCCAACTACTC : 112249 214 : AspGlyAlaArgValGlnGluValLeuSerGluIleThrAsnGln >>>> Target : 229 ! !! !|||:!!!:!|||!.!|||!!!.!. ! !!!!. 5 LeuGlnAspArgLeuArgGluAlaLeuCysHisGlyGlyTyrHis++ 112250 : CTCCAGGACAGACTACGAGAAGCTCTTTGCCATGGGGGTTACCATgt........... : 112299 230 : Intron 14 >>>> LysThrValProAsnIlePheValAsnLysValHisValGl : 242 847 bp ! ! !|||||| !|||:!!..! !!.!||| !|| ++AspArgValProLeuProPheLeuArgProAlaHisHisGl 112300 : ...............agGACAGAGTTCCGCTACCCTTCCTACGTCCAGCACATCATGG : 118183 243 : y >>>> Target Intron 15 >>>> GlyCysAspGlnThrPheGlnAlaTyr : 251 | 15760 bp ||| .!...! ! !!||| ! ! y++ ++GlyLysGlnMetCysValGlnPheGlu 118184 : Ggt..........................agGGGAAACAAATGTGTGTTCAGTTTGAA : 133970 252 : GlnSerGlyLeuLeuGlnLysLeuLeuGlnGluAspLeuAla : 265 .!...!|||||||||..!...!!!|||! ... !|||::! AspGlnGlyLeuLeuSerSerPheLeuProSerThrLeuSer 133971 : GACCAGGGCCTTCTGTCATCCTTTCTGCCCAGCACCCTGAGT : 134014 vulgar: SPP00000036_1.0 26 265 . NIVO01001699.1:subseq(4481833,134981) 5221 134014 + 124 M 12 36 S 0 1 5 0 2 I 0 9397 3 0 2 S 1 2 M 11 33 S 0 2 5 0 2 I 0 13622 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 1461 3 0 2 S 1 1 M 32 96 S 0 2 5 0 2 I 0 7063 3 0 2 S 1 1 M 31 93 5 0 2 I 0 19667 3 0 2 S 0 2 5 0 2 I 0 762 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 5320 3 0 2 S 1 2 M 23 69 S 0 2 5 0 2 I 0 27267 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 2836 3 0 2 S 1 1 M 11 33 5 0 2 I 0 6414 3 0 2 M 7 21 S 0 2 5 0 2 I 0 2116 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 7076 3 0 2 S 1 2 M 4 12 S 0 1 5 0 2 I 0 3416 3 0 2 S 1 2 M 20 60 5 0 2 I 0 5843 3 0 2 M 14 42 5 0 2 I 0 15756 3 0 2 M 23 69 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 5222 134014 124 + . gene_id 6 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 5222 5258 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 5222 5258 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 5259 5260 . + . intron_id 1 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 5259 14659 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 14658 14659 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 14660 14696 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 14660 14696 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 14697 14698 . + . intron_id 2 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 14697 28322 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 28321 28322 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 28323 28331 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 28323 28331 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 28332 28333 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 28332 29796 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 29795 29796 . + . intron_id 2 ; splice_site "Ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 29797 29895 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 29797 29895 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 29896 29897 . + . intron_id 4 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 29896 36962 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 36961 36962 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 36963 37056 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 36963 37056 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 37057 37058 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 37057 56727 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 56726 56727 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 56728 56729 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 56728 56729 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 56730 56731 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 56730 57495 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57494 57495 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57496 57515 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57496 57515 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57516 57517 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57516 62839 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 62838 62839 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 62840 62912 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 62840 62912 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 62913 62914 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 62913 90183 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 90182 90183 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 90184 90222 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 90184 90222 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 90223 90224 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 90223 93062 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 93061 93062 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 93063 93096 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 93063 93096 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 93097 93098 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 93097 99514 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 99513 99514 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 99515 99537 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 99515 99537 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 99538 99539 . + . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 99538 101657 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101656 101657 . + . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101658 101719 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101658 101719 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101720 101721 . + . intron_id 12 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101720 108799 . + . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 108798 108799 . + . intron_id 11 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 108800 108814 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 108800 108814 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 108815 108816 . + . intron_id 13 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 108815 112234 . + . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 112233 112234 . + . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 112235 112296 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 112235 112296 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 112297 112298 . + . intron_id 14 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 112297 118143 . + . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 118142 118143 . + . intron_id 13 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 118144 118185 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 118144 118185 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 118186 118187 . + . intron_id 15 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 118186 133945 . + . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 133944 133945 . + . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 133946 134014 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 133946 134014 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 5222 134014 124 + . alignment_id 6 ; Query SPP00000036_1.0 ; Align 5222 27 36 ; Align 14662 40 33 ; Align 28324 52 6 ; Align 29798 55 96 ; Align 36964 88 93 ; Align 57497 120 18 ; Align 62842 127 69 ; Align 90185 151 36 ; Align 93064 164 33 ; Align 99515 175 21 ; Align 101659 183 60 ; Align 108802 204 12 ; Align 112237 209 60 ; Align 118144 229 42 ; Align 133946 243 69 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 122 Query range: 11 -> 186 Target range: 9659 -> 117929 12 : ArgArgMetHisLeu >>>> Target Intron 1 >>>> ThrSerArgProVa : 21 |||||| !|||||| 7914 bp .!! !!||| !!. ArgArgArgHisLeu++ ++AlaProArgGlyAl 9660 : AGGAGACGGCACCTGgt.........................agGCCCCCAGGGGGGC : 17601 22 : lAlaSerThrHisSerPro{L} >>>> Target Intron 2 >>>> {eu}Ile : 29 ! !..!||| !!|||{:} 39411 bp {!!} aHisGlnThrAlaProPro{V}++ -+{al}Pro 17602 : CCACCAAACTGCACCACCT{G}gt.........................gg{tc}ccc : 57036 30 : LeuAspMetCysProHisLeuAsnAsn{Gl} >>>> Target Intron 3 >>>> : 39 ...... ||||||||||||::::::{||} 1756 bp PheSerSerCysProHisLeuSerSer{Gl}++ 57037 : ttctcctcctgccctcatctttccagt{gg}gt......................... : 57070 40 : {y}ProMetThr >>>> Target Intron 4 >>>> GlyCysGlyArg > : 47 {|} :!!||| 17115 bp |||||||||! ! -+{y}GluLeuThr++ ++GlyCysGlyPro++ 57071 : tg{g}gagTTGACTgt.........................agGGGTGCGGTCCTgt. : 75963 48 : >>> Target Intron 5 >>>> AlaGlyAspProIleSerHisAlaArgGlyGl : 57 3629 bp ! !||| ||| !!!!...|||||| !|| ++GluGlyArgProGlyArgArgAlaArgProGl 75964 : ........................agGAGGGCAGGCCAGGAAGGAGAGCCCGCCCAGG : 79620 58 : yValGlyGlyArgGlyGlu{A} >>>> Target Intron 6 >>>> {rg}Leu : 65 |!.!|||..!!.!.!!:!!{|} 297 bp {||} ! yAlaGlyAsnHisSerLys{A}++ ++{rg}Thr 79621 : AGCAGGCAACCACAGCAAA{A}gt.........................ag{GA}ACT : 79941 66 : ProArgGly{Ph} >>>> Target Intron 7 >>>> {e}AlaArgValValA : 74 |||!:!|||{ } 8820 bp {!}|||||| !!.!| ProLysGly{Gl}++ -+{y}AlaArgSerAlaA 79942 : CCGAAGGGA{GG}gt.........................tg{T}GCGCGCTCTGCCC : 88788 75 : rgValAlaSerGluGlySerValArgArgProSerGlyProValProAlaProGlnPr : 93 ||! !|||||| .!!||| ! !! !!|||||||||||| !||| !|||::!|| rgAspAlaSerLeuSerSerCys***CysProSerGlyProGlnProArgProArgPr 88789 : GGGACGCGTCTCTCAGTTCCTGCTGATGTCCCAGCGGCCCACAGCCCCGTCCAAGGCC : 88845 94 : oProAlaPheArgPheValSerArgProGlyArgAlaArgSerGlu >>>> Targe : 109 | !!.!.!.!.!.!.! !!!!|||||| !!||| !! !:!!.!. 3 oGlyValMetHisLeuAspCysArgProArgArg***ProAlaHis++ 88846 : AGGCGTCATGCACCTGGACTGCAGACCCAGACGTTAACCTGCCCACgt.......... : 88895 110 : t Intron 8 >>>> SerGluThrLeuGluArgSerProProGlnSerProGlyPr : 122 028 bp !! .!!! !.!.!:!.!!||||||!!.... ||||| ++ProProAlaTrpAsnGlnGlyProProHisGlnGluGlyPr 88896 : ...............agCCCCCCGCCTGGAACCAGGGCCCCCCACAccaggaggggcc : 91960 123 : oGlyLysAlaGlyAspAlaProAsnArgArgSerGlyHisValArgGlyAlaArgVal : 141 ||||::: !! !:!! !!..!!:! !!..!!.! !!! ! !! !||| ! ! oGlyArgArgLeuAlaSerAlaArgLysCysGluAlaAspGlyAspValAlaAla*** 91961 : tggcaggcggCTGGCCTCAGCTCGCAAATGTGAGGCGGACGGTGATGTGGCTGCATGA : 92017 142 : LeuSerProProGlyArgArgAlaArgLeuSerSer >>>> Target Intron 9 : 154 ! !!|||! !|||||| !!|||||| ! !!..! 13598 bp AlaProProLeuGlyArgGlyAlaArgGluProGlu++ 92018 : GCGCCGCCACTGGGGCGAGGGGCTCGCGAGCCCGAGgt.................... : 92058 155 : >>>> ProGlyProSerArgSerSerGluAlaArgGlu{Gl} >>>> Target : 165 !!|||||| ! !|||:!! !.!|||...{..} 121 ++SerGlyProLeuAlaSerAlaProValArgSer{Se}++ 92059 : .....agTCAGGACCCCTGGCCTCAGCCCCCGTGAGGAGC{AG}gt............ : 105691 166 : Intron 10 >>>> {u}LeuArgArgHisLeuValGlyLeuIleGluArgSerArg : 178 77 bp {.}||||||||||||:!! !!.!:!!! !..!! !:!!||| ++{r}LeuArgArgHisValSerAlaIleAsnArgLeuAlaArg 105692 : ..............ag{C}CTGCGGAGGCACGTGTCAGCCATCAACAGGCTGGCCCGG : 117903 179 : ValValIlePheSerLysSerTyr : 186 ! ! !.!!|||! ! !..!||| GluHisPhePhePheTrpAspTyr 117904 : GAGCACTTCTTCTTTTGGGACTAT : 117929 vulgar: SPP00000036_1.0 11 186 . NIVO01001699.1:subseq(4481833,134981) 9659 117929 + 122 M 5 15 5 0 2 I 0 7910 3 0 2 M 11 33 S 0 1 5 0 2 I 0 39407 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 1752 3 0 2 S 1 1 M 3 9 5 0 2 I 0 17111 3 0 2 M 4 12 5 0 2 I 0 3625 3 0 2 M 17 51 S 0 1 5 0 2 I 0 293 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 8816 3 0 2 S 1 1 M 39 117 5 0 2 I 0 3024 3 0 2 M 45 135 5 0 2 I 0 13594 3 0 2 M 11 33 S 0 2 5 0 2 I 0 12173 3 0 2 S 1 1 M 21 63 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 9660 117929 122 + . gene_id 7 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 9660 9674 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 9660 9674 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 9675 9676 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 9675 17588 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 17587 17588 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17589 17622 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17589 17622 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17623 17624 . + . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17623 57033 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57032 57033 . + . intron_id 1 ; splice_site "gg" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57034 57067 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57034 57067 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57068 57069 . + . intron_id 3 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57068 58823 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 58822 58823 . + . intron_id 2 ; splice_site "tg" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 58824 58833 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 58824 58833 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 58834 58835 . + . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 58834 75948 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 75947 75948 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 75949 75960 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 75949 75960 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 75961 75962 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 75961 79589 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 79588 79589 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 79590 79641 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 79590 79641 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 79642 79643 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 79642 79938 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 79937 79938 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 79939 79954 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 79939 79954 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 79955 79956 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 79955 88774 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 88773 88774 . + . intron_id 6 ; splice_site "TG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 88775 88892 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 88775 88892 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 88893 88894 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 88893 91920 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 91919 91920 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 91921 92055 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 91921 92055 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 92056 92057 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 92056 105653 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 105652 105653 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 105654 105688 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 105654 105688 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 105689 105690 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 105689 117865 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 117864 117865 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 117866 117929 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 117866 117929 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 9660 117929 122 + . alignment_id 7 ; Query SPP00000036_1.0 ; Align 9660 12 15 ; Align 17589 17 33 ; Align 57036 29 30 ; Align 58825 40 9 ; Align 75949 43 12 ; Align 79590 47 51 ; Align 79941 65 12 ; Align 88776 70 117 ; Align 91921 109 135 ; Align 105654 154 33 ; Align 117867 166 63 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 113 Query range: 44 -> 259 Target range: 8289 -> 132797 45 : GlyArgAlaGlyAspProIleSerHisAlaArgGlyGlyVal{G} >>>> Target : 59 ||| !|||! !! ! !:!!||||||! !!.!|||!.!{|} 87 GlyAspAlaAspAlaGlyAlaAlaHisAlaThrAlaGlyAla{G}+- 8290 : GGAGACGCAGATGCAGGCGCAGCTCACGCAACTGCTGGGGCA{G}gc........... : 8335 60 : Intron 1 >>>> {ly}GlyArgGlyGluArgLeuProArgGlyPhe >>>> T : 70 34 bp {||} !..!|||... !||||||||||||!:: ++{ly}MetGluGlyArgAlaLeuProArgGlyTrp++ 8336 : ..............ag{GG}ATGGAAGGACGCGCGCTGCCTCGGGGCTGGgt...... : 17101 71 : arget Intron 2 >>>> AlaArgValValArgValAlaSer{G} >>>> Tar : 78 2760 bp ::!|||!.! !|||..! !..!{!} ++SerArgAlaCysArgThrTrpAsp{V}++ 17102 : ...................agAGCAGAGCCTGCAGGACCTGGGAT{G}gt........ : 19886 79 : get Intron 3 >>>> {lu}GlySerValArgArgProSerGlyProValProAl : 90 28198 bp { !}|||...... :::|||||| |||::: :: ++{al}GlyAspAlaIleGlnProSerHisProLeuLeuSe 19887 : .................ag{tg}ggtgatgccatccaaccatctcatcctctgttgtc : 48117 91 : aProGlnProProAlaPheArgPheValSerArgProGlyArgAlaArgSerGluSer : 109 :|||...||||||||||||...... ...... ||| ::: ||| rProSerProProAlaPheAsnLeuSerGlnHisGlnGlyPheLeuLys***ValSer 48118 : cccttctcctcctgccttcaatctttcccagcatcagggttttttaaaatgagtcagc : 48174 110 : GluThrLeuGlu >>>> Target Intron 4 >>>> {Ar} >>>> Target : 114 ...::: ::: 8539 bp {!!} 36 SerSerSerGln++ ++{Se}++ 48175 : tcttcaagtcaggt.........................ag{AG}gt........... : 56732 115 : Intron 5 >>>> {g}SerProProGlnSerProGlyPro >>>> Target I : 123 65 bp {!}|||||| !!:!!:!! !!|||||| 2374 ++{r}SerProAlaLysAlaThrGlyPro++ 56733 : ..............ag{C}TCTCCTGCCAAGGCCACTGGCCCTgt............. : 60422 124 : ntron 6 >>>> GlyLysAlaGlyAspAlaProAsnArgArgSerGlyHisValAr : 137 bp ||||||!.!|||!!: ! !!!.. !! !!!!! ! !! ++GlyLysValGlyGluMetThrArgSerProCysValLeuPheAl 60423 : ............agGGCAAGGTCGGGGAAATGACGAGGTCTCCGTGTGTCTTGTTCGC : 62836 138 : gGlyAlaArgValLeuSerProProGlyArgArgAlaArgLeuSerSerProGlyPro : 156 !|||::!||| !! !.!! ! !|||!.! !!:!! !!||| !!.!!||| !||| aGlySerArgArgProGlyGluGluGlyHisGlySerGlyLeuArgGlyProIlePro 62837 : AGGAAGCCGCCGTCCTGGGGAGGAAGGTCATGGTTCTGGACTTCGTGGTCCCATCCCC : 62893 157 : SerArgSerSerGlu{Al} >>>> Target Intron 7 >>>> {a}ArgGlu{ : 165 !!||| !.!! !{!.} 3748 bp {!}||||||{ ProArgHisGlyLeu{Gl}++ ++{y}ArgGlu{ 62894 : CCGCGGCACGGCCTG{GG}gt.........................ag{G}CGGGAG{ : 66668 166 : G} >>>> Target Intron 8 >>>> {lu}LeuArgArgHisLeuValGlyLe : 173 !} 25550 bp { }||||||! !|||! ! ! !!:! A}++ ++{la}LeuArgLeuHisSerGlnArgVa 66669 : G}gt.........................ag{CC}CTGCGACTGCACTCCCAGCGCGT : 92242 174 : uIleGluArgSerArgValValIlePheSerLysSerTyrCysProHisSerThrArg : 192 ! !:!!|||!:!|||! !..! ! ! ..!||| !! ||| !||| !! !!:! lGlnGlnArgAsnArgAspThrCysValGlnLysProValCysGluHisProTrpGln 92243 : GCAACAGAGAAATAGGGACACATGTGTGCAGAAACCTGTGTGTGAACATCCATGGCAG : 92299 193 : ValLysGluLeuPheSerSerLeuGlyValGluCysAsnValLeuGluLeu >>>> : 210 :!! ! ..!! !! !!|||||||||!.! ! ! ! !||| ! LeuTyrSerCys***ProSerLeuGlyAlaProGlyAlaProGlyGluThr++ 92300 : CTTTATTCATGCTGACCCAGCCTGGGGGCTCCCGGGGCCCCGGGGGAGACGgt..... : 92355 211 : Target Intron 9 >>>> AspGlnValAspAspGlyAlaArgValGlnGlu > : 221 3851 bp ! ! |||! ! !!||||||||||||:!! ++GlyProValAlaAlaCysAlaArgValGlnGln++ 92356 : ....................agGGGCCCGTCGCGGCGTGTGCGCGGGTCCAGCAGgt. : 96239 222 : >>> Target Intron 10 >>>> ValLeuSerGluIleThrAsnGlnLysThrV : 231 15998 bp |||:!! !!.!. !:!!::!::!! ! ! ++ValIleProAsnTyrSerSerArgThrAspT 96240 : .........................agGTCATTCCCAACTACTCCTCCAGGACAGACT : 112265 232 : alProAsnIlePheValAsnLysValHis{Va} >>>> Target Intron 11 > : 241 ! !!!.:!!|||!.!! !||| !{:!} 15115 bp yrGluLysLeuPheAlaMetGlyValThr{Il}++ 112266 : ACGAGAAGCTCTTTGCCATGGGGGTTACC{AT}gt....................... : 112299 242 : >>> {l}GlyGlyCysAspGlnThr{P} >>>> Target Intron 12 >>>> : 248 {!} !||||||! :!! !{ } 5331 bp ++{e}HisGlyCysAlaGluLeu{H}++ + 112300 : ...ag{A}CATGGCTGTGCAGAACTT{C}gt..........................a : 132761 249 : {he}GlnAlaTyrGlnSerGlyLeuLeuGlnLysLeu : 259 { !}|||||| ::!..!|||! !|||! ..!||| +{is}GlnAlaAlaArgGlnGlyProLeuLeuSerLeu 132762 : g{ac}caggCAGCGAGGCAGGGCCCTCTGCTCTCACTA : 132797 vulgar: SPP00000036_1.0 44 259 . NIVO01001699.1:subseq(4481833,134981) 8289 132797 + 113 M 14 42 S 0 1 5 0 2 I 0 8730 3 0 2 S 1 2 M 10 30 5 0 2 I 0 2756 3 0 2 M 8 24 S 0 1 5 0 2 I 0 28194 3 0 2 S 1 2 M 35 105 5 0 2 I 0 8535 3 0 2 S 0 2 5 0 2 I 0 3661 3 0 2 S 1 1 M 8 24 5 0 2 I 0 2370 3 0 2 M 39 117 S 0 2 5 0 2 I 0 3744 3 0 2 S 1 1 M 2 6 S 0 1 5 0 2 I 0 25546 3 0 2 S 1 2 M 44 132 5 0 2 I 0 3847 3 0 2 M 11 33 5 0 2 I 0 15994 3 0 2 M 20 60 S 0 2 5 0 2 I 0 15111 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 5327 3 0 2 S 1 2 M 11 33 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 8290 132797 113 + . gene_id 8 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 8290 8332 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 8290 8332 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 8333 8334 . + . intron_id 1 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 8333 17066 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 17065 17066 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17067 17098 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17067 17098 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17099 17100 . + . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17099 19858 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 19857 19858 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 19859 19883 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 19859 19883 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 19884 19885 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 19884 48081 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 48080 48081 . + . intron_id 2 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 48082 48188 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 48082 48188 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 48189 48190 . + . intron_id 4 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 48189 56727 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 56726 56727 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 56728 56729 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 56728 56729 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 56730 56731 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 56730 60394 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 60393 60394 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 60395 60419 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 60395 60419 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 60420 60421 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 60420 62793 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 62792 62793 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 62794 62912 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 62794 62912 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 62913 62914 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 62913 66660 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 66659 66660 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 66661 66668 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 66661 66668 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 66669 66670 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 66669 92218 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 92217 92218 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 92219 92352 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 92219 92352 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 92353 92354 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 92353 96203 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96202 96203 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96204 96236 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96204 96236 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96237 96238 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96237 112234 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 112233 112234 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 112235 112296 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 112235 112296 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 112297 112298 . + . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 112297 127411 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 127410 127411 . + . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 127412 127431 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 127412 127431 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 127432 127433 . + . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 127432 132762 . + . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 132761 132762 . + . intron_id 11 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 132763 132797 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 132763 132797 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 8290 132797 113 + . alignment_id 8 ; Query SPP00000036_1.0 ; Align 8290 45 42 ; Align 17069 60 30 ; Align 19859 70 24 ; Align 48084 79 105 ; Align 60396 115 24 ; Align 62794 123 117 ; Align 66662 163 6 ; Align 92221 166 132 ; Align 96204 210 33 ; Align 112235 221 60 ; Align 127413 242 18 ; Align 132765 249 33 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 112 Query range: 4 -> 158 Target range: 21242 -> 134761 5 : HisArgLeuValSerGlyLysArgArgMetHisLeuThrSerArgProValAlaSerT : 24 !.!|||:!!:!!.!!!.! !||||||! |||||| !||| !! ! !!.!!!!! ArgArgValLeuGlyAlaProArgArgThrHisLeuGluSerValArgProGlyThrS 21243 : CGTCGTGTTCTGGGAGCACCGAGGAGAACCCACCTGGAAAGTGTCCGGCCTGGGACCA : 21300 25 : hrHisSerProLeuIleLeuAspMetCysProHisLeuAsnAsn{G} >>>> Targ : 39 :! !..! !! !:!:! !||| |||...! !..!!..{.} erThrGlnAlaThrLeuProAspSerThrProArgArgGlyThr{A}++ 21301 : GCACCCAAGCCACACTGCCAGACTCCACACCCAGACGCGGCACA{A}gt......... : 21348 40 : et Intron 1 >>>> {ly}ProMetThrGlyCysGly{Ar} >>>> Target : 46 44272 bp {.!}||| !.!!|||||||||{||} 179 ++{sn}ProGlyAlaGlyCysGly{Ar}+- 21349 : ................ag{AT}CCGGGGGCCGGCTGTGGG{AG}gg............ : 65642 47 : Intron 2 >>>> {g}AlaGlyAspProIleSerHisAlaArgGlyGlyVal >> : 59 99 bp {|}|||||| !:!! !! ||||||.!! !!||| ++{g}AlaGlyThrAspValProSerAlaArgSerArgVal++ 65643 : .............ag{G}GCTGGCACAGACGTTCCGTCGGCAAGGAGCAGGGTTgt.. : 83678 60 : >> Target Intron 3 >>>> GlyGlyArgGlyGluArgLeuProArgGlyPhe : 69 4544 bp ! !|||||| !:!!||| !||| !|||.!! ++AspGlyArgThrGlnArgGluProAlaGlyLeu 83679 : .......................agGATGGTCGCACCCAGCGAGAGCCAGCAGGTCTC : 88250 70 : AlaArgValValArgVal >>>> Target Intron 4 >>>> AlaSerGluGl : 79 !|||..!!.!|||! ! 2428 bp !.!:!!:!! ***ArgThrAlaArgGlu+- ++GlyAlaGlnPr 88251 : TGAAGGACTGCACGTGAGgc.........................agGGGGCCCAGCC : 90708 80 : ySerValArgArgProSerGlyPro{V} >>>> Target Intron 5 >>>> { : 88 !||| !!:!|||||| !!||||||{|} 106 bp { oSerHisGlnArgProProGlyPro{V}++ ++{ 90709 : CTCACATCAGCGTCCCCCCGGGCCA{G}gt.........................ag{ : 90842 89 : al}ProAlaProGlnProProAlaPheArgPheValSerArgProGlyArgAla >> : 106 ||}! ! !|||::!||||||.!! ||| !! !!!!! !|||||||||||| al}HisArgProArgProProThrGluArgValHisArgProProGlyArgAla++ 90843 : TA}CACAGGCCCAGGCCCCCGACCGAGAGGGTCCACAGGCCACCCGGGCGGGCTgt.. : 90897 107 : >> Target Intron 6 >>>> ArgSerGluSerGluThr{Le} >>>> Targ : 112 4711 bp !! !!.....!:!! !{ } ++GlyArgSerAspGlnGly{Ar}++ 90898 : .......................agGGCCGCAGTGACCAGGGC{AG}gt......... : 95628 113 : et Intron 7 >>>> {u}GluArgSerPro >>>> Target Intron 8 >> : 117 22325 bp {!} |||...||| 13842 bp ++{g}ProArgGluPro++ 95629 : ................ag{g}cccagagagccggt....................... : 117966 118 : >> ProGlnSerProGlyProGlyLysAlaGlyAspAlaProAsnArgArgSerGly : 134 ||| !||| !!|||||||||:!!..!!.! !:!!||| !! !!! !! !! ! ++ProValSerThrGlyProGlyGlnCysAlaProSerProTyrCysLeuPheVal 117967 : ..agCCTGTGTCCACGGGGCCTGGGCAGTGCGCCCCTTCCCCATACTGCCTCTTTGTG : 131857 135 : HisValArgGlyAlaArg{V} >>>> Target Intron 9 >>>> {al}LeuS : 143 |||:!!|||!.! !! !{ } 2830 bp { !} ! HisLeuArgAlaGlnPro{S}++ ++{er}SerP 131858 : CATCTGAGAGCACAGCCG{T}gt.........................ag{CC}AGCC : 134714 144 : erProProGlyArgArgAlaArgLeuSerSerProGlyProSerArg : 158 !! !! !||||||||||||! !! !!!!!!!||||||! !|||||| roSerGlnGlyArgArgAlaProCysCysCysProGlyLeuSerArg 134715 : CAAGCCAGGGCAGGAGGGCTCCGTGCTGTTGCCCTGGGCTTTCCAGA : 134761 vulgar: SPP00000036_1.0 4 158 . NIVO01001699.1:subseq(4481833,134981) 21242 134761 + 112 M 34 102 S 0 1 5 0 2 I 0 44268 3 0 2 S 1 2 M 6 18 S 0 2 5 0 2 I 0 17995 3 0 2 S 1 1 M 12 36 5 0 2 I 0 4540 3 0 2 M 17 51 5 0 2 I 0 2424 3 0 2 M 12 36 S 0 1 5 0 2 I 0 102 3 0 2 S 1 2 M 17 51 5 0 2 I 0 4707 3 0 2 M 6 18 S 0 2 5 0 2 I 0 22321 3 0 2 S 1 1 M 4 12 5 0 2 I 0 13838 3 0 2 M 24 72 S 0 1 5 0 2 I 0 2826 3 0 2 S 1 2 M 17 51 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 21243 134761 112 + . gene_id 9 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 21243 21345 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 21243 21345 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 21346 21347 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 21346 65617 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 65616 65617 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 65618 65639 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 65618 65639 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 65640 65641 . + . intron_id 2 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 65640 83638 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 83637 83638 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 83639 83675 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 83639 83675 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 83676 83677 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 83676 88219 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 88218 88219 . + . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 88220 88270 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 88220 88270 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 88271 88272 . + . intron_id 4 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 88271 90698 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 90697 90698 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 90699 90735 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 90699 90735 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 90736 90737 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 90736 90841 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 90840 90841 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 90842 90894 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 90842 90894 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 90895 90896 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 90895 95605 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95604 95605 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95606 95625 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95606 95625 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95626 95627 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95626 117950 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 117949 117950 . + . intron_id 6 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 117951 117963 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 117951 117963 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 117964 117965 . + . intron_id 8 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 117964 131805 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 131804 131805 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 131806 131878 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 131806 131878 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 131879 131880 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 131879 134708 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 134707 134708 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 134709 134761 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 134709 134761 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 21243 134761 112 + . alignment_id 9 ; Query SPP00000036_1.0 ; Align 21243 5 102 ; Align 65620 40 18 ; Align 83640 47 36 ; Align 88220 59 51 ; Align 90699 76 36 ; Align 90844 89 51 ; Align 95606 106 18 ; Align 117952 113 12 ; Align 131806 117 72 ; Align 134711 142 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 109 Query range: 2 -> 193 Target range: 11144 -> 131755 3 : HisValHisArgLeuValSerGlyLysArgArgMetHisLeuThrSerArg{P} >> : 20 |||:!!|||! !!!! ! !|||:::|||||| ! ! ! !!! ! !{ } HisLeuHisThrPheProHisGlyArgArgArgAlaProArgProLeuAla{G}++ 11145 : CATCTGCACACGTTTCCCCACGGCCGTCGGAGGGCTCCGCGGCCCTTGGCG{G}gt.. : 11199 21 : >> Target Intron 1 >>>> {ro}ValAlaSerThrHisSerProLeuIleLe : 30 3627 bp { !}|||..! !:!: ||||||:::::: ++{ly}ValCysLeuSerAlaSerProValLeuTr 11200 : .......................ag{GA}GTCTGTCTCTCtgcttccccagtcctgtg : 14853 31 : uAspMet{C} >>>> Target Intron 2 >>>> {ys}ProHisLeuAsnAsn : 38 :::{|} 2726 bp {||}|||!!. !..! pLysLeu{C}++ ++{ys}ProGlnGlyGlyPro 14854 : gaagctC{T}gt.........................ag{GC}CCCCAGGGGGGCCCA : 17603 39 : GlyProMetThrGly{Cy} >>>> Target Intron 3 >>>> {s}GlyArgA : 47 ! ! ||| !{||} 13493 bp {|}..!..!! ProAsnCysThrThr{Cy}++ +-{s}SerGluV 17604 : CCAAACTGCACCACC{TG}gt.........................at{C}TCTGAGG : 31123 48 : laGlyAspProIleSerHisAlaArgGlyGlyValGlyGlyArg{Gl} >>>> Tar : 62 .!||| ||| !..! !|||||| ! ! !||||||! !{||} alGlyLeuProAlaGlnSerAlaArgPheProArgGlyGlyLeu{Gl}-+ 31124 : TCGGCCTGCCCGCTCAGAGCGCGCGCTTCCCACGTGGAGGACTC{GG}ct........ : 31172 63 : get Intron 4 >>>> {y}GluArgLeuProArgGlyPheAlaArgValValArg : 74 17322 bp {|}|||:::::: ...||| ...||| +-{y}GluGlnValSerPheAsnPheMetAlaAlaValThr 31173 : .................aa{g}gagcaagtgtcttttaatttcatggctgcagtcacc : 48526 75 : ValAla{S} >>>> Target Intron 5 >>>> {er}GluGlySerValArgA : 83 :::...{|} 33334 bp {||}! |||||| ! !! IleCys{S}++ ++{er}GlyGlySerSerAlaP 48527 : atctgc{a}gt.........................ag{GT}GGTGGCAGCTCAGCCC : 81887 84 : rgProSerGlyProValProAlaProGlnProProAlaPheArg{Ph} >>>> Tar : 98 !||||||||||||..! !!! !|||!::|||||||||! !! !{.!} roProSerGlyProThrSerGluProArgProProAlaSerThr{Il}++ 81888 : CGCCCTCAGGACCCACTTCTGAGCCCCGTCCTCCTGCTTCCACC{At}gt........ : 81936 99 : get Intron 6 >>>> {e}ValSerArgProGlyArgAlaArgSerGlu{Se} : 109 11814 bp {.}:!!|||! !||||||! ! !!! !:!! !{!!} ++{e}LeuSerProProGlyProProProAlaLeu{Th}++ 81937 : .................ag{A}CTCTCTCCACCCGGCCCACCACCTGCACTG{AC}gt : 93781 110 : >>>> Target Intron 7 >>>> {r}GluThrLeuGluArgSer{P} >>>> : 116 1825 bp {!}! .!!:!! |||:!!{ } ++{r}AlaAlaValThrArgAla{G}++ 93782 : .........................ag{G}GCCGCAGTGACCAGGGCA{G}gt..... : 95628 117 : Target Intron 8 >>>> {ro}ProGlnSerProGlyProGlyLysAlaGlyAs : 127 1019 bp { !}|||!:!:!! !!!.! !!.! |||||| ++{ly}ProArgAlaAlaAlaAspAlaAlaAlaGlyCy 95629 : ....................ag{GT}CCTCGGGCCGCAGCAGACGCTGCCGCCGGGTG : 96677 128 : pAlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeuSerProProGly : 146 !!.! !..!||||||.!!!.! !.!! !!.!||| !! ! ! !!! !||| !! sGlyGlyArgArgArgGlyAlaAlaAlaLeuAlaAlaAlaGlyAlaProArgProArg 96678 : TGGCGGCCGCAGGCGCGGCGCAGCAGCTCTCGCCGCTGCCGGTGCACCTCGGCCAAGG : 96734 147 : ArgArgAlaArgLeuSerSerProGlyProSerArgSerSer{Gl} >>>> Targe : 161 |||!!!||| !!! !:!!.!!||||||||| !!|||..! !!{! } 8 ArgSerAlaGlyProAlaGlyProGlyProArgArgGluPro{Gl}++ 96735 : CGGAGCGCGGGCCCTGCGGGGCCAGGGCCACGGAGGGAGCCC{GG}gt.......... : 96783 162 : t Intron 9 >>>> {u}AlaArgGluGluLeu >>>> Target Intron 10 : 167 892 bp { } !!|||||||||! ! 23674 bp ++{y}ProArgGluGluGln++ 96784 : ...............ag{C}CCCCGTGAGGAGCAGgt..................... : 105691 168 : >>>> ArgArgHisLeuVal >>>> Target Intron 11 >>>> GlyLeu : 173 ||||||:::::: 1879 bp |||||| ++ArgArgAsnIleGln-+ ++GlyLeu 105692 : .....agAGAAGAAacatacagat..........................agGGACTC : 131260 174 : Ile{G} >>>> Target Intron 12 >>>> {lu}ArgSerArgValValIle : 181 !!:{|} 433 bp {||}|||||| !!.!:!!:!: Met{G}-+ ++{lu}ArgSerAlaAlaLeuLeu 131261 : ATG{G}ct..........................ag{AA}AGGTCTGCGGCCCTCCTG : 131717 182 : PheSerLysSerTyrCysProHisSerThrArgVal : 193 .!. !:!!! ! !||| !!!!.!!|||||| LeuLeuGlnTyrLeuProProAlaThrAlaArgVal 131718 : CTGCTGCAGTATCTACCCCCAGCCACTGCCAGGGTG : 131755 vulgar: SPP00000036_1.0 2 193 . NIVO01001699.1:subseq(4481833,134981) 11144 131755 + 109 M 17 51 S 0 1 5 0 2 I 0 3623 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 2722 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 13489 3 0 2 S 1 1 M 17 51 S 0 2 5 0 2 I 0 17318 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 33330 3 0 2 S 1 2 M 20 60 S 0 2 5 0 2 I 0 11810 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 1821 3 0 2 S 1 1 M 6 18 S 0 1 5 0 2 I 0 1015 3 0 2 S 1 2 M 44 132 S 0 2 5 0 2 I 0 8888 3 0 2 S 1 1 M 5 15 5 0 2 I 0 23670 3 0 2 M 5 15 5 0 2 I 0 1875 3 0 2 M 3 9 S 0 1 5 0 2 I 0 429 3 0 2 S 1 2 M 18 54 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 11145 131755 109 + . gene_id 10 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 11145 11196 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 11145 11196 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 11197 11198 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 11197 14823 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 14822 14823 . + . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 14824 14862 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 14824 14862 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 14863 14864 . + . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 14863 17588 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 17587 17588 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17589 17622 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17589 17622 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17623 17624 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17623 31115 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 31114 31115 . + . intron_id 2 ; splice_site "AT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 31116 31169 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 31116 31169 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 31170 31171 . + . intron_id 4 ; splice_site "CT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 31170 48491 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 48490 48491 . + . intron_id 3 ; splice_site "aa" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 48492 48535 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 48492 48535 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 48536 48537 . + . intron_id 5 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 48536 81869 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 81868 81869 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 81870 81933 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 81870 81933 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 81934 81935 . + . intron_id 6 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 81934 93747 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 93746 93747 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 93748 93780 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 93748 93780 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 93781 93782 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 93781 95605 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95604 95605 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95606 95625 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95606 95625 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95626 95627 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95626 96644 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96643 96644 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96645 96780 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96645 96780 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96781 96782 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96781 105672 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 105671 105672 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 105673 105688 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 105673 105688 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 105689 105690 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 105689 129362 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 129361 129362 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 129363 129377 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 129363 129377 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 129378 129379 . + . intron_id 11 ; splice_site "at" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 129378 131256 . + . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 131255 131256 . + . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 131257 131266 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 131257 131266 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 131267 131268 . + . intron_id 12 ; splice_site "CT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 131267 131699 . + . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 131698 131699 . + . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 131700 131755 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 131700 131755 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 11145 131755 109 + . alignment_id 10 ; Query SPP00000036_1.0 ; Align 11145 3 51 ; Align 14826 21 36 ; Align 17591 34 30 ; Align 31117 45 51 ; Align 48493 63 42 ; Align 81872 78 60 ; Align 93749 99 30 ; Align 95607 110 18 ; Align 96647 117 132 ; Align 105674 162 15 ; Align 129363 167 15 ; Align 131257 172 9 ; Align 131702 176 54 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 108 Query range: 3 -> 188 Target range: 17610 -> 131815 4 : ValHisArgLeuValSerGlyLysArgArgMetHisLeuThrSerArgProValAlaS : 23 :!!|||!.!|||||||||! ! ! !!|||! |||.!!||| ! !!||||||. LeuHisHisLeuValSerGluGly***ArgArgThrLeuAlaSerPheSerValAlaG 17611 : CTGCACCACCTGGTGAGCGAGGGGTGAAGGAGAACATTGGCAAGCTTCTCAGTGGCAG : 17668 24 : erThrHisSerProLeuIleLeuAspMet >>>> Target Intron 1 >>>> : 33 !! ! !!||| ...||| ::: 14919 bp lyGlyAspSer***TyrPheLeuMetLeu++ ++ 17669 : GAGGAGATTCgtagtattttttaatgttggt.........................ag : 32615 34 : CysProHis >>>> Target Intron 2 >>>> LeuAsnAsnGlyProMetTh : 42 ||||||||| 44531 bp !....!.|||! !.!. CysProHis++ ++AlaArgGluGlyArgPheGl 32616 : tgtccccatgt.........................agGCTCGGGAGGGGCGGTTCCA : 77175 43 : rGlyCysGlyArgAlaGly{As} >>>> Target Intron 3 >>>> {p}Pro : 50 !||||||.!! !||||||{ } 10031 bp { }! ! nGlyCysSerAlaAlaGly{Le}++ ++{u}His 77176 : GGGCTGCAGCGCTGCGGGG{TT}gt.........................ag{G}CAC : 87230 51 : IleSerHisAlaArgGlyGlyValGlyGlyArgGlyGluArgLeuProArgGlyPheA : 70 ! !.!!..::!!:!||| !!..!||| !||||||! ||| ! ! !!||| ! ArgLysArgSerLysGlyArgThrGlyProArgGlyValArgAlaTrpGlyGlyGlnG 87231 : AGGAAGCGAAGTAAAGGGCGGACTGGACCTCGGGGGGTTAGGGCCTGGGGCGGTCAAG : 87290 71 : laArgValValArgValAlaSerGluGlySerValArg{Ar} >>>> Target In : 83 .!||| !! !! !||| !|||||||||!!!!.!!:!{||} 7100 lyArgGlnGlyThrValGlnSerGluGlyArgAlaGln{Ar}+- 87291 : GGCGCCAGGGCACTGTGCAGAGTGAAGGCAGAGCCCAG{AG}ga.............. : 87333 84 : tron 4 >>>> {g}ProSerGlyProValProAlaProGlnProProAlaPheArg : 97 bp {|}|||:!!!.!! ! !||||||||| ! !||||||.!.!.! ++{g}ProAlaAlaLeuProProAlaProTrpSerProAlaLeuHis 87334 : ...........ag{G}CCCGCAGCACTCCCGCCCGCCCCCTGGAGCCCCGCTCTGCAC : 94471 98 : PheValSerArgProGlyArgAlaArgSerGluSerGluThrLeuGluArgSerProP : 117 ! !!!! !!||| ! !! !!|||:!! ! !..! ! |||||| !!! ArgGlnThrGlyProLeuGlyProArgAlaLeuValMetValAlaThrArgSerSerL 94472 : CGCCAGACTGGGCCACTCGGCCCCCGGGCGCTCGTGATGGTGGCCACCAGGAGCTCCC : 94531 118 : roGlnSerPro >>>> Target Intron 5 >>>> GlyProGlyLysAlaGly : 126 !|||:!! ! 1063 bp |||! !.!! ! !||| euGlnAlaGlu++ ++GlyArgSerAspGlnGly 94532 : TCCAGGCAGAGgt.........................agGGCCGCAGTGACCAGGGC : 95621 127 : {As} >>>> Target Intron 6 >>>> {p}AlaProAsnArgArg >>>> : 133 { } 578 bp { }!.!|||:::|||||| {Ar}++ ++{g}GlyProSerArgArg++ 95622 : {AG}gt.........................ag{G}GGCCCGTCGCGGCGTgt..... : 96222 134 : Target Intron 7 >>>> SerGlyHisValArgGlyAlaArgValLeuSer{Pr : 144 9434 bp ||||||! !:!! !..!|||! !||| !|||{ ++SerGlyProLeuAlaSerAlaProValArgSer{Ar 96223 : ....................agTCAGGACCCCTGGCCTCAGCCCCCGTGAGGAGC{AG : 105687 145 : } >>>> Target Intron 8 >>>> {o}ProGlyArgArgAlaArgLeu{S} : 152 } 12634 bp {!}||||||..!|||::! !! !{ } }++ ++{g}ProGlyGluArgSerTrpLys{A}+ 105688 : }gt.........................ag{G}CCGGGGGAGAGGAGCTGGAAA{C}g : 118346 153 : >>>> Target Intron 9 >>>> {er}SerProGlyProSerArgSerSerGl : 161 6369 bp {!!}:!! !||||||..!! !!!! !! + ++{rg}AlaGlyGlyProGluProArgProPr 118347 : t.........................ag{GC}GCCGGTGGTCCTGAGCCGAGACCACC : 124741 162 : uAlaArgGluGluLeuArgArgHisLeuValGlyLeuIleGluArgSerArgValVal : 180 ! !|||:!! !! !|||!:!! !||| !||| !:!!:!!!.!! !||| !:!! o***ArgLysTrpHisArgGlnProLeuSerGlyAspLeuGlnHisLeuArgArgLeu 124742 : ATGACGTAAGTGGCACCGACAGCCCCTTTCGGGAGACCTCCAACATTTACGACGGCTC : 124798 181 : IlePheSerLys{Se} >>>> Target Intron 10 >>>> {r}TyrCysPro : 188 !.!! ! {||} 6991 bp {|} |||||| CysLeuLeuCys{Se}++ ++{r}LeuCysPro 124799 : TGCCTTCTGTGC{AG}gt..........................ag{C}CTGTGTCCA : 131813 vulgar: SPP00000036_1.0 3 188 . NIVO01001699.1:subseq(4481833,134981) 17610 131815 + 108 M 29 87 5 0 2 I 0 14915 3 0 2 M 3 9 5 0 2 I 0 44527 3 0 2 M 13 39 S 0 2 5 0 2 I 0 10027 3 0 2 S 1 1 M 33 99 S 0 2 5 0 2 I 0 7096 3 0 2 S 1 1 M 37 111 5 0 2 I 0 1059 3 0 2 M 6 18 S 0 2 5 0 2 I 0 574 3 0 2 S 1 1 M 5 15 5 0 2 I 0 9430 3 0 2 M 11 33 S 0 2 5 0 2 I 0 12630 3 0 2 S 1 1 M 7 21 S 0 1 5 0 2 I 0 6365 3 0 2 S 1 2 M 32 96 S 0 2 5 0 2 I 0 6987 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 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 17611 131815 108 + . gene_id 11 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17611 17697 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17611 17697 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17698 17699 . + . intron_id 1 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17698 32616 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 32615 32616 . + . intron_id 0 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 32617 32625 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 32617 32625 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 32626 32627 . + . intron_id 2 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 32626 77156 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 77155 77156 . + . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 77157 77197 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 77157 77197 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 77198 77199 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 77198 87228 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 87227 87228 . + . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 87229 87330 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 87229 87330 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 87331 87332 . + . intron_id 4 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 87331 94430 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 94429 94430 . + . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 94431 94542 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 94431 94542 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 94543 94544 . + . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 94543 95605 . + . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95604 95605 . + . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95606 95625 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95606 95625 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95626 95627 . + . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95626 96203 . + . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96202 96203 . + . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96204 96219 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96204 96219 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96220 96221 . + . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96220 105653 . + . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 105652 105653 . + . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 105654 105688 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 105654 105688 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 105689 105690 . + . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 105689 118322 . + . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 118321 118322 . + . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 118323 118345 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 118323 118345 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 118346 118347 . + . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 118346 124714 . + . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 124713 124714 . + . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 124715 124814 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 124715 124814 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 124815 124816 . + . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 124815 131805 . + . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 131804 131805 . + . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 131806 131815 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 131806 131815 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 17611 131815 108 + . alignment_id 11 ; Query SPP00000036_1.0 ; Align 17611 4 87 ; Align 32617 33 9 ; Align 77157 36 39 ; Align 87230 50 99 ; Align 94432 84 111 ; Align 95606 121 18 ; Align 96205 128 15 ; Align 105654 133 33 ; Align 118324 145 21 ; Align 124717 153 96 ; Align 131807 186 9 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 102 Query range: 44 -> 163 Target range: 17529 -> 97436 45 : GlyArgAlaGlyAspProIleSerHisAlaArgGlyGlyValGlyGlyArgGlyGluArg : 64 ||| !!.!||| ! ! !||| ! !!||||||:!! !!..!! ! ! ||| GlyTyrGlyGlyTrpGlyAlaLeuHisArgGlyGlyGlyLeuTrpSerProHisProArg 17530 : GGCTATGGCGGGTGGGGAGCTCTGCACAGGGGAGGTGGGCTCTGGTCTCCTCATCCCAGG : 17587 65 : LeuProArgGlyPheAlaArgValValArgValAlaSerGlu{Gl} >>>> Target : 79 ! !||| !!||| !.!!!:!:!! !!.!:!!!.!||||||{||} 393 ProProGlyGlyProThrLysLeuHisHisLeuValSerGlu{Gl}++ 17588 : CCCCCAGGGGGGCCCACCAAACTGCACCACCTGGTGAGCGAG{GG}gt............ : 17636 80 : Intron 1 >>>> {y}SerValArgArgProSerGlyProValProAlaProGlnPro : 93 69 bp {|}...... ||||||||| !!||| :::|||...||| ++{y}AspAlaValArgProSerArgProProTrpSerProSerPro 17637 : .............ag{t}gatgccgtccgaCCATCTCGTCCTccgtggtccccttctcct : 57043 94 : ProAlaPheArgPheVal >>>> Target Intron 2 >>>> SerArgProGlyA : 104 ||||||... ||| 34890 bp ... ||||||| ProAlaLeuIlePhePro++ ++GluGlyProGlyA 57044 : cctgccctcatctttccagt.........................aggaggggcctggca : 91966 105 : rgAlaArgSerGluSerGluThrLeuGluArgSer{P} >>>> Target Intron 3 : 116 || ! !:!!..!:!!...! !! !||| !..!{ } 3603 bp rgArgLeuAlaSerAlaArgLysCysGluAlaAsp{G}++ 91967 : ggcggCTGGCCTCAGCTCGCAAATGTGAGGCGGAC{G}gt.................... : 92005 117 : >>>> {ro}ProGlnSerProGlyPro >>>> Target Intron 4 >>>> Gl : 123 { !}||||||!!!||||||! ! 1688 bp !. ++{ly}ProGln***ProGlyGln++ -+Al 92006 : .....ag{GG}CCGCAGTGACCAGGGCAGgt.........................tgGC : 97314 124 : yLysAlaGlyAspAlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeuSe : 143 !!:!||||||! !!.!! !!:!! !|||!!!!.! ! !|||||| !||| !||| ! aArgAlaGlyGlyGlyArgSerProArgThrAlaGlyProArgGlyLeuArgProLeuAr 97315 : CAGAGCTGGAGGCGGCCGCAGCCCCCGGACAGCAGGTCCACGCGGGCTCCGGCCGCTGCG : 97374 144 : rProProGlyArgArgAlaArgLeuSerSerProGlyProSerArgSerSerGluAlaAr : 163 !! ! !!.! ! !!!.! !!:!! !! !|||||||||.!!|||!!!:!!...||||| gLeuGluAlaAlaTrpGlyGlyValArgLeuProGlyProGlyArgArgAlaSerAlaAr 97375 : GCTGGAGGCAGCATGGGGAGGGGTCCGCCTACCTGGTCCAGGTCGTAGAGCGTCTGCAAG : 97434 164 : g : 163 | g 97435 : G : 97436 vulgar: SPP00000036_1.0 44 163 . NIVO01001699.1:subseq(4481833,134981) 17529 97436 + 102 M 34 102 S 0 2 5 0 2 I 0 39365 3 0 2 S 1 1 M 20 60 5 0 2 I 0 34886 3 0 2 M 16 48 S 0 1 5 0 2 I 0 3599 3 0 2 S 1 2 M 6 18 5 0 2 I 0 1684 3 0 2 M 41 123 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 17530 97436 102 + . gene_id 12 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17530 17633 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17530 17633 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17634 17635 . + . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17634 57002 . + . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57001 57002 . + . intron_id 0 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57003 57063 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57003 57063 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57064 57065 . + . intron_id 2 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57064 91953 . + . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 91952 91953 . + . intron_id 1 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 91954 92002 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 91954 92002 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 92003 92004 . + . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 92003 95605 . + . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95604 95605 . + . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95606 95625 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95606 95625 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95626 95627 . + . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95626 97313 . + . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 97312 97313 . + . intron_id 3 ; splice_site "TG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 97314 97436 . + . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 97314 97436 . + . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 17530 97436 102 + . alignment_id 12 ; Query SPP00000036_1.0 ; Align 17530 45 102 ; Align 57004 80 60 ; Align 91954 100 48 ; Align 95608 117 18 ; Align 97314 123 123 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 133 Query range: 8 -> 314 Target range: 131360 -> 18674 9 : SerGlyLysArgArgMetHisLeu{Th} >>>> Target Intron 1 >>>> { : 17 |||..!:!!|||||| |||:!!{!:} 12743 bp { SerSerGluArgArgSerHisVal{Se}++ ++{ 131360 : TCCTCAGAGAGAAGGTCACATGTA{AG}gt.........................ag{ : 118591 18 : r}SerArgProValAlaSerThrHisSerPro{Le} >>>> Target Intron 2 : 28 !}||| !!|||||| !!:!!!:! .!!|||{! } 7642 bp r}SerCysProValProAlaSerSerGlyPro{Ar}++ 118590 : C}AGCTGCCCTGTCCCGGCGAGTTCAGGCCCC{CG}gt.................... : 118556 29 : >>>> {u}IleLeuAspMetCysProHisLeuAsnAsn{G} >>>> Target I : 39 {!}.!!! |||||| ::: {|} 1161 ++{g}PheProArgGlyPheProHisSerSerAla{G}++ 118555 : .....ag{C}TTCCCtcggggcttccctcatagctcagct{g}gt............. : 110882 40 : ntron 3 >>>> {ly}ProMetThrGlyCysGlyArg{A} >>>> Target In : 47 5 bp {||}|||:!:|||..! ! !|||{!} 2346 ++{ly}ProLeuThrSerProGluArg{G}++ 110881 : ............ag{GG}CCTCTAACCTCACCGGAAAGA{G}gt.............. : 99243 48 : tron 4 >>>> {la}GlyAspProIleSerHisAlaArgGlyGlyVal >>>> T : 59 bp {.!}||||||||| |||! !.!|||||||||!.! ++{ly}GlyAspPro---SerLeuGlyArgGlyGlyAla++ 99242 : ...........ag{GC}GGAGACCCC---TCCCTGGGGCGGGGCGGAGCGgt...... : 96865 60 : arget Intron 5 >>>> GlyGlyArgGlyGluArgLeuProArgGlyPheAlaA : 71 2387 bp ..!||| !!!.!|||||| ! !!|||||| ||| ++SerGlyGlyAlaGluArgGlySerArgGlyArgAlaG 96864 : ...................agTCTGGCGGTGCAGAGCGGGGCTCCAGGGGGCGGGCGG : 94444 72 : rgValValArgValAlaSerGluGly{Se} >>>> Target Intron 6 >>>> : 80 !!|||:!!|||!.! !.!!...|||{.!} 5097 bp lyValLeuArgAlaTrpGlySerGly{Gl}++ + 94443 : GAGTGCTGCGGGCCTGGGGAAGCGGC{GG}gt.........................a : 89320 81 : {r}ValArgArgProSerGlyProValProAlaProGlnProProAlaPheArgPhe : 98 {!} !|||!:! !!!!!|||! !||| ! !! ! ||| !..!||| !!.!! +{y}***ArgGlnAlaCysGlyGlnValGlyLeuHisAlaProGlyCysPheCysLeu 89319 : g{G}TGACGGCAGGCCTGTGGGCAGGTGGGGCTCCATGCTCCTGGCTGCTTCTGCCTC : 89266 99 : ValSerArgProGlyArgAlaArgSerGluSerGluThrLeuGluArgSerProProG : 118 ||| !! ! !!!.! ! !||||||.!.|||....!! !! !||| !!|||||| ValProSerAlaAlaAla***ArgSerAsnSerSerAlaGluGlyArgProProProG 89265 : GTCCCCTCCGCGGCAGCCTGACGGTCTAACAGCAGTGCTGAGGGAAGGCCTCCGCCGG : 89206 119 : lnSerProGlyPro{G} >>>> Target Intron 7 >>>> {ly}LysAlaGl : 126 !..!! !||||||{!} 4219 bp {.!} ! ! lyGluArgGlyPro{A}++ ++{la}LeuLeuAr 89205 : GAGAGCGTGGGCCG{G}gt.........................ag{CC}CTTCTGCG : 84963 127 : yAspAlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeuSer{Pr} : 144 !|||!.!! !::!|||||| !||| !!:!!!:!|||!.!..! !||| !!{ } gAspValGlnSerArgArgLeuGlyAspLeuGlnGlyGlyGluHisLeuPro{Ar}+- 84962 : TGATGTCCAGTCCCGACGCCTTGGTGATCTCCAAGGTGGTGAACACCTGCCC{AG}gg : 84907 145 : >>>> Target Intron 8 >>>> {o}ProGlyArgArgAlaArgLeuSerSerP : 154 19878 bp {!}||| !|||! !||| !!|||! !:!!| ++{g}ProProArgThrAlaCysLeuMetAlaP 84906 : .........................ag{G}CCTCCGAGAACCGCGTGTCTCATGGCCC : 65001 155 : roGlyProSerArgSerSerGluAlaArgGluGluLeuArgArgHisLeuValGly{L : 173 |||||||| !! ! ! ! !.!!:!!!: ||||||||| ! !..!|||{| roGlyProLeuLeuLeuValCysValLysAspThrLeuArgArgSerThrThrGly{L 65000 : CGGGACCCCTGCTTCTGGTTTGCGTAAAAGACACTCTCAGAAGGTCCACAACAGGC{C : 64944 174 : e} >>>> Target Intron 9 >>>> {u}IleGluArgSerArgValValIle : 181 |} 7291 bp {|} !||||||..!|||:!! ! ! e}+- ++{u}SerGluArgGlnArgLeuCysTyr 64943 : T}gc.........................ag{G}TCCGAGAGGCAGAGGCTGTGCTAC : 57629 182 : {Ph} >>>> Target Intron 10 >>>> {e}SerLysSerTyrCysProHis : 189 {!:} 16978 bp {:}..! !||| !! |||||| {Tr}++ ++{p}AspTrpSerLeuTrpProHis 57628 : {TG}gt..........................ag{G}GACTGGTCACTGTGGCCTCAT : 40627 190 : SerThrArgValLys{Gl} >>>> Target Intron 11 >>>> {u}LeuPhe : 197 ..!|||||||||!..{ } 77 bp {!} ! !! GluThrArgValSer{Th}++ ++{r}GlyVal 40626 : GAAACTAGAGTCAGC{AC}gt..........................ag{A}GGTGTC : 40526 198 : SerSerLeuGlyValGluCysAsnValLeuGluLeu{A} >>>> Target Intro : 210 |||||| !||| !..!|||!..||| !! :!!{!} 824 bp SerSerAlaGly***ArgCysArgValArgValIle{G}++ 40525 : TCATCTGCGGGCTGAAGATGCAGAGTAAGGGTTATT{G}gt................. : 40484 211 : n 12 >>>> {sp}GlnValAspAspGlyAlaArgValGlnGlu >>>> Target : 221 {!:}:!! !..!! ... ...|||::: 8 ++{lu}LysGlnSerAlaAlaProGlyAlaGlnGln++ 40483 : .........ag{AG}AAGCAAAGCGCtgccccaggggctcagcaggt........... : 39628 222 : Intron 13 >>>> ValLeuSerGluIleThrAsnGlnLysThrValProAsnIl : 234 83 bp ||||||! !..!:!!|||.!.||||||!:!! ! !...! +-ValLeu***ArgValThrGlnGlnLysSerGluGlyGlyAs 39627 : ...............atGTTCTCTAAAGAGTAACACAACAAAAGAGCGAGGGAGGAAA : 38708 235 : ePheValAsnLysVal{H} >>>> Target Intron 14 >>>> {is}ValGl : 242 |||:::...|||...{.} 3461 bp {..}:::|| nPheIleGluLysAla{A}+- ++{rg}IleGl 38707 : tttcatagagaaagca{a}ga..........................ag{gg}atcgg : 35223 243 : yGlyCysAspGlnThrPheGlnAlaTyrGln{S} >>>> Target Intron 15 : 253 | ..!! ||| ||| {.} 1644 bp yProGluSerLeuThrSerProAlaLeuAla{A}++ 35222 : acctgagTCTCtgacctctcctgcactggca{g}gt...................... : 35187 254 : >>>> {er}GlyLeuLeuGlnLysLeuLeuGlnGluAspLeuAlaTyrAspTyrAsp : 269 {.!} !:!!:!! !:! !|||||| ||| :::::: ++{sp}IleValIleValArgGluLeuGlnLeuLysLeuLysGluAsnPheLeu 35186 : ....ag{AT}ATAGTAATAGTCAGGGAATTGcaactaaaattaaaagaaaattttctt : 33498 270 : LeuIleIleIleGlyGlyGlySerGlyGlyLeuSerCysAlaLysGluAlaAlaIleL : 289 ||| !|||! !..! !|||.!!|||||||||::!|||.!. !||| ! LeuSerHisThrGlyGluAsnLeuGlySerLeuSerCysSerLysHisLysAlaSerT 33497 : ctctctcacacTGGTGAAAACCTAGGTAGCCTATCTTGCAGCAAACACAAGGCTTCCA : 33438 290 : euGlyLys >>>> Target Intron 16 >>>> LysValMetValLeuAspPh : 298 ! !!||| 6175 bp ! ! !!!: ! !|||.! hrTrpLys++ ++IleAsnIleSerLysAspLe 33437 : CTTGGAAGgt..........................agATAAACATTTCTAAAGACCT : 27236 299 : eValValProSerProGlnGlyThrSer{Tr} >>>> Target Intron 17 >> : 308 !:!! ! !! !||||||!.! !|||{||} 8511 bp uLeuTyrLeuIleProGlnAla***Ser{Tr}+- 27235 : CTTGTATTTAATCCCCCAAGCCTAGTCC{TG}ga........................ : 27202 309 : >> {p}GlyLeuGlyGlyThrCys : 314 {|}||| ! !||||||||| ++{p}GlyAlaProGlyThrCys 27201 : ..ag{G}GGAGCCCCTGGTACCTGC : 18675 vulgar: SPP00000036_1.0 8 314 . NIVO01001699.1:subseq(4481833,134981) 131360 18674 - 133 M 8 24 S 0 2 5 0 2 I 0 12739 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 7638 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 11611 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 2342 3 0 2 S 1 2 M 3 9 G 1 0 M 7 21 5 0 2 I 0 2383 3 0 2 M 21 63 S 0 2 5 0 2 I 0 5093 3 0 2 S 1 1 M 42 126 S 0 1 5 0 2 I 0 4215 3 0 2 S 1 2 M 20 60 S 0 2 5 0 2 I 0 19874 3 0 2 S 1 1 M 28 84 S 0 2 5 0 2 I 0 7287 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 16974 3 0 2 S 1 1 M 12 36 S 0 2 5 0 2 I 0 73 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 820 3 0 2 S 1 2 M 10 30 5 0 2 I 0 879 3 0 2 M 19 57 S 0 1 5 0 2 I 0 3457 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 1640 3 0 2 S 1 2 M 38 114 5 0 2 I 0 6171 3 0 2 M 16 48 S 0 2 5 0 2 I 0 8507 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 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 18675 131360 133 - . gene_id 1 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 131335 131360 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 131335 131360 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 131333 131334 . - . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 118592 131334 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 118592 118593 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 118559 118591 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 118559 118591 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 118557 118558 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 110917 118558 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 110917 110918 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 110885 110916 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 110885 110916 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 110883 110884 . - . intron_id 3 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 99270 110884 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 99270 99271 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 99246 99269 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 99246 99269 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 99244 99245 . - . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 96900 99245 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 96900 96901 . - . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 96868 96899 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 96868 96899 . - . insertions 0 ; deletions 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 96866 96867 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 94481 96867 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 94481 94482 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 94416 94480 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 94416 94480 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 94414 94415 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 89319 94415 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 89319 89320 . - . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 89191 89318 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 89191 89318 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 89189 89190 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 84972 89190 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 84972 84973 . - . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 84908 84971 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 84908 84971 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 84906 84907 . - . intron_id 8 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 65030 84907 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 65030 65031 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 64943 65029 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 64943 65029 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 64941 64942 . - . intron_id 9 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57652 64942 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57652 57653 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57625 57651 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57625 57651 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57623 57624 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 40647 57624 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 40647 40648 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 40608 40646 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 40608 40646 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 40606 40607 . - . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 40531 40607 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 40531 40532 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 40487 40530 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 40487 40530 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 40485 40486 . - . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 39663 40486 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 39663 39664 . - . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 39631 39662 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 39631 39662 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 39629 39630 . - . intron_id 13 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 38748 39630 . - . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 38748 38749 . - . intron_id 12 ; splice_site "AT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 38690 38747 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 38690 38747 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 38688 38689 . - . intron_id 14 ; splice_site "ga" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 35229 38689 . - . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 35229 35230 . - . intron_id 13 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 35190 35228 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 35190 35228 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 35188 35189 . - . intron_id 15 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 33546 35189 . - . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 33546 33547 . - . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 33430 33545 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 33430 33545 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 33428 33429 . - . intron_id 16 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 27255 33429 . - . intron_id 16 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 27255 27256 . - . intron_id 15 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 27205 27254 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 27205 27254 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 27203 27204 . - . intron_id 17 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 18694 27204 . - . intron_id 17 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 18694 18695 . - . intron_id 16 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 18675 18693 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 18675 18693 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 18675 131360 133 - . alignment_id 1 ; Query SPP00000036_1.0 ; Align 131361 9 24 ; Align 118591 18 30 ; Align 110916 29 30 ; Align 99268 40 21 ; Align 96898 48 9 ; Align 96889 52 21 ; Align 94481 59 63 ; Align 89318 81 126 ; Align 84970 124 60 ; Align 65029 145 84 ; Align 57651 174 24 ; Align 40646 183 36 ; Align 40530 196 42 ; Align 39661 211 30 ; Align 38748 221 57 ; Align 35227 241 36 ; Align 33544 254 114 ; Align 27255 292 48 ; Align 18693 309 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 128 Query range: 33 -> 318 Target range: 123463 -> 40092 34 : ProHisLeuAsnAsnGlyProMetThrGlyCysGlyArgAlaGlyAspProIleSerH : 53 |||||| ! !::!||||||! ||||||! ! !!! !!.!.!! ||| ! ! ProHisGlyLeuSerGlyProSerThrGlySerTrpProGlySerProProProValA 123463 : CCACACGGCCTTTCTGGTCCGAGTACAGGATCCTGGCCTGGGAGCCCACCACCTGTGG : 123406 54 : isAlaArgGlyGlyVal{Gl} >>>> Target Intron 1 >>>> {y}GlyAr : 61 !|||!.! !:!!{.!} 848 bp {!}|||! laArgArgAlaMetLeu{Se}+- ++{r}GlyPr 123405 : CGAGAAGGGCGATGCTC{AG}ga.........................ag{T}GGCCC : 122534 62 : gGlyGluArgLeuProArgGlyPheAlaArgValValArgVal >>>> Target I : 76 ! !!! !|||! !||| !||| ! !!!:!||||||!:!||| 1281 oTrpAlaArgTrpProValGlyThrProGlnValValGlnVal++ 122533 : CTGGGCGAGGTGGCCAGTAGGGACTCCCCAAGTTGTCCAGGTGgt............. : 122487 77 : ntron 2 >>>> AlaSerGluGlySerValArgArgProSerGlyProValProAl : 90 7 bp ! !!! !! !:!! !|||||| !|||||| !..!|||!. ++TyrProAlaGluAlaCysArgArgGlySerGlyValThrProGl 122486 : ............agTACCCGGCAGAGGCCTGCAGGCGGGGGAGTGGGGTGACACCCGG : 109630 91 : aProGln >>>> Target Intron 3 >>>> ProProAlaPheArgPheValS : 100 ! !||| 1343 bp ||| ! !!.!. !!! ! !: yCysGln+- ++ProSerProMetGlySerSerA 109629 : GTGTCAGgg.........................agCCCAGCCCCATGGGGTCCTCAG : 108257 101 : erArgProGlyArg{A} >>>> Target Intron 4 >>>> {la}ArgSerGl : 108 !!..!|||||||||{ } 5661 bp { !}||||||.. laGluProGlyArg{A}++ -+{rg}ArgSerAr 108256 : CAGAACCGGGCCGA{A}gt.........................tg{GA}CGGAGTAG : 102572 109 : uSerGluThrLeuGluArgSerProProGlnSerProGlyProGlyLysAlaGlyAsp : 127 !.!!..!.!! ! !! !||||||||| ||| |||||| !||| gGlyArgAlaAspTrpThrSerProProProHisProArgProGlyProProProAsp 102571 : GGGCCGGGCAGACTGGACTagtccacccccccacccccgccccggcccgccccCAGAC : 102515 128 : AlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeuSerProPro{G} : 146 ::! !! !! ! !||| !!.! !! !!|||!.! !|||! !!!!||||||{|} SerThrAlaLeuAlaSerProArgPheGlyGlyGlyValValTyrThrProPro{G}+ 102514 : AGCACAGCCCTTGCATCCCCGCGCTTCGGGGGTGGAGTGGTGTACACGCCGCCG{G}g : 102457 147 : >>>> Target Intron 5 >>>> {ly}ArgArgAlaArgLeuSerSerPro{G : 155 252 bp {||}|||||||||! !! ! !!:!!|||{| - -+{ly}ArgArgAlaProArgProAlaPro{G 102456 : a.........................tg{GG}CGCCGCGCCCCGCGCCCTGCGCCC{G : 102179 156 : l} >>>> Target Intron 6 >>>> {y}ProSerArgSerSerGluAlaArg : 163 |} 280 bp {|}|||!!! ! !! !||||||! ! l}++ -+{y}ProThrSerArgLeuGluAlaPro 102178 : G}gt.........................gg{C}CCCACTTCGCGCCTGGAAGCTCCC : 101875 164 : GluGluLeuArgArgHisLeuValGlyLeuIleGluArgSerArgValValIlePheS : 183 ...! ! ! ! !!.!||| !! ||||||||| !||| !.!!! ProSerProValSerThrAlaAlaGlyGlyThrLeuArgSerArgTrpValProLeuC 101874 : CCCTCCCCAGTGTCCACAGCCGCGGGTGGGACGCTCCGGTCCAGGTGGGTCCCTCTTT : 101815 184 : erLysSerTyrCysProHisSerThrArgValLysGluLeuPheSerSerLeu{Gl} : 201 !!! :!! !||| ...... |||!:!! !.!! !!!!:!!{||} ysThrAlaLeuCysThrArgLysAspSerValArgGlyThrLeuLeuArgVal{Gl}+ 101814 : GCACCGCACTTtgcaccaggaaggactctgtcAGAGGCACCCTCCTCAGGGTC{GG}g : 101759 202 : >>>> Target Intron 7 >>>> {y}ValGluCys >>>> Target Intr : 205 174 bp {|} |||||| 4147 bp + ++{y}CysGluCys++ 101758 : t.........................ag{g}tgtgagtgtgt................ : 101573 206 : on 8 >>>> AsnValLeuGluLeuAspGln >>>> Target Intron 9 >>> : 212 !..:!!! !!!:||||||||| 3551 bp ++ThrLeuTyrAspLeuAspGln++ 101572 : .........agACGCTCTACGACCTGGACCAGgt........................ : 97405 213 : > ValAspAspGlyAlaArgValGlnGluValLeuSerGluIleThrAsnGlnLysT : 230 ! ... |||:::.....!!:!||| ! !.!!||| !||| !..! ++GlySerArgGlySerGluAlaArgGluGlnSerGlyGluAspThrAlaSerAlaP 97404 : .agGggagcagaggctcagaggcCCGGGAGCAGAGTGGAGAAGACACAGCCTCAGCCC : 93802 231 : hrValProAsnIlePheValAsnLysValHis{Va} >>>> Target Intron 1 : 241 !! !|||:!! ! ! !..!:!! !...{ } 3920 bp roArgProHisAlaHisSerArgGlnCysArg{Cy}++ 93801 : CGAGGCCCCATGCCCACTCACGTCAGTGCAGG{TG}gt.................... : 93765 242 : 0 >>>> {l}GlyGlyCysAspGlnThrPheGlnAlaTyrGln >>>> Target : 253 {!} !..!||| !:!!.!! ||| !! ||| 59 ++{s}ThrSerCysProGluAlaGlyGlnProLeuGln++ 93764 : ......ag{C}ACTTCCTGCCCTGAGGCGGGGCAGCCCCtccaggt............ : 89811 254 : Intron 11 >>>> Ser{G} >>>> Target Intron 12 >>>> {ly}Le : 255 62 bp |||{|} 3509 bp {||}:! ++Ser{G}++ ++{ly}Va 89810 : ..............agAGC{G}gt..........................ag{gc}gT : 80336 256 : uLeuGlnLysLeuLeuGlnGluAspLeu >>>> Target Intron 13 >>>> : 265 !!!!|||::!:!! !..!..! !!! ! 22655 bp lPheGlnArgValGlySerSerHisArg++ ++ 80335 : TTTCCAGCGAGTTGGCTCGTCACATCGTgt..........................ag : 57653 266 : AlaTyrAspTyrAspLeuIleIleIle >>>> Target Intron 14 >>>> G : 274 !.! !!: !!: !:!::!!:!: 7650 bp | ValArgGluAlaGluAlaValLeuLeu++ ++G 57652 : GTCCGAGAGGCAGAGGCTGTGCTACTGgt..........................agg : 49974 275 : lyGlyGlySerGlyGlyLeuSerCysAlaLysGluAlaAlaIleLeuGlyLysLysVa : 293 ||||||||...|||||| ...||||||!:! |||||| ||| ! ! ::! lyGlyGlyGlyGlyGlyGlyGlyCysAlaArgThrAlaAlaSerLeuProHisArgGl 49973 : gcggcggcggcggcggcggcggctgcgccAGGACCGCGGCGTCGCTCCCGCACCGGCA : 49917 294 : lMetValLeuAspPheValValPro{Se} >>>> Target Intron 15 >>>> : 302 ! :!!! ! ! !..!|||{!!} 2292 bp nAspLeuProArgAsnGlnThrPro{Ar}-+ + 49916 : GGACCTGCCCAGAAACCAGACACCG{AG}tt..........................a : 47598 303 : {r}Pro{Gl} >>>> Target Intron 16 >>>> {n}GlyThrSerTrpGl : 309 {!}|||{::} 7455 bp {!}|||:::||| .. +{g}Pro{Ar}++ ++{g}GlySerSerLeuSe 47597 : g{G}CCA{AG}gt..........................ag{g}ggatcttccctttc : 40122 310 : yLeuGlyGlyThrCysValAsnValGly : 318 . ||||||||||||::: ||| rGlyAspGlyThrCysValSerCysGly 40121 : tggggatggaacctgcgtctcctgtggc : 40093 vulgar: SPP00000036_1.0 33 318 . NIVO01001699.1:subseq(4481833,134981) 123463 40092 - 128 M 25 75 S 0 2 5 0 2 I 0 844 3 0 2 S 1 1 M 16 48 5 0 2 I 0 12813 3 0 2 M 17 51 5 0 2 I 0 1339 3 0 2 M 12 36 S 0 1 5 0 2 I 0 5657 3 0 2 S 1 2 M 40 120 S 0 1 5 0 2 I 0 248 3 0 2 S 1 2 M 8 24 S 0 2 5 0 2 I 0 276 3 0 2 S 1 1 M 45 135 S 0 2 5 0 2 I 0 170 3 0 2 S 1 1 M 3 9 5 0 2 I 0 4143 3 0 2 M 7 21 5 0 2 I 0 3547 3 0 2 M 29 87 S 0 2 5 0 2 I 0 3916 3 0 2 S 1 1 M 11 33 5 0 2 I 0 5958 3 0 2 M 1 3 S 0 1 5 0 2 I 0 3505 3 0 2 S 1 2 M 10 30 5 0 2 I 0 22651 3 0 2 M 9 27 5 0 2 I 0 7646 3 0 2 M 28 84 S 0 2 5 0 2 I 0 2288 3 0 2 S 1 1 M 1 3 S 0 2 5 0 2 I 0 7451 3 0 2 S 1 1 M 14 42 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 40093 123463 128 - . gene_id 2 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 123387 123463 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 123387 123463 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 123385 123386 . - . intron_id 1 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 122539 123386 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 122539 122540 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 122490 122538 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 122490 122538 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 122488 122489 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 109673 122489 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 109673 109674 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 109622 109672 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 109622 109672 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 109620 109621 . - . intron_id 3 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 108279 109621 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 108279 108280 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 108242 108278 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 108242 108278 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 108240 108241 . - . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 102581 108241 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 102581 102582 . - . intron_id 3 ; splice_site "TG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 102458 102580 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 102458 102580 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 102456 102457 . - . intron_id 5 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 102206 102457 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 102206 102207 . - . intron_id 4 ; splice_site "TG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 102178 102205 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 102178 102205 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 102176 102177 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101898 102177 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101898 101899 . - . intron_id 5 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101760 101897 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101760 101897 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101758 101759 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101586 101759 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101586 101587 . - . intron_id 6 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101576 101585 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101576 101585 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101574 101575 . - . intron_id 8 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 97429 101575 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 97429 97430 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 97408 97428 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 97408 97428 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 97406 97407 . - . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 93857 97407 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 93857 93858 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 93768 93856 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 93768 93856 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 93766 93767 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 89848 93767 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 89848 89849 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 89814 89847 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 89814 89847 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 89812 89813 . - . intron_id 11 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 83852 89813 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 83852 83853 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 83848 83851 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 83848 83851 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 83846 83847 . - . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 80339 83847 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 80339 80340 . - . intron_id 11 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 80307 80338 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 80307 80338 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 80305 80306 . - . intron_id 13 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57652 80306 . - . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57652 57653 . - . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57625 57651 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57625 57651 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57623 57624 . - . intron_id 14 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 49975 57624 . - . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 49975 49976 . - . intron_id 13 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 49889 49974 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 49889 49974 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 49887 49888 . - . intron_id 15 ; splice_site "TT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 47597 49888 . - . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 47597 47598 . - . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 47591 47596 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 47591 47596 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 47589 47590 . - . intron_id 16 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 40136 47590 . - . intron_id 16 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 40136 40137 . - . intron_id 15 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 40093 40135 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 40093 40135 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 40093 123463 128 - . alignment_id 2 ; Query SPP00000036_1.0 ; Align 123464 34 75 ; Align 122538 60 48 ; Align 109673 76 51 ; Align 108279 93 36 ; Align 102579 106 120 ; Align 102204 147 24 ; Align 101897 156 135 ; Align 101585 202 9 ; Align 97429 205 21 ; Align 93857 212 87 ; Align 89847 242 33 ; Align 83852 253 3 ; Align 80337 255 30 ; Align 57652 265 27 ; Align 49975 274 84 ; Align 47596 303 3 ; Align 40135 305 42 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 126 Query range: 5 -> 194 Target range: 127504 -> 7663 6 : ArgLeuValSerGlyLysArgArgMetHisLeuThrSerArgPro{Va} >>>> Ta : 21 !.!|||:!!!!!.!!:!!|||! ! |||! !.!!.!!||||||{ } AsnLeuLeuThrSerGlnArgProArgHisCysAlaGlyArgPro{Se}++ 127504 : AACCTTCTTACCAGCCAACGCCCCCGCCATTGTGCAGGGCGACCC{AG}gt....... : 127455 22 : rget Intron 1 >>>> {l}AlaSerThrHisSerProLeu{I} >>>> Targ : 29 15317 bp {!} !!.!!|||||| !|||:!!{ } ++{r}ProGlyThrHisHisProIle{G}++ 127454 : ..................ag{C}CCCGGGACCCACCATCCCATT{G}gt......... : 112115 30 : et Intron 2 >>>> {le}LeuAspMetCysProHisLeuAsnAsnGlyPro{Me : 41 9634 bp { }:!!!!: !||| !!!.!! !....!.||||||{ -+{ly}ValGluTrpCysThrArgArgArgGluGlyPro{Gl 112114 : ................gg{GG}GTGGAGTGGTGTACACGCCGCCGGGAGGGTCCC{GG : 102448 42 : } >>>> Target Intron 3 >>>> {t}ThrGlyCysGlyArgAlaGlyAspP : 50 } 12599 bp { }|||..!||| !..!||||||.!.| }++ ++{y}ThrSerCysProGluAlaGlyGlnP 102447 : }gt.........................ag{C}ACTTCCTGCCCTGAGGCGGGGCAGC : 89822 51 : roIleSer >>>> Target Intron 4 >>>> His{A} >>>> Target I : 54 ||:::... 5962 bp !{!} 9761 roLeuGln++ ++Ser{G}++ 89821 : CCCtccaggt.........................agAGC{G}gt............. : 83845 55 : ntron 5 >>>> {la}ArgGlyGlyValGlyGlyArgGlyGluArgLeuProArg : 68 bp {.!}!:!.!!||| !.!!..!..! !.!.!:!:!!|||||| ++{ly}LysSerGlyProSerSerGluHisAsnLysValProArg+ 83844 : ............ag{GG}AAGAGCGGTCCTAGTTCAGAACACAACAAAGTACCCCGGg : 74045 69 : >>>> Target Intron 6 >>>> GlyPheAla{A} >>>> Target Intr : 71 7576 bp |||||| !!{|} 312 bp + -+GlyPhePro{A}++ 74044 : t.........................cgGGATTCCCA{A}gt................ : 66457 72 : on 7 >>>> {rg}ValValArgValAlaSerGluGlySerValArgArgProSerG : 86 {||} !!.! !!! ! !!|||..!!.!||| |||||| !|||| ++{rg}ProAlaGlyGlyProSerSerAlaSer---ArgArgGlySerG 66456 : .........ag{GG}CCAGCCGGCGGCCCCAGCTCAGCGAGC---CGACGTGGCTCTG : 66106 87 : lyProValProAlaProGlnProProAlaPheArgPheValSerArgProGlyArgAl : 105 || ! !|||:!! ! !||| !..! ! !.!.! !..!|||||||||||||| lyTrpProProSer***TrpProSerCysAlaSerLeuGlyGluArgProGlyArgAl 66105 : GATGGCCTCCGTCATAGTGGCCCAGCTGTGCCTCACTGGGGGAGAGACCGGGGCGGGC : 66049 106 : a{A} >>>> Target Intron 8 >>>> {rg}SerGluSerGluThrLeuGlu : 113 |{.} 8859 bp {.!}|||:!!..!|||||||||||| a{G}+- ++{lu}SerGlnGluGluThrLeuGlu 66048 : G{G}ga.........................ag{AG}AGCCAGGAGGAGACATTGGAG : 57166 114 : ArgSerProProGln >>>> Target Intron 9 >>>> SerProGlyProGl : 123 !.!.!!||| !!::! 10950 bp |||! !||| !|| AsnGlyProAlaArg++ ++SerArgGlyCysGl 57165 : AACGGCCCTGCCAGGgt.........................agTCGCGTGGATGTGG : 46186 124 : yLysAla{G} >>>> Target Intron 10 >>>> {ly}AspAlaProAsnAr : 131 |:!!|||{|} 3640 bp {||}! !::! !..!! yGluAla{G}++ ++{ly}GlySerGlyArgPr 46185 : GGAGGCT{G}gt..........................ag{GC}GGCAGTGGCCGCCC : 42522 132 : gArgSerGlyHisValArgGlyAlaArgValLeuSerProProGlyArg{Ar} >>> : 148 ! !!||||||!!. |||!.!|||||| !|||..!||||||||||||{||} oGlySerGlyGln---ArgAlaAlaArgProLeuGlnProProGlyArg{Ar}++ 42521 : AGGAAGCGGGCAG---CGGGCGGCGCGTCCTCTCCAGCCACCTGGGCGC{AG}gt... : 42470 149 : > Target Intron 11 >>>> {g}AlaArgLeuSerSerProGlyProSerArg : 158 17346 bp {|}|||! !! !|||||||||..! !||| ! ++{g}AlaThrProSerSerProSerPheSerAla 42469 : .......................ag{A}GCTACACCATCTTCACCATCATTCAGTGCT : 25098 159 : SerSerGlu{Al} >>>> Target Intron 12 >>>> {a}ArgGluGluLeu : 166 :!!.!!! {::} 9170 bp {!}!:!! |||:!! AlaGlyGly{Se}++ ++{r}GlnAlaGluIle 25097 : GCAGGAGGC{AG}gt..........................ag{T}CAAGCTGAGATA : 15904 167 : ArgArgHisLeuValGlyLeuIleGluArgSerArgValValIlePheSerLysSerT : 186 |||||| !||| |||||| !! !!.!! ! ! !!:!||| ! !! ArgArgPheLeuSerGlyLeuSerValLeuPheHisGlyCysAlaTyrSerAlaPheS 15903 : CGTAGGTTTCtttctggactctcagttctCTTCCACGGCTGTGCTTACTCGGCCTTCT : 15844 187 : yrCysPro >>>> Target Intron 13 >>>> HisSerThrArgValLys : 194 !|||||| 8154 bp ||| !||||||||| erCysPro++ ++GlySerPheArgValLys 15843 : CTTGCCCCgt..........................agGGGAGCTTTAGAGTGAAG : 7664 vulgar: SPP00000036_1.0 5 194 . NIVO01001699.1:subseq(4481833,134981) 127504 7663 - 126 M 15 45 S 0 2 5 0 2 I 0 15313 3 0 2 S 1 1 M 7 21 S 0 1 5 0 2 I 0 9630 3 0 2 S 1 2 M 11 33 S 0 2 5 0 2 I 0 12595 3 0 2 S 1 1 M 11 33 5 0 2 I 0 5958 3 0 2 M 1 3 S 0 1 5 0 2 I 0 9757 3 0 2 S 1 2 M 13 39 5 0 2 I 0 7572 3 0 2 M 3 9 S 0 1 5 0 2 I 0 308 3 0 2 S 1 2 M 9 27 G 1 0 M 24 72 S 0 1 5 0 2 I 0 8855 3 0 2 S 1 2 M 12 36 5 0 2 I 0 10946 3 0 2 M 7 21 S 0 1 5 0 2 I 0 3636 3 0 2 S 1 2 M 9 27 G 1 0 M 11 33 S 0 2 5 0 2 I 0 17342 3 0 2 S 1 1 M 13 39 S 0 2 5 0 2 I 0 9166 3 0 2 S 1 1 M 26 78 5 0 2 I 0 8150 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 7664 127504 126 - . gene_id 3 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 127458 127504 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 127458 127504 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 127456 127457 . - . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 112141 127457 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 112141 112142 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 112118 112140 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 112118 112140 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 112116 112117 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 102484 112117 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 102484 102485 . - . intron_id 1 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 102447 102483 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 102447 102483 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 102445 102446 . - . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 89848 102446 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 89848 89849 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 89814 89847 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 89814 89847 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 89812 89813 . - . intron_id 4 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 83852 89813 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 83852 83853 . - . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 83848 83851 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 83848 83851 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 83846 83847 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 74087 83847 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 74087 74088 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 74046 74086 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 74046 74086 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 74044 74045 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 66470 74045 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 66470 66471 . - . intron_id 5 ; splice_site "CG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 66460 66469 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 66460 66469 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 66458 66459 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 66148 66459 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 66148 66149 . - . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 66046 66147 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 66046 66147 . - . insertions 0 ; deletions 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 66044 66045 . - . intron_id 8 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 57187 66045 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 57187 57188 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 57149 57186 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 57149 57186 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 57147 57148 . - . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 46199 57148 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 46199 46200 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 46177 46198 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 46177 46198 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 46175 46176 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 42537 46176 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 42537 42538 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 42473 42536 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 42473 42536 . - . insertions 0 ; deletions 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 42471 42472 . - . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 25127 42472 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 25127 25128 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 25085 25126 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 25085 25126 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 25083 25084 . - . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 15915 25084 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 15915 15916 . - . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 15836 15914 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 15836 15914 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 15834 15835 . - . intron_id 13 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 7682 15835 . - . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 7682 7683 . - . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 7664 7681 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 7664 7681 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 7664 127504 126 - . alignment_id 3 ; Query SPP00000036_1.0 ; Align 127505 6 45 ; Align 112140 22 21 ; Align 102482 30 33 ; Align 89847 42 33 ; Align 83852 53 3 ; Align 74085 55 39 ; Align 66470 68 9 ; Align 66146 72 27 ; Align 66119 82 72 ; Align 57185 107 36 ; Align 46199 119 21 ; Align 42535 127 27 ; Align 42508 137 33 ; Align 25126 149 39 ; Align 15914 163 78 ; Align 7682 189 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 123 Query range: 78 -> 320 Target range: 129179 -> 9603 79 : GlySerValArgArgProSerGlyProValProAlaProGlnProProAlaPheArgP : 98 |||...... :::|||||| |||:::|||:::|||...|||||||||||| GlyAspAlaIleGlnProSerHisProLeuProSerProSerProProAlaPheSerP 129179 : ggtgatgccatccagccgtctcatcctctgccgtccccttctcctcccgccttcagtc : 129122 99 : heValSerArgProGlyArgAla{Ar} >>>> Target Intron 1 >>>> {g : 106 ... ||| {||} 2087 bp {| roSerGlnAspGlnGlyLeuLeu{Ar}-+ ++{g 129121 : cttcccaggatcagggtcttttg{ag}at.........................ag{G : 127009 107 : }SerGluSerGluThrLeuGluArgSerProProGlnSerProGlyProGlyLysAla : 125 }:!! !!!|||!:!! ! ||| !! ! !!!!.:!!||||||||||||! ! ! }AlaCys***GluSerArgCysArgProGluThrHisAlaProGlyProGlyThrLys 127008 : }GCCTGCTGAGAGAGTCGATGCCGCCCTGAGACCCACGCCCCGGGGCCAGGAACAAAG : 126954 126 : GlyAspAlaPro{A} >>>> Target Intron 2 >>>> {sn}ArgArgSerG : 134 ||| ||||||{.} 13555 bp {.!}! !..!.!! GlyLeuAlaPro{G}++ ++{ly}ProGluGlyT 126953 : GGCTTGGCCCCT{G}gt.........................ag{GT}CCGGAAGGAT : 113372 135 : lyHisValArgGlyAla{Ar} >>>> Target Intron 3 >>>> {g}ValLe : 142 !!.!|||! ! !!.!{||} 2806 bp {|}! !:! yrArgValProGlnGly{Ar}++ ++{g}AspIl 113371 : ACCGCGTGCCTCAGGGC{AG}gt.........................ag{G}GATAT : 110542 143 : uSerProProGlyArgArgAlaArgLeuSerSerProGlyProSerArgSerSer{G} : 161 !:!!||||||||||||! !..!!:! !|||||| ! ! !!||||||.!!:!!{|} eAlaProProGlyArgProCysLysGlySerSerCysGlnAlaSerArgGlyAla{G} 110541 : TGCTCCACCGGGTAGGCCCTGCAAGGGGTCTAGCTGCCAGGCCAGTCGAGGGGCA{G} : 110485 162 : >>>> Target Intron 4 >>>> {lu}AlaArgGluGluLeuArgArgHisL : 170 31881 bp {||}:::...|||||||||::: | ++ ++{lu}SerGluGluGluLeuLysSerProL 110484 : gt.........................ag{aa}agtgaagaggagctaaaaagcccct : 78577 171 : euValGlyLeuIleGlu >>>> Target Intron 5 >>>> ArgSerArgVal : 179 ||::: ::: ||| 4473 bp !!!!! !||| euMetLysValLysGlu+- ++GlyArgAlaVal 78576 : tgatgaaagtgaaagagga.........................agGGAAGAGCGGTC : 74077 180 : ValIlePheSerLysSerTyrCysPro{Hi} >>>> Target Intron 6 >>>> : 189 :!!:!! !:!! !!!! ! ! !|||{ } 27725 bp LeuValGlnAsnThrThrLysTyrPro{Gl}++ 74076 : CTAGTTCAGAACACAACAAAGTACCCC{GG}gt......................... : 74043 190 : {s}SerThrArgValLysGluLeuPheSerSerLeu{G} >>>> Target Int : 201 {!}||| !!||| !:!!..!:!!!!.||| !! !{!} 5749 b ++{y}SerProArgLysGluArgValLeuSerProThr{A}++ 74042 : ag{C}AGCCCCAGAAAGGAGAGGGTGTTGTCTCCAACA{G}gt............... : 46283 202 : ron 7 >>>> {ly}ValGluCysAsnValLeuGluLeuAspGlnValAspAspGly : 215 p {.!}:!!||| ::! !|||..! !!!:.!.!.!!!: ! ||| ++{la}IleGluValSerHisLeuArgAlaGluAspAlaGlu***Gly 46282 : ..........ag{CC}ATAGAGGTGTCTCATCTGCGGGCTGAAGATGCAGAGTAAGGG : 40495 216 : AlaArgVal{Gl} >>>> Target Intron 8 >>>> {n}GluValLeuSerG : 224 ! !|||{ } 15903 bp { }:!!|||:!! !| LeuLeuVal{Th}++ ++{r}LysValValValG 40494 : TTATTGGTG{AC}gt.........................ag{C}AAAGTTGTGGTCG : 24565 225 : luIleThrAsnGlnLysThrValProAsnIlePheValAsnLysValHisValGlyGl : 243 ||:!: ! !|||!.. ! !|||..!! !.!. ! ! !|||...||||| luLeuGluAlaGlnSerCysGlnProArgSerLeuCysAlaGlySerHisThrGlyGl 24564 : AGCTGGAAGCTCAGAGTTGCCAGCCCCGTAGCCTGTGTGCTGGCAGCCACACgggtgg : 24508 244 : yCysAspGlnThrPheGlnAlaTyrGlnSerGlyLeuLeuGlnLysLeuLeu{Gl} : 261 | ::: ! !!.! !! !:!!|||! !:!!..!::!||| !{::} yMetGlyGluArgArgProGlyAspGlyAlaGlyGlnValMetArgLeuAsp{Ar}++ 24507 : gatgggagagaggCGGCCAGGTGATGGGGCTGGACAGGTGATGCGGCTGGAC{AG}gt : 24452 262 : >>>> Target Intron 9 >>>> {n}GluAspLeuAlaTyrAspTyrAspLeuI : 271 4043 bp {!}.!. !! !:!! !..!||| !! !| ++{g}AsnThrCysSerProSerTyrProTrpI 24451 : .........................ag{G}AACACTTGCTCTCCCTCCTACCCCTGGA : 20381 272 : leIle{I} >>>> Target Intron 10 >>>> {le}{G} >>>> Target : 274 || !{:} 3470 bp {!!}{|} 4 leSer{V}++ ++{al}{G}++ 20380 : TCTCT{G}gt..........................ag{TT}{G}gt........... : 16899 275 : Intron 11 >>>> {ly}GlyGlySerGlyGlyLeuSerCysAlaLysGluAlaA : 287 481 bp {||}|||||||||! !|||:!!:!!! !.!..!...:!!! ++{ly}GlyGlySerAspGlyValAlaLeuValSerSerSerG 16898 : ...............ag{GA}GGAGGCAGTGATGGGGTGGCCTTGGTGTCATCCTCAG : 12382 288 : laIleLeuGlyLysLysValMetValLeuAsp{P} >>>> Target Intron 12 : 298 !:!!! !||| ! !||||||! {!} 2677 bp luLeuTrpGlyProGlyProGlyValLeuGly{C}+- 12381 : AGCTCTGGGGTCCTGGCCCTGGGGTCCTGGGA{T}gg..................... : 12346 299 : >>>> {he}ValValProSerProGlnGlyThrSerTrpGlyLeuGlyGlyThrCy : 314 { !}!.!||| !!||||||::!||| !.!!! |||! !..! !! ! ++{ys}AlaValSerSerProArgGlyArgGlySerGlyProSerArgCysLe 12345 : .....ag{GT}GCCGTCTCCTCGCCCAGAGGCCGGGGGTCTGGCCCCTCACGTTGTCT : 9624 315 : sValAsnValGlyCysIle : 320 !..! |||||||||:!: uThrLeuValGlyCysLeu 9623 : CACGTTGGTGGGATGCCTG : 9604 vulgar: SPP00000036_1.0 78 320 . NIVO01001699.1:subseq(4481833,134981) 129179 9603 - 123 M 27 81 S 0 2 5 0 2 I 0 2083 3 0 2 S 1 1 M 23 69 S 0 1 5 0 2 I 0 13551 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 2802 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 31877 3 0 2 S 1 2 M 14 42 5 0 2 I 0 4469 3 0 2 M 13 39 S 0 2 5 0 2 I 0 27721 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 5745 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 15899 3 0 2 S 1 1 M 41 123 S 0 2 5 0 2 I 0 4039 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 3466 3 0 2 S 1 3 5 0 2 I 0 4477 3 0 2 S 1 2 M 23 69 S 0 1 5 0 2 I 0 2673 3 0 2 S 1 2 M 22 66 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 9604 129179 123 - . gene_id 4 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 129097 129179 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 129097 129179 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 129095 129096 . - . intron_id 1 ; splice_site "AT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 127010 129096 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 127010 127011 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 126939 127009 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 126939 127009 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 126937 126938 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 113384 126938 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 113384 113385 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 113353 113383 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 113353 113383 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 113351 113352 . - . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 110547 113352 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 110547 110548 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 110485 110546 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 110485 110546 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 110483 110484 . - . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 78604 110484 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 78604 78605 . - . intron_id 3 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 78560 78603 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 78560 78603 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 78558 78559 . - . intron_id 5 ; splice_site "ga" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 74087 78559 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 74087 74088 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 74046 74086 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 74046 74086 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 74044 74045 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 46321 74045 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 46321 46322 . - . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 46286 46320 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 46286 46320 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 46284 46285 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 40537 46285 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 40537 40538 . - . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 40482 40536 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 40482 40536 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 40480 40481 . - . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 24579 40481 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 24579 24580 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 24453 24578 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 24453 24578 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 24451 24452 . - . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 20410 24452 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 20410 20411 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 20375 20409 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 20375 20409 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 20373 20374 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 16905 20374 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 16905 16906 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 16902 16904 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 16902 16904 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 16900 16901 . - . intron_id 11 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 12421 16901 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 12421 12422 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 12349 12420 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 12349 12420 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 12347 12348 . - . intron_id 12 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 9672 12348 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 9672 9673 . - . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 9604 9671 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 9604 9671 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 9604 129179 123 - . alignment_id 4 ; Query SPP00000036_1.0 ; Align 129180 79 81 ; Align 127009 107 69 ; Align 113382 131 27 ; Align 110546 141 60 ; Align 78602 162 42 ; Align 74087 176 39 ; Align 46320 190 33 ; Align 40535 202 51 ; Align 24578 220 123 ; Align 20409 262 33 ; Align 12419 275 69 ; Align 9670 299 66 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 112 Query range: 33 -> 200 Target range: 119249 -> 22245 34 : ProHisLeuAsnAsnGlyProMetThrGlyCysGlyArgAlaGlyAspProIleSerH : 53 |||.!. ! :!!||| !! !!|||..!|||||||||||| :::..! ProGluLysAlaAspGlySerSerProGlyAlaGlyArgAlaGlyAlaGlyValGlyM 119249 : CCTGAAAAGGCAGATGGCTCGTCACCTGGGGCTGgccgggctggggctggggtcggCA : 119192 54 : isAlaArg{G} >>>> Target Intron 1 >>>> {ly}GlyValGlyGlyAr : 61 !.!!:!{|} 10139 bp {||}..! !|||||||| etValGln{G}++ ++{ly}SerProGlyGlyAr 119191 : TGGTCCAA{G}gt.........................ag{GC}TCACCCGGGGGTCG : 109029 62 : gGlyGluArgLeuProArg{G} >>>> Target Intron 2 >>>> {ly}Phe : 69 |!.! |||:!! ! !{|} 5329 bp {||}!:! gAlaProArgValGlySer{G}++ ++{ly}Tyr 109028 : GGCGCCTCGGGTGGGCTCG{G}gt.........................ag{GT}TAT : 103676 70 : AlaArg >>>> Target Intron 3 >>>> {Va} >>>> Target Intro : 72 :!!..! 2082 bp {||} 6360 bp SerGlu++ ++{Va}++ 103675 : TCTGAGgt.........................ag{gt}gt................. : 101581 73 : n 4 >>>> {l}ValArgValAlaSerGluGlySerValArg{A} >>>> Targe : 83 {|}!.!!:!|||:!!..!! |||.!!! !|||{!} 3 ++{l}AlaGlnValSerGluAlaGlyGlyAspArg{S}++ 101580 : ........ag{G}GCGCAGGTGTCAGAGGCTGGGGGGGACCGG{A}gt.......... : 95189 84 : t Intron 5 >>>> {rg}ProSerGlyProValProAlaProGlnProPro{A} : 95 6987 bp {!!} !!||| !!|||..!|||.!!|||!!.||||||{|} ++{er}SerSerCysProThrProThrProHisProPro{A}+ 95188 : ...............ag{GC}TCTTCCTGCCCCACGCCTACTCCCCATCCACCC{G}g : 58168 96 : >>>> Target Intron 6 >>>> {la}PheArgPheValSerArgProGlyAr : 104 1867 bp {||}! !!:! !:!!||| !!||||| + -+{la}SerGlnGlnGlnAlaArgAlaGlyAr 58167 : t.........................gg{CG}TCTCAACAGCAGGCTCGAGCTGGCAG : 56275 105 : gAlaArgSerGluSerGlu >>>> Target Intron 7 >>>> ThrLeuGluA : 114 |.!!|||!!!! ..!!!: 5813 bp ! ...| gThrArgArgAlaGluAsp++ ++LysProArgA 56274 : GACTCGCAGAGCTGAGGACgt.........................agAagccccgcc : 50432 115 : rgSerProProGlnSerProGlyProGlyLysAlaGlyAspAlaProAsn{A} >>> : 131 || ||||||..!|||||| !! !!||| !.!||| !!.!|||:::{ } rgProProProSerSerProArgThrGlyProGlyGlyProValProSer{G}++ 50431 : gcccgccgccgtcGTCCCCCAGGACGGGACCCGGGGGACCTGTCCCCTCA{G}gt... : 50378 132 : > Target Intron 8 >>>> {rg}ArgSer{Gl} >>>> Target Intron : 134 2780 bp {!!}||| !!{.!} 1270 bp ++{ly}ArgPro{Se}++ 50377 : ......................ag{GC}AGGCCA{AG}gt.................. : 47588 135 : 9 >>>> {y}HisValArgGlyAlaArgValLeuSerProPro{G} >>>> Tar : 146 {!} ! !||| !! !||||||||||||||| !!{|} ++{r}SerProArgLysGluArgValLeuSerProThr{G}++ 47587 : .......ag{C}AGCCCCAGAAAGGAGAGGGTGTTGTCTCCAACA{G}gt........ : 46283 147 : get Intron 10 >>>> {ly}ArgArgAlaArgLeu >>>> Target Intro : 152 15534 bp {||}..!||| !|||:!! 4067 bp ++{ly}GluArgArgArgMet+- 46282 : ..................ag{GA}GAGAGACGGAGGATGga................. : 30732 153 : n 11 >>>> SerSerProGlyProSerArgSerSerGluAlaArgGluGluLeuAr : 167 |||||||||...|||::: ::: ... ...|||:::||| ++SerSerProSerProAlaPheAsnLeuSerGlnHisGluAspLeuPh 30731 : .........agtcgtccccttctcctgccttcaatctttcccagcatgaggatctttt : 26622 168 : g{Ar} >>>> Target Intron 12 >>>> {g}HisLeuValGlyLeuIleGl : 175 {!.} 2099 bp {!}||| |||::: || e{Hi}++ ++{s}HisThrGlyGlyMetGlyGl 26621 : c{ca}gt..........................ag{C}CACACgggtgggatgggaga : 24499 176 : uArgSerArg{V} >>>> Target Intron 13 >>>> {al}ValIlePheSe : 183 |||| !!! !{!} 2176 bp {.!} !:!!!::!. uArgArgPro{A}++ -+{la}SerValTrpLy 24498 : gaggCGGCCA{G}gt..........................cg{CT}AGCGTATGGAA : 22299 184 : rLysSerTyrCysProHisSerThrArgValLysGluLeuPheSerSerLeu : 200 ! |||! |||||||||!!! !! !|||...... !|||:!!..!||| sCysSerSerCysProHisThrAspLeuValSerSerAlaPheAlaGluLeu 22298 : ATGCAGTTCATGTCCGCACACTGACCTTGTGTCCAGCGCCTTTGCTGAGCTC : 22246 vulgar: SPP00000036_1.0 33 200 . NIVO01001699.1:subseq(4481833,134981) 119249 22245 - 112 M 22 66 S 0 1 5 0 2 I 0 10135 3 0 2 S 1 2 M 11 33 S 0 1 5 0 2 I 0 5325 3 0 2 S 1 2 M 3 9 5 0 2 I 0 2078 3 0 2 S 0 2 5 0 2 I 0 6356 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 36983 3 0 2 S 1 2 M 11 33 S 0 1 5 0 2 I 0 1863 3 0 2 S 1 2 M 15 45 5 0 2 I 0 5809 3 0 2 M 20 60 S 0 1 5 0 2 I 0 2776 3 0 2 S 1 2 M 2 6 S 0 2 5 0 2 I 0 1266 3 0 2 S 1 1 M 11 33 S 0 1 5 0 2 I 0 15530 3 0 2 S 1 2 M 5 15 5 0 2 I 0 4063 3 0 2 M 16 48 S 0 2 5 0 2 I 0 2095 3 0 2 S 1 1 M 10 30 S 0 1 5 0 2 I 0 2172 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 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 22246 119249 112 - . gene_id 5 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 119183 119249 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 119183 119249 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 119181 119182 . - . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 109044 119182 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 109044 109045 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 109008 109043 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 109008 109043 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 109006 109007 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 103679 109007 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 103679 103680 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 103668 103678 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 103668 103678 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 103666 103667 . - . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101586 103667 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101586 101587 . - . intron_id 2 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101584 101585 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101584 101585 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101582 101583 . - . intron_id 4 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 95224 101583 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 95224 95225 . - . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 95192 95223 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 95192 95223 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 95190 95191 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 58205 95191 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 58205 58206 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 58169 58204 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 58169 58204 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 58167 58168 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 56302 58168 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 56302 56303 . - . intron_id 5 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 56255 56301 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 56255 56301 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 56253 56254 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 50442 56254 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 50442 50443 . - . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 50381 50441 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 50381 50441 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 50379 50380 . - . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 47601 50380 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 47601 47602 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 47591 47600 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 47591 47600 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 47589 47590 . - . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 46321 47590 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 46321 46322 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 46286 46320 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 46286 46320 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 46284 46285 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 30752 46285 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 30752 30753 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 30735 30751 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 30735 30751 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 30733 30734 . - . intron_id 11 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 26668 30734 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 26668 26669 . - . intron_id 10 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 26618 26667 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 26618 26667 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 26616 26617 . - . intron_id 12 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 24519 26617 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 24519 24520 . - . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 24487 24518 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 24487 24518 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 24485 24486 . - . intron_id 13 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 22311 24486 . - . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 22311 22312 . - . intron_id 12 ; splice_site "CG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 22246 22310 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 22246 22310 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 22246 119249 112 - . alignment_id 5 ; Query SPP00000036_1.0 ; Align 119250 34 66 ; Align 109042 57 33 ; Align 103677 69 9 ; Align 95223 73 30 ; Align 58203 84 33 ; Align 56300 96 45 ; Align 50442 111 60 ; Align 47599 132 6 ; Align 46320 135 33 ; Align 30750 147 15 ; Align 26668 152 48 ; Align 24518 169 30 ; Align 22309 180 63 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 111 Query range: 32 -> 196 Target range: 130749 -> 23668 33 : CysProHisLeuAsnAsnGlyProMetThrGly{C} >>>> Target Intron 1 : 44 ||||||||| ! !..! ! !||| !..!{ } 14591 bp CysProHisThrAlaGlyLeuLysMetCysSer{G}++ 130749 : TGCCCACACACAGCTGGCCTCAAGATGTGCTCT{G}gt.................... : 130713 45 : >>>> {ys}GlyArgAlaGlyAspProIleSerHisAlaArgGlyGlyValGlyGl : 60 {! }||||||.!!|||! !|||:!!!!!! !|||!:!|||..!..! ! +-{ly}GlyArgThrGlyGlyProValThrProAlaGlnGlyAsnThrProTh 130712 : .....aa{GG}GGTAGGACAGGCGGCCCTGTCACACCTGCCCAGGGCAACACCCCAAC : 116077 61 : yArgGlyGluArgLeuProArg{Gl} >>>> Target Intron 2 >>>> {y} : 68 !! ! !!...! !:!!|||!!!{ !} 2668 bp {!} rProArgSerLeuValProSer{Tr}++ ++{p} 116076 : ACCCCGCAGCCTGGTGCCCAGC{TG}gt.........................ag{G} : 113383 69 : PheAlaArgValValArgValAlaSerGlu >>>> Target Intron 3 >>>> : 79 ! !!.!|||:!! !|||!.!:!!.!!:!! 20891 bp SerGlyArgIleProArgAlaSerGlyGln++ + 113382 : TCCGGAAGGATACCGCGTGCCTCAGGGCAGgt.........................a : 92463 80 : GlySerValArgArgProSerGlyProValProAlaProGlnProProAlaPheArg : 97 |||!!!..! !!||| !:!! !|||!.!|||:!! !.!. !||| !! ||| +GlyCysThrGlyArgLysAlaGlnProAlaProSerGlyAspGlyProPro---Arg 92462 : gGGTTGCACAGGCAGAAAGGCGCAGCCGGCACCCTCAGGAGACGGGCCACCC---CGT : 92410 98 : PheValSerArgPro{G} >>>> Target Intron 4 >>>> {ly}ArgAlaA : 106 !:!!|||||||||{|} 1233 bp {||}! !||| AlaIleSerArgPro{G}++ -+{ly}ProAlaL 92409 : GCCATCTCCAGGCCG{G}gt.........................gg{GC}CCTGCTT : 91150 107 : rgSerGluSerGluThrLeuGluArgSerProProGlnSerPro{G} >>>> Targ : 121 ! ! ! !! ! !!!:||| !!||||||! ||||||{|} euLeuProHisLeuMetAlaAspArgProProProProSerPro{G}++ 91149 : TACTTCCCCACCTGATGGCAGACAGGCCACCCCCGCCCTCTCCA{G}gt......... : 91102 122 : et Intron 5 >>>> {ly}ProGlyLysAlaGlyAspAlaProAsn{Ar} >>> : 131 28068 bp {||}||||||! !!.!..!...|||! !..!{||} ++{ly}ProGlyThrValSerSerAlaArgGly{Ar}+- 91101 : ................ag{GA}CCGGGGACAGTGTCCTCAGCCCGAGGC{AG}gc... : 63003 132 : > Target Intron 6 >>>> {g}ArgSerGlyHisValArgGlyAlaArgValL : 142 724 bp {|}!:!:!!|||! !:!!! ! !|||!.!:!!! ++{g}GlnAlaGlyProLeuProProAlaHisLeuC 63002 : ......................ag{A}CAAGCTGGGCCCCTCCCGCCGGCTCACCTCT : 62250 143 : euSerProProGlyArgArgAlaArgLeuSerSerPro{G} >>>> Target Int : 155 !||||||! ! ! !! ! !!:!:!!|||||||||{!} 28934 ysSerProGlnThrLeuThrIleLysMetSerSerPro{A}++ 62249 : GTTCTCCTCAGACCTTAACCATCAAGATGAGCTCACCG{G}gt............... : 62208 156 : ron 7 >>>> {ly}ProSerArgSerSerGlu >>>> Target Intron 8 > : 162 bp { !}|||!!!||| !|||:!! 748 bp ++{sp}ProThrArgHisSerGln++ 62207 : ..........ag{AC}CCCACCCGACACTCCCAGgt...................... : 33254 163 : >>> AlaArgGluGluLeuArgArgHisLeuValGlyLeuIleGluArgSer >>> : 178 ! !|||..!||| !!.!!!.! !! !.!!|||:!!...!:!||| -+AsnLeuGluArgLeuAlaHisGlnGlnGlySerLeuValSerGlnSer++ 33253 : ...tgAACTTGGAGCGGTTGGCTCACCAGCAGGGGAGCCTAGTCAGTCAGTCGgt... : 32458 179 : > Target Intron 9 >>>> ArgValValIlePheSerLysSerTyrCysProH : 189 8735 bp !:! !:!! ||| ||| ||||||| ++GlnCysMetArgPheProValSerProCysProH 32457 : ......................agCAGTGTATGagatttccagtttctccatgtcctc : 23692 190 : isSerThrArgValLysGluLeu : 196 || !!||| !:!! ...||| isArgThrLeuLeuProSerLeu 23691 : accGAACCTTGTTACCCTCTCTT : 23669 vulgar: SPP00000036_1.0 32 196 . NIVO01001699.1:subseq(4481833,134981) 130749 23668 - 111 M 11 33 S 0 1 5 0 2 I 0 14587 3 0 2 S 1 2 M 23 69 S 0 2 5 0 2 I 0 2664 3 0 2 S 1 1 M 10 30 5 0 2 I 0 20887 3 0 2 M 17 51 G 1 0 M 6 18 S 0 1 5 0 2 I 0 1229 3 0 2 S 1 2 M 17 51 S 0 1 5 0 2 I 0 28064 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 720 3 0 2 S 1 1 M 23 69 S 0 1 5 0 2 I 0 28930 3 0 2 S 1 2 M 6 18 5 0 2 I 0 744 3 0 2 M 16 48 5 0 2 I 0 8731 3 0 2 M 19 57 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 23669 130749 111 - . gene_id 6 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 130716 130749 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 130716 130749 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 130714 130715 . - . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 116125 130715 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 116125 116126 . - . intron_id 0 ; splice_site "AA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 116052 116124 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 116052 116124 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 116050 116051 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 113384 116051 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 113384 113385 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 113353 113383 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 113353 113383 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 113351 113352 . - . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 92462 113352 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 92462 92463 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 92392 92461 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 92392 92461 . - . insertions 0 ; deletions 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 92390 92391 . - . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 91159 92391 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 91159 91160 . - . intron_id 3 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 91105 91158 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 91105 91158 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 91103 91104 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 63037 91104 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 63037 63038 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 63006 63036 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 63006 63036 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 63004 63005 . - . intron_id 6 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 62282 63005 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 62282 62283 . - . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 62211 62281 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 62211 62281 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 62209 62210 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 33277 62210 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 33277 33278 . - . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 33257 33276 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 33257 33276 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 33255 33256 . - . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 32509 33256 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 32509 32510 . - . intron_id 7 ; splice_site "TG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 32461 32508 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 32461 32508 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 32459 32460 . - . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 23726 32460 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 23726 23727 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 23669 23725 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 23669 23725 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 23669 130749 111 - . alignment_id 6 ; Query SPP00000036_1.0 ; Align 130750 33 33 ; Align 116123 45 69 ; Align 113383 69 30 ; Align 92462 79 51 ; Align 92411 97 18 ; Align 91157 104 51 ; Align 63035 122 27 ; Align 62281 132 69 ; Align 33275 156 18 ; Align 32509 162 48 ; Align 23726 178 57 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 109 Query range: 46 -> 311 Target range: 134296 -> 17498 47 : AlaGlyAspProIleSerHisAlaArgGlyGlyValGlyGly >>>> Target In : 61 ::!|||! !:!!||||||..!|||!.!|||! !|||||| 12324 SerGlyGlyGlyLeuSerHisCysArgAlaGlyGlyGlyGly+- 134296 : AGTGGCGGGGGACTCAGTCACTGCAGAGCCGGTGGGGGGGGGgc.............. : 134252 62 : tron 1 >>>> ArgGlyGluArgLeuProArgGlyPheAlaArgValValArgVal : 75 bp ||||||:!!|||:!!! !||||||! !! ! !! ! ! !! ! ++ArgGlyGlnArgValGlnArgGlySerGluAlaAspArgCysTrp 134251 : ...........agAGGGGGCAGCGAGTACAGAGAGGCTCTGAGGCTGACAGATGCTGG : 121888 76 : AlaSerGlu{G} >>>> Target Intron 2 >>>> {ly}SerValArgArgP : 84 ||||||..!{|} 11590 bp {||}.!! ! !!:!| AlaSerArg{G}++ ++{ly}GlyGlnAlaGlnP 121887 : GCCTCTCGA{G}gt.........................ag{GG}GGGCAGGCCCAGC : 110271 85 : roSerGlyProValProAlaProGlnProProAlaPheArgPheValSerArgProGl : 103 ||!!!!.!! !..! !!:!!||| ! ! ! ! ! !! !!!!||| ! ! roThrAlaLeuThrSerSerProGlyArgGlyArgSerGlyThrCysArgArgGlyAr 110270 : CCACGGCACTCACCTCATCTCCAGGTCGGGGCAGAAGCGGTACATGTAGACGTGGCCG : 110214 104 : yArgAlaArgSerGluSerGluThrLeuGluArgSerProProGlnSerProGlyPro : 122 !|||||| !:!! .!!..!|||! !! !! !:!!|||||| ! !!|||||| ! gArgAlaAlaAlaProGlyArgThrArgGlyProAlaProProGlyArgProGlyGly 110213 : TAGAGCCGCAGCTCCTGGGCGAACTCGGGGGCCAGCACCTCCTGGACGTCCGGGGGGA : 110157 123 : GlyLysAlaGlyAspAlaProAsnArgArgSerGlyHisValArgGlyAla{Ar} > : 140 .!!!!.!.!||| !:!! !! ! ! !... ||| |||...{||} SerAsnGlyGlyArgSerSerAlaProAlaGlyArgAlaValGlyGlyGly{Ar}++ 110156 : AGTAACGGAGGGCGTTCTTCAGCGCCAGCTGgcagggcggtgggggggggg{cg}gt. : 110099 141 : >>> Target Intron 3 >>>> {g}ValLeuSer{Pr} >>>> Target In : 144 17987 bp {|}:!! !..!{ } 865 ++{g}IleArgGln{Gl}++ 110098 : ........................ag{G}ATAAGACAA{GA}gt.............. : 92100 145 : tron 4 >>>> {o}ProGlyArgArgAlaArgLeuSerSerProGlyProSerArg : 158 bp {!}|||||||||||| ::: ......|||||||||.!!||| ++{u}ProGlyArgArgGluGlnAlaGlyGlyProGlyProGlyArg 92099 : ...........ag{G}CCGGGAcgcagggagcaggcagggggcccaggcccAGGACGG : 91197 159 : {S} >>>> Target Intron 5 >>>> {er}{S} >>>> Target Intro : 160 {:} 151 bp {!!}{|} 1808 bp {A}++ ++{la}{S}++ 91196 : {G}gt.........................ag{CG}{T}gt................. : 91037 161 : n 6 >>>> {er}GluAlaArgGluGluLeuArgArgHisLeuValGlyLeu >>> : 174 {||}! ! !||||||! |||||||||.!. !||||||! ! ++{er}ValLeuArgGluGlyLeuArgArgGluSerValGlyArg++ 91036 : ........ag{CA}GTGCTGAGGGAAGGCCTCCGCCGGGAGAGCGTGGGCCGGgt... : 89188 175 : > Target Intron 7 >>>> IleGluArgSerArgValValIlePheSerLysS : 185 28842 bp ! !..!|||!!!!:!! !!.! |||||| ! +-ThrSerArgTrpLysGluAlaSerPheSerProP 89187 : ......................aaACCTCGAGGTGGAAGGAGGCCTCGTTCAGCCCAC : 60315 186 : erTyrCysProHisSerThrArgValLysGluLeuPheSerSerLeuGlyValGluCy : 204 !!!:!||||||! ! !:!!! !! !! ! ! !||||||:!!!!! !||| ! roPheCysProProIleSerLeuGluThrValCysPheSerAlaPheLysVal***Il 60314 : CCTTCTGTCCTCCAATCTCACTCGAAACTGTCTGCTTCTCAGCGTTCAAAGTTTGAAT : 60258 205 : s{A} >>>> Target Intron 8 >>>> {sn}ValLeuGluLeuAspGlnVal : 212 !{.} 4368 bp {!.}...||| ::: :::... e{G}++ ++{lu}ThrLeuLeuValGlyLysThr 60257 : T{G}gt.........................ag{ag}accctgctggtgggaaagact : 55866 213 : AspAspGlyAla{Ar} >>>> Target Intron 9 >>>> {g}ValGlnGluV : 221 |||...||| {||} 4183 bp {|}|||:!!..!: AspSerGlyArg{Ar}+- ++{g}ValGluArgL 55865 : gacagcgggaga{ag}gg.........................ag{A}GTAGAAAGAC : 51656 222 : alLeuSerGluIleThrAsnGlnLysThrValProAsnIlePhe{V} >>>> Targ : 236 !!|||!.!:!! !|||||||||||| !! ! !:!!! !|||{.} euLeuLysLysGlyThrAsnGlnLysGlyGluSerAspArgPhe{T}-+ 51655 : TTCTTAAAAAAGGCACAAACCAGAAAGGAGAAAGTGACAGATTC{A}ct......... : 51608 237 : et Intron 10 >>>> {al}AsnLysValHisValGlyGlyCysAspGln{T} : 247 3951 bp {.!}||| !..! ! !||||||! !!:!!{|} ++{hr}AsnLeuThrPheSerGlyGlyLeuTyrGlu{T}+- 51607 : .................ag{CA}AATCTAACTTTCTCTGGGGGATTGTACGAG{A}gg : 47626 248 : >>>> Target Intron 11 >>>> {hr}PheGlnAlaTyrGlnSerGlyLeuLe : 256 1306 bp {||} !! !! ! ::!.!! !!! !|| ++{hr}AlaProGluArgArgGlyCysCysLe 47625 : ..........................ag{CA}GCCCCAGAAAGGAGAGGGTGTTGTCT : 46294 257 : uGlnLysLeuLeuGlnGluAspLeuAlaTyrAspTyrAspLeuIleIleIleGlyGly : 275 ||||:!!:!! !||| ! !! ! ! !!: ! ||||||:!!! !:!!!.! !! uGlnGlnValArgGlnLeuThrThrGluLysGluGlnAspLeuLeuArgValAlaTrp 46293 : CCAACAGGTGAGACAACTAACAACGGAGAAGGAACAGGATCTTCTCAGAGTCGCGTGG : 46237 276 : GlySerGlyGly{Le} >>>> Target Intron 12 >>>> {u}SerCys{Al : 283 !!!!||||||{! } 10833 bp {!}!:!|||{!. MetTrpGlyGly{Cy}++ ++{s}AsnCys{Gl 46236 : ATGTGGGGAGGC{TG}gt..........................ag{t}AATTGT{GG : 35380 284 : } >>>> Target Intron 13 >>>> {a}LysGluAlaAlaIleLeuGlyLys : 291 } 1338 bp {!}! !|||! !|||! !|||!:! }-+ ++{y}ThrProAlaGluIleSerGlyArg 35379 : }at..........................ag{A}ACCCCAGCTGAAATCTCAGGAAGA : 34018 292 : LysValMetValLeuAspPheValValProSerProGlnGly >>>> Target In : 306 !||||||:!!! !:!!.!.:!!||| !!! !|||||| ! 16457 LeuValMetIleTyrAsnMetMetValSerPheProGlnLys+- 34017 : CTGGTAATGATATATAACATGATGGTTTCTTTCCCTCAGAAGgg.............. : 33971 307 : tron 14 >>>> ThrSerTrpGlyLeuGly : 311 bp .!!..!|||!.!|||||| ++AlaGlnTrpAlaLeuGly 33970 : ............agGCTCAGTGGGCTTTAGGT : 17499 vulgar: SPP00000036_1.0 46 311 . NIVO01001699.1:subseq(4481833,134981) 134296 17498 - 109 M 14 42 5 0 2 I 0 12320 3 0 2 M 18 54 S 0 1 5 0 2 I 0 11586 3 0 2 S 1 2 M 60 180 S 0 2 5 0 2 I 0 17983 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 861 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 147 3 0 2 S 1 3 5 0 2 I 0 1804 3 0 2 S 1 2 M 13 39 5 0 2 I 0 28838 3 0 2 M 31 93 S 0 1 5 0 2 I 0 4364 3 0 2 S 1 2 M 11 33 S 0 2 5 0 2 I 0 4179 3 0 2 S 1 1 M 18 54 S 0 1 5 0 2 I 0 3947 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 1302 3 0 2 S 1 2 M 32 96 S 0 2 5 0 2 I 0 10829 3 0 2 S 1 1 M 2 6 S 0 2 5 0 2 I 0 1334 3 0 2 S 1 1 M 22 66 5 0 2 I 0 16453 3 0 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 17499 134296 109 - . gene_id 7 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 134255 134296 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 134255 134296 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 134253 134254 . - . intron_id 1 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 121931 134254 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 121931 121932 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 121876 121930 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 121876 121930 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 121874 121875 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 110286 121875 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 110286 110287 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 110102 110285 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 110102 110285 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 110100 110101 . - . intron_id 3 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 92115 110101 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 92115 92116 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 92103 92114 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 92103 92114 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 92101 92102 . - . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 91238 92102 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 91238 91239 . - . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 91194 91237 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 91194 91237 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 91192 91193 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 91043 91193 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 91043 91044 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 91040 91042 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 91040 91042 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 91038 91039 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 89232 91039 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 89232 89233 . - . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 89191 89231 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 89191 89231 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 89189 89190 . - . intron_id 7 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 60349 89190 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 60349 60350 . - . intron_id 6 ; splice_site "AA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 60255 60348 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 60255 60348 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 60253 60254 . - . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 55887 60254 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 55887 55888 . - . intron_id 7 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 55850 55886 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 55850 55886 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 55848 55849 . - . intron_id 9 ; splice_site "gg" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 51667 55849 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 51667 51668 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 51611 51666 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 51611 51666 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 51609 51610 . - . intron_id 10 ; splice_site "CT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 47660 51610 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 47660 47661 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 47627 47659 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 47627 47659 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 47625 47626 . - . intron_id 11 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 46321 47626 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 46321 46322 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 46221 46320 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 46221 46320 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 46219 46220 . - . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 35388 46220 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 35388 35389 . - . intron_id 11 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 35379 35387 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 35379 35387 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 35377 35378 . - . intron_id 13 ; splice_site "At" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 34041 35378 . - . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 34041 34042 . - . intron_id 12 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 33974 34040 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 33974 34040 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 33972 33973 . - . intron_id 14 ; splice_site "GG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17517 33973 . - . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 17517 17518 . - . intron_id 13 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17499 17516 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17499 17516 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 17499 134296 109 - . alignment_id 7 ; Query SPP00000036_1.0 ; Align 134297 47 42 ; Align 121931 61 54 ; Align 110284 80 180 ; Align 92114 141 9 ; Align 91237 145 42 ; Align 89230 161 39 ; Align 60349 174 93 ; Align 55885 206 33 ; Align 51666 218 54 ; Align 47658 237 30 ; Align 46319 248 96 ; Align 35387 281 6 ; Align 34040 284 66 ; Align 17517 306 18 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 103 Query range: 9 -> 172 Target range: 116033 -> 5033 10 : GlyLysArgArgMetHisLeu >>>> Target Intron 1 >>>> ThrSerAr : 19 |||!:!|||! !..!|||! ! 14008 bp .!!.!!|| GlyArgArgProGlnHisArg++ ++AlaGlyAr 116033 : GGGAGGCGCCCACAGCACCGCgt.........................agGCCGGGAG : 101998 20 : gProValAlaSerThrHisSerProLeuIleLeuAspMet >>>> Target Intr : 33 | !..!!.! !!!:! !..!|||||| ! !|||..! 94 bp gGlyThrValArgSerSerGlnProLeuSerArgAspGln++ 101997 : GGGGACGGTCCGGAGCTCCCAGCCTCTGTCCAGGGACCAGgt................ : 101954 34 : on 2 >>>> CysProHisLeuAsn >>>> Target Intron 3 >>>> Asn : 38 ||||||!!.! !... 17840 bp .!. ++CysProGlnProArg++ ++Glu 101953 : .........agTGTCCACAGCCGCGGgt.........................agGAG : 84007 39 : GlyProMetThrGlyCysGlyArgAlaGlyAsp{Pr} >>>> Target Intron : 50 |||||| ! !|||||| !|||||| ! !{! } 36758 bp GlyProSerGluGlyCysMetArgAlaHisArg{Ar}+- 84006 : GGACCCTCGGAGGGCTGCATGAGGGCACATCGC{CG}gc................... : 83967 51 : 4 >>>> {o}IleSerHisAlaArg{Gl} >>>> Target Intron 5 >>>> : 56 {!}.!!||| ||||||{||} 5892 bp ++{g}PheSerTrpAlaArg{Gl}++ + 83966 : ......ag{C}TTCTCCTGGGCCAGA{GG}gt.........................a : 41303 57 : {y}GlyValGlyGly{Ar} >>>> Target Intron 6 >>>> {g}GlyGlu : 63 {|}|||:!!||| !!{||} 1626 bp {|}.!!:!! +{y}GlyLeuGlyArg{Ar}++ ++{g}SerLys 41302 : g{A}GGCCTGGGCAGG{AG}gt.........................ag{A}AGCAAA : 39656 64 : ArgLeuProArgGlyPheAla{Ar} >>>> Target Intron 7 >>>> {g} : 72 !||||||:::|||...:::{||} 15511 bp {|} AlaLeuProGlnGlyLeuSer{Ar}++ ++{g}+ 39655 : GCGCtgccccaggggctcagc{ag}gt.........................ag{g}g : 24118 73 : >>>> Target Intron 8 >>>> ValValArgValAlaSerGluGlySerVal : 81 4006 bp |||:!!! !!.!||||||...|||||| ! + ++ValLeuProAlaAlaSerSerGlySerGln 24117 : t.........................agGTGCTTCCCGCGGCCTCTAGCGGCTCCCAG : 20085 82 : ArgArgProSerGlyPro >>>> Target Intron 9 >>>> ValProAlaPr : 91 !|||||| !!|||||| 10393 bp ||||||:!!|| AlaArgProProGlyPro++ ++ValProSerPr 20084 : GCCCGACCCCCGGGGCCTgt.........................agGTGCCGTCTCC : 9662 92 : oGlnProProAlaPheArgPheValSerArgProGlyArg{A} >>>> Target I : 105 |!::||| !||| !!.!.!.! !!!.! !! ! !{ } 300 oArgProGluAlaGlyGlyLeuAlaProHisValValSer{A}++ 9661 : TCGCCCAGAGGCCGGGGGTCTGGCCCCTCACGTTGTCTCA{C}gt............. : 9617 106 : ntron 10 >>>> {la}ArgSerGluSerGluThrLeuGluArgSerProProGln : 118 7 bp { !}||||||:!!.!!:!! !|||... !||||||||| ! ++{rg}ArgSerLysGlyGlnTrpLeuSerPheSerProProAla 9616 : .............ag{GG}CGGAGCAAGGGGCAGTGGCTCAGCTTCTCCCCACCCGCA : 6574 119 : SerPro{Gl} >>>> Target Intron 11 >>>> {y}ProGlyLys >>>> : 125 :!!|||{||} 915 bp {|} !!|||||| AlaPro{Gl}+- ++{y}SerGlyLys++ 6573 : GCTCCT{GG}ga..........................ag{G}TCTGGGAAGgt.... : 5636 126 : Target Intron 12 >>>> AlaGlyAspAlaProAsnArgArgSerGlyHisV : 136 461 bp !.!.!! !!::!||| !! !! !!||| ! ++GlySerHisSerProProGlyTrpArgGlyAlaC 5635 : ......................agGGGAGTCACAGCCCTCCAGGCTGGCGAGGAGCCT : 5144 137 : alArgGlyAlaArgValLeuSerProProGlyArgArgAlaArgLeuSerSerProGl : 155 !!!! !:!!|||! !:!!! !||| !!|||!!! !!!.!!:!:!!!!!!!!||| ysSerProSerArgGlyValPheProAlaGlySerTrpValGlnMetArgTrpProPh 5143 : GCAGCCCCTCCCGGGGGGTCTTCCCTGCTGGCAGCTGGGTGCAGATGAGGTGGCCCTT : 5087 156 : yProSerArgSerSerGluAlaArgGluGluLeuArgArgHisLeuValGly : 172 !|||!!!!:!!!! !! ! !! !..!.!.! ! !!|||||||||:!!||| eProTrpGlnThrProLeuProAlaArgHisHisGlyArgHisLeuLeuGly 5086 : CCCTTGGCAAACGCCTCTGCCAGCCCGGCACCATGGGCGGCATCTCCTTGGC : 5034 vulgar: SPP00000036_1.0 9 172 . NIVO01001699.1:subseq(4481833,134981) 116033 5033 - 103 M 7 21 5 0 2 I 0 14004 3 0 2 M 16 48 5 0 2 I 0 90 3 0 2 M 5 15 5 0 2 I 0 17836 3 0 2 M 12 36 S 0 2 5 0 2 I 0 36754 3 0 2 S 1 1 M 5 15 S 0 2 5 0 2 I 0 5888 3 0 2 S 1 1 M 4 12 S 0 2 5 0 2 I 0 1622 3 0 2 S 1 1 M 9 27 S 0 2 5 0 2 I 0 15507 3 0 2 S 1 1 5 0 2 I 0 4002 3 0 2 M 16 48 5 0 2 I 0 10389 3 0 2 M 17 51 S 0 1 5 0 2 I 0 3003 3 0 2 S 1 2 M 15 45 S 0 2 5 0 2 I 0 911 3 0 2 S 1 1 M 3 9 5 0 2 I 0 457 3 0 2 M 48 144 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 5034 116033 103 - . gene_id 8 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 116013 116033 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 116013 116033 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 116011 116012 . - . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 102005 116012 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 102005 102006 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101957 102004 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101957 102004 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101955 101956 . - . intron_id 2 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 101863 101956 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 101863 101864 . - . intron_id 1 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 101848 101862 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 101848 101862 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 101846 101847 . - . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 84008 101847 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 84008 84009 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 83970 84007 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 83970 84007 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 83968 83969 . - . intron_id 4 ; splice_site "GC" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 47212 83969 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 47212 47213 . - . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 47194 47211 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 47194 47211 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 47192 47193 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 41302 47193 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 41302 41303 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 41287 41301 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 41287 41301 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 41285 41286 . - . intron_id 6 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 39661 41286 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 39661 39662 . - . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 39631 39660 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 39631 39660 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 39629 39630 . - . intron_id 7 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 24120 39630 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 24120 24121 . - . intron_id 6 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 24119 24119 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 24119 24119 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 24117 24118 . - . intron_id 8 ; splice_site "gT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 20113 24118 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 20113 20114 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 20065 20112 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 20065 20112 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 20063 20064 . - . intron_id 9 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 9672 20064 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 9672 9673 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 9620 9671 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 9620 9671 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 9618 9619 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 6613 9619 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 6613 6614 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 6564 6612 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 6564 6612 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 6562 6563 . - . intron_id 11 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 5649 6563 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 5649 5650 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 5639 5648 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 5639 5648 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 5637 5638 . - . intron_id 12 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 5178 5638 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 5178 5179 . - . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 5034 5177 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 5034 5177 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 5034 116033 103 - . alignment_id 8 ; Query SPP00000036_1.0 ; Align 116034 10 21 ; Align 102005 17 48 ; Align 101863 33 15 ; Align 84008 38 36 ; Align 47211 51 15 ; Align 41301 57 12 ; Align 39660 62 27 ; Align 20113 72 48 ; Align 9672 88 51 ; Align 6611 106 45 ; Align 5648 122 9 ; Align 5178 125 144 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000036_1.0 # Protein # Thioredoxin reductase 3 (TR3) # Homo sapiens # Complete Target: NIVO01001699.1:subseq(4481833,134981) Ammotragus lervia isolate NAZ scaffold1294_len4820224_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 100 Query range: 15 -> 332 Target range: 133861 -> 6561 16 : LeuThrSer{A} >>>> Target Intron 1 >>>> {rg}ProValAlaSerT : 24 |||||||||{|} 1380 bp {||}|||! !||| !. LeuThrSer{A}++ ++{rg}ProGlyAlaHisA 133861 : CTGACTTCA{A}gt.........................ag{GG}CCTGGAGCACACG : 132457 25 : hrHisSerProLeuIleLeuAspMetCysProHisLeuAsnAsnGlyProMetThrGl : 43 !!||| !!|||||| ! !! !! |||! ! !:!! ! !||| :!!.. laHisProProLeuArgAlaAlaAlaSerProProArgHisCysProProAlaSerSe 132456 : CTCATCCGCCACTGCGTGCGGCAGCGTCACCACCACGCCACTGTCCTCCCGCATCGTC : 132400 44 : yCys{Gl} >>>> Target Intron 2 >>>> {y}ArgAlaGlyAspProIle : 51 ! !!{.!} 4205 bp {!}:::||||||!!:||| rGly{Se}-+ ++{r}LysAlaGlyGluProGly 132399 : TGGC{AG}at.........................ag{c}aaagcagggGAACCGGGG : 128171 52 : SerHisAlaArgGlyGlyValGlyGlyArgGlyGluArgLeu{P} >>>> Target : 66 ..! ||| |||||| |||||| ||| !{ } 95 UnkProAlaGlyGlyGlyGlyGlyGlyTrpGlyAlaGlyThr{A}++ 128170 : GNTccagctgggggcgggggtggggggtggggggctggcacA{G}gt........... : 128123 67 : Intron 3 >>>> {ro}ArgGlyPheAlaArgValValArgValAla{S} >>> : 77 34 bp {!!} !!.!.!.:!!||| !|||!:!!.! !!{.} ++{la}AlaAlaLeuSerArgArgValGlnAlaPro{G}++ 128122 : ..............ag{CA}GCTGCCCTGTCCCGGCGAGTTCAGGCCCCC{G}gt... : 118556 78 : > Target Intron 4 >>>> {er}GluGlySerValArgArgPro{Se} >>> : 85 4070 bp {!!}..!|||.!! ! !..!|||{ } ++{ly}ArgGlyGlyProTyrGluPro{Le}++ 118555 : ......................ag{GG}CGGGGCGGACCCTACGAGCCG{CT}gt... : 114461 86 : > Target Intron 5 >>>> {r}GlyProValProAlaProGlnProProAlaP : 96 727 bp {!}..! ! !||| ! !!::! !||||||| ++{u}SerTrpSerProArg***ArgArgProAlaP 114460 : ......................ag{G}TCCTGGAGCCCTAGGTAGCGCCGCCCCGCGT : 113705 97 : heArgPheValSerArgProGlyArg{A} >>>> Target Intron 6 >>>> : 105 ||!!! |||||| ||||||{!} 3431 bp heSerThrValSerCysGlyGlyArg{G}+- ++ 113704 : TCAGCACAGTGAGCtgtggggggaga{g}gg.........................ag : 110248 106 : {la}ArgSerGluSerGluThrLeuGluArgSerProProGlnSerProGlyProGly : 123 {.!}|||.!!..!|||! |||! !..!|||.!!! ! ! :!! !! ! ! !! {ly}ArgGlyArgSerGlyThrCysArgArgGlyArgArgAlaAlaAlaProGlyArg 110247 : {GT}CGGGGCAGAAGCGGTACATGTAGACGTGGCCGTAGAGCCGCAGCTCCTGGGCGA : 110193 124 : LysAlaGlyAspAlaProAsnArgArgSerGlyHisValArgGlyAlaArgValLeuS : 143 ! !||| |||||| ! !!||| !!||| !!.!|||!.!||| !! !: ThrArgGlyProAlaProProGlyArgProGlyGlySerAsnGlyGlyArgSerSerA 110192 : ACTCGGGGGCCAGCACCTCCTGGACGTCCGGGGGGAAGTAACGGAGGGCGTTCTTCAG : 110133 144 : erProProGlyArgArg >>>> Target Intron 7 >>>> AlaArgLeuSer : 152 !!||| !!|||||| 24600 bp !.!||||||||| laProAlaGlyArgAla++ ++GlyArgLeuSer 110132 : CGCCAGCTGgcagggcggt.........................agGGAAGGCTGTCC : 85506 153 : SerProGlyProSerArgSerSerGlu{Al} >>>> Target Intron 8 >>>> : 162 :!! !!.!!|||! !|||!!! !!:!!{!.} 2909 bp AlaSerSerProPheArgCysArgGln{Va}++ 85505 : GCCTCCAGCCCTTTTAGATGCCGACAG{GT}gt......................... : 85472 163 : {a}ArgGluGluLeuArgArgHisLeuValGlyLeuIleGluArgSerArgValVa : 180 {!}..!..!|||:!!||| ! ||| !.!!|||! !! !!:!:!! !:!!:! ++{l}GluArgGluValArgAlaTrpLeuCysSerLeuLysGlyGlnAlaAlaLeuMe 85471 : ag{C}GAGAGAGAAGTCAGAGCCTGGCTTTGCAGCCTCAAAGGACAGGCTGCTCTCAT : 82513 181 : l >>>> Target Intron 9 >>>> IlePheSerLysSerTyrCysProHis : 190 ! 1825 bp :!!|||||| !!.!||| !|||:!! t-+ ++ValPheSerLeuLysTyrThrProAsn+ 82512 : Gtt.........................agGTATTCTCCCTAAAATATACCCCGAATg : 80658 191 : >>>> Target Intron 10 >>>> SerThrArgValLysGluLeuPheSerSe : 199 687 bp !!! !!! !|||:!! ||| !|||.. + ++CysProProValGlnThrLeuProSerGl 80657 : t..........................agTGCCCTCCTGTCCAGACCCTCCCTTCGGA : 79944 200 : rLeuGlyValGluCysAsnValLeuGluLeuAspGlnValAspAspGlyAlaArgVal : 218 !!!! ! !!!: !||| ! ||| ! :!! !! !|||||||||||| uPheLeuArgAspProAlaValGlyThrLeuArgPheLeuCysValGlyAlaArgVal 79943 : GTTCCTGAGGGATCCAGCCGTTGGGACTCTGCGCTTTCTGTGCGTTGGGgcgcgagtt : 79887 219 : GlnGluValLeuSerGluIleThrAsnGlnLys >>>> Target Intron 11 > : 230 |||...::: ...||| ! !::!.!.||| 18744 bp GlnSerLeuAlaGlyGluArgArgSerAsnLys-+ 79886 : caatccctggctggggaacgaAGATCTAACAAGct....................... : 79849 231 : >>> ThrValProAsnIlePheValAsn >>>> Target Intron 12 >>>> : 238 ! ! :::...|||:::||| 1703 bp ++LysCysAspSerPhePheLeuAsn++ + 79848 : ...agAAGtgtgattctttctttttaaatgt..........................a : 59382 239 : LysValHisValGlyGlyCysAspGlnThrPheGlnAlaTyrGlnSerGlyLeuLeu : 256 !||||||! ! !! !... !! !! !||| !!:!:!!||| !! !||| +AlaProHisValValThrSerSerGlyLysSerGlnArgPheLysSerIleSerLeu 59381 : gGCTCCCCATGTGGTAACCTCTTCAGGAAAGTCTCAAAGATTCAAGAGCATTTCACTT : 59326 257 : GlnLysLeuLeuGlnGlu{As} >>>> Target Intron 13 >>>> {p}Leu : 264 |||! ! ! ! !{:!} 16339 bp {!} ! IleLysSerAlaTrpLeu{As}+- ++{n}Gln 59325 : ATTAAATCAGCCTGGCTA{AA}ga..........................ag{t}caA : 42963 265 : AlaTyrAspTyrAspLeuIleIleIleGly{Gl} >>>> Target Intron 14 : 275 .!!||||||! |||::: :::|||{ !} 21381 bp ThrTyrAspSerAspValSerCysLeuGly{Ar}++ 42962 : ACCTACGACTCtgatgtctcctgccttggc{ag}gt...................... : 42926 276 : >>>> {y}GlySerGlyGlyLeuSerCysAlaLysGluAlaAlaIleLeuGly{Ly} : 291 {!}||| !|||..!|||! !|||||| !:!!!.!..! !! ! !{!:} ++{g}GlyHisGlySerLeuLeuCysAlaGlyGlnGlyCysAlaGlnHis{Ar} 42925 : ....ag{G}GGCCACGGCTCCCTCTTGTGTGCGGGGCAGGGCTGCGCTCAGCAC{AG} : 21501 292 : >>>> Target Intron 15 >>>> {s}LysValMetValLeuAspPheValV : 300 3842 bp {!}!..:!! :!!!!!..!|||..! ++ ++{g}SerLeuProMetPheSerPheThrP 21500 : gt..........................ag{A}AGCTTGCCAATGTTCTCCTTCACCC : 17632 301 : alProSerProGlnGlyThrSer{Tr} >>>> Target Intron 16 >>>> { : 308 !! !|||||| |||.!! !{||} 9102 bp { roArgSerProGlyGlyAlaVal{Tr}++ ++{ 17631 : CTCGCTCACCAGGTGGTGCAGTT{TG}gt..........................ag{ : 8504 309 : p}GlyLeuGly{Gl} >>>> Target Intron 17 >>>> {y}ThrCysValA : 316 |}|||||||||{ !} 169 bp {!}!:!||||||! p}GlyLeuGly{Cy}++ ++{s}SerCysValS 8503 : G}GGCCTCGGG{TG}gt..........................ag{C}AGTTGCGTGA : 8313 317 : snValGlyCysIleProLysLysLeuMetHisGlnAlaAla >>>> Target Int : 330 :! !!.!|||||| ! ...:!! ! !! !||| ! 1701 erCysAlaCysIleCysValSerIleSerProLeuAlaGln++ 8312 : GCTGCGCCTGCATCTGCGTCTCCATCTCTCCTCTGGCCCAGgt............... : 8269 331 : ron 18 >>>> LeuLeuGly : 332 bp ||||||||| ++LeuLeuGly 8268 : ...........agCTCCTGGGA : 6562 vulgar: SPP00000036_1.0 15 332 . NIVO01001699.1:subseq(4481833,134981) 133861 6561 - 100 M 3 9 S 0 1 5 0 2 I 0 1376 3 0 2 S 1 2 M 25 75 S 0 2 5 0 2 I 0 4201 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 9530 3 0 2 S 1 2 M 10 30 S 0 1 5 0 2 I 0 4066 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 723 3 0 2 S 1 1 M 19 57 S 0 1 5 0 2 I 0 3427 3 0 2 S 1 2 M 43 129 5 0 2 I 0 24596 3 0 2 M 13 39 S 0 2 5 0 2 I 0 2905 3 0 2 S 1 1 M 18 54 5 0 2 I 0 1821 3 0 2 M 9 27 5 0 2 I 0 683 3 0 2 M 40 120 5 0 2 I 0 18740 3 0 2 M 8 24 5 0 2 I 0 1699 3 0 2 M 25 75 S 0 2 5 0 2 I 0 16335 3 0 2 S 1 1 M 11 33 S 0 2 5 0 2 I 0 21377 3 0 2 S 1 1 M 15 45 S 0 2 5 0 2 I 0 3838 3 0 2 S 1 1 M 16 48 S 0 2 5 0 2 I 0 9098 3 0 2 S 1 1 M 3 9 S 0 2 5 0 2 I 0 165 3 0 2 S 1 1 M 17 51 5 0 2 I 0 1697 3 0 2 M 3 9 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local gene 6562 133861 100 - . gene_id 9 ; sequence SPP00000036_1.0 ; gene_orientation + NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 133852 133861 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 133852 133861 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 133850 133851 . - . intron_id 1 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 132472 133851 . - . intron_id 1 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 132472 132473 . - . intron_id 0 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 132393 132471 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 132393 132471 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 132391 132392 . - . intron_id 2 ; splice_site "AT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 128188 132392 . - . intron_id 2 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 128188 128189 . - . intron_id 1 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 128126 128187 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 128126 128187 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 128124 128125 . - . intron_id 3 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 118592 128125 . - . intron_id 3 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 118592 118593 . - . intron_id 2 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 118559 118591 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 118559 118591 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 118557 118558 . - . intron_id 4 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 114489 118558 . - . intron_id 4 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 114489 114490 . - . intron_id 3 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 114464 114488 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 114464 114488 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 114462 114463 . - . intron_id 5 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 113737 114463 . - . intron_id 5 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 113737 113738 . - . intron_id 4 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 113678 113736 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 113678 113736 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 113676 113677 . - . intron_id 6 ; splice_site "gg" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 110247 113677 . - . intron_id 6 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 110247 110248 . - . intron_id 5 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 110116 110246 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 110116 110246 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 110114 110115 . - . intron_id 7 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 85516 110115 . - . intron_id 7 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 85516 85517 . - . intron_id 6 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 85475 85515 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 85475 85515 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 85473 85474 . - . intron_id 8 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 82566 85474 . - . intron_id 8 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 82566 82567 . - . intron_id 7 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 82511 82565 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 82511 82565 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 82509 82510 . - . intron_id 9 ; splice_site "TT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 80686 82510 . - . intron_id 9 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 80686 80687 . - . intron_id 8 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 80659 80685 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 80659 80685 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 80657 80658 . - . intron_id 10 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 79972 80658 . - . intron_id 10 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 79972 79973 . - . intron_id 9 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 79852 79971 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 79852 79971 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 79850 79851 . - . intron_id 11 ; splice_site "CT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 61108 79851 . - . intron_id 11 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 61108 61109 . - . intron_id 10 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 61084 61107 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 61084 61107 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 61082 61083 . - . intron_id 12 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 59381 61083 . - . intron_id 12 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 59381 59382 . - . intron_id 11 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 59304 59380 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 59304 59380 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 59302 59303 . - . intron_id 13 ; splice_site "GA" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 42965 59303 . - . intron_id 13 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 42965 42966 . - . intron_id 12 ; splice_site "ag" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 42929 42964 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 42929 42964 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 42927 42928 . - . intron_id 14 ; splice_site "gt" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 21548 42928 . - . intron_id 14 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 21548 21549 . - . intron_id 13 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 21500 21547 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 21500 21547 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 21498 21499 . - . intron_id 15 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 17658 21499 . - . intron_id 15 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 17658 17659 . - . intron_id 14 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 17607 17657 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 17607 17657 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 17605 17606 . - . intron_id 16 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 8505 17606 . - . intron_id 16 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 8505 8506 . - . intron_id 15 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 8493 8504 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 8493 8504 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 8491 8492 . - . intron_id 17 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 8324 8492 . - . intron_id 17 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 8324 8325 . - . intron_id 16 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 8272 8323 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 8272 8323 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice5 8270 8271 . - . intron_id 18 ; splice_site "GT" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local intron 6571 8271 . - . intron_id 18 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local splice3 6571 6572 . - . intron_id 17 ; splice_site "AG" NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local cds 6562 6570 . - . NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local exon 6562 6570 . - . insertions 0 ; deletions 0 NIVO01001699.1:subseq(4481833,134981) exonerate:protein2genome:local similarity 6562 133861 100 - . alignment_id 9 ; Query SPP00000036_1.0 ; Align 133862 16 9 ; Align 132470 20 75 ; Align 128187 46 60 ; Align 118590 67 30 ; Align 114487 78 21 ; Align 113736 86 57 ; Align 110245 106 129 ; Align 85516 149 39 ; Align 82565 163 54 ; Align 80686 181 27 ; Align 79972 190 120 ; Align 61108 230 24 ; Align 59381 238 75 ; Align 42964 264 33 ; Align 21547 276 45 ; Align 17657 292 48 ; Align 8504 309 9 ; Align 8323 313 51 ; Align 6571 330 9 # --- END OF GFF DUMP --- # -- completed exonerate analysis