Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q ../SelO-human.fa -t SelO-NIVO01039759.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 2631 Query range: 0 -> 669 Target range: 49906 -> 69275 1 : MetAlaValTyrArgAlaAlaLeuGlyAlaSerLeuAlaAlaAlaArgLeuLeuProLeu : 20 ||||||!.! !||||||!.!|||!.!||||||||||||! !|||||| ||| MetAlaAlaLeuArgAlaValLeuAlaAlaSerLeuAlaGluAlaArgAlaArgProPro 49907 : ATGGCCGCGCTCCGCGCAGTGCTAGCGGCCTCTCTCGCGGAAGCCCgcgcccggccgccg : 49964 21 : GlyArgCysSerProSerProAlaProArgSerThrLeuSerGlyAlaAlaMetGluPro : 40 !! !!! ! !!|||:!! !!|||!!!:!! !! !!.!!.!|||||||||||| ProLeuGlyArgArgProProSerAlaArgCysSerAlaLeuAlaGlyAlaMetGluPro 49965 : cccctcGGCCGCCGCCCGCCGTCCGCCCGCTGCTCCGCGTTGGCCGGCGCCATGGAGCCC : 50024 41 : AlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuProVal : 60 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| AlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuProVal 50025 : GCGCCCCGCTGGCTGGCCGGGCTGCGCTTCGACAACCGCGCCCTGCGCGCGCTGCCGGTG : 50084 61 : GluAlaProProProGlyProGluGlyAlaProSerAlaProArgProValProGlyAla : 80 |||.!!|||||||||||||||||||||||||||||||||||||||||||||||||||||| GluThrProProProGlyProGluGlyAlaProSerAlaProArgProValProGlyAla 50085 : GAGACGCCGCCGCCCGGCCCGGAGGGCGCCCCGTCCGCGCCGCGGCCAGTGCCCGGCGCC : 50144 81 : CysPheThrArgValGlnProThrProLeuArgGlnProArgLeuValAlaLeuSerGlu : 100 ||||||!:!|||!.!!:!||| !|||||||||!:!||||||:!!||||||||||||||| CysPheSerArgAlaArgProGluProLeuArgArgProArgValValAlaLeuSerGlu 50145 : TGCTTCAGCCGCGCGCGGCCCGAGCCCCTGCGGCGGCCGCGCGTCGTGGCGCTGTCGGAG : 50204 101 : ProAlaLeuAlaLeuLeuGlyLeuGlyAlaProProAlaArgGluAla<-><-><-><-> : 117 ||||||||||||||||||||||||! !|||||||||||| !!!:||| ProAlaLeuAlaLeuLeuGlyLeuAspAlaProProAlaAlaAspAlaAlaAlaArgGlu 50205 : CCCGCGCTGGCGCTGCTGGGCCTGGACGCGCCGCCCGCCGCCGACGCCGCCGCCCGCGAG : 50264 118 : <-><->GluAlaGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGlyAlaGlu : 134 |||||||||!.!|||||||||||||||||||||||||||||||||||||||||| AlaArgGluAlaGluValAlaLeuPhePheSerGlyAsnAlaLeuLeuProGlyAlaGlu 50265 : GCGCGCGAGGCCGAGGTTGCGCTCTTCTTCAGCGGCAACGCGCTGCTGCCGGGCGCCGAG : 50324 135 : ProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeuGlyAsp : 154 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeuGlyAsp 50325 : CCCGCCGCGCACTGCTACTGCGGCCACCAGTTCGGCCAGTTCGCCGGGCAGCTGGGCGAC : 50384 155 : GlyAlaAlaMetTyrLeuGlyGluValCysThrAlaThrGlyGluArgTrpGluLeuGln : 174 |||||||||||||||||||||||||||||||||! !.!!||||||||||||||||||||| GlyAlaAlaMetTyrLeuGlyGluValCysThrGluAlaGlyGluArgTrpGluLeuGln 50385 : GGCGCCGCCATGTACCTGGGCGAGGTGTGCACCGAGGCCGGCGAGCGCTGGGAGCTGCAG : 50444 175 : LeuLysGlyAlaGlyProThrProPheSer{Ar} >>>> Target Intron 1 >>> : 185 ||||||||||||||||||||||||||||||{||} 10374 bp LeuLysGlyAlaGlyProThrProPheSer{Ar}++ 50445 : CTCAAGGGCGCGGGgcccacgcccttctcc{ag}gt........................ : 50481 186 : > {g}GlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSer : 203 {|}|||||||||||||||||||||||||||||||||||||||||||||||||||||| ++{g}GlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSer 50482 : .ag{A}CAGGCGGATGGCCGCAAGGTGCTGCGCTCCAGCATCCGCGAGTTCCTGTGCAGC : 60905 204 : GluAlaMetPheHisLeuGlyValProThrThrArgAlaGlyAlaCysValThrSerGlu : 223 |||||||||||||||||||||:!!||||||||||||||||||:!!||||||:!!|||:!! GluAlaMetPheHisLeuGlyIleProThrThrArgAlaGlySerCysValSerSerGln 60906 : GAGGCCATGTTCCACCTGGGCATCCCCACCACGCGGGCCGGCTCCTGCGTCTCCTCCCAG : 60965 224 : SerThrValValArgAspValPheTyrAspGlyAsnProLysTyrGluGlnCysThrVal : 243 |||||||||||||||||| !||||||||||||||||||::! !|||! !|||.!!||| SerThrValValArgAspProPheTyrAspGlyAsnProArgProGluProCysAlaVal 60966 : TCCACCGTCGTGCGTGACCCCTTCTACGACGGGAACCCGCGACCCGAGCCGTGCGCCGTG : 61025 244 : ValLeuArgValAlaSerThrPheIle{Ar} >>>> Target Intron 2 >>>> : 253 |||||||||:!!||| !!||||||:!!{||} 720 bp ValLeuArgLeuAlaProThrPheLeu{Ar}++ ++ 61026 : GTGCTGCGCCTGGCCCCCACGTTCCTC{AG}gt.........................ag : 61775 254 : {g}PheGlySerPheGluIlePheLysSerAlaAspGluHisThrGlyArgAlaGlyPro : 272 {|}|||||||||||||||||||||||| !! !||||||||||||||||||||||||||| {g}PheGlySerPheGluIlePheLysProArgAspGluHisThrGlyArgAlaGlyPro 61776 : {G}TTCGGATCCTTCGAGATCTTCAAGCCCAGAGACGAGCACACGGGCCGGGCGGGCCCC : 61832 273 : SerValGlyArgAsnAspIleArgValGlnLeuLeuAspTyrValIleSerSerPheTyr : 292 ||||||||||||:!!|||||||||:!!|||:!!||||||||||||||||||!!!|||||| SerValGlyArgAspAspIleArgLeuGlnMetLeuAspTyrValIleSerThrPheTyr 61833 : AGCGTGGGGAGGGATGACATCCGCCTGCAGATGCTCGACTACGTCATCAGCACCTTCTAC : 61892 293 : ProGluIleGlnAlaAlaHisAlaSerAspSerValGlnArgAsnAlaAlaPhePheArg : 312 |||||||||||||||:!!||| !!.!!||| !!|||||||||:!!||||||||||||||| ProGluIleGlnAlaSerHisProGlyAspProValGlnArgHisAlaAlaPhePheArg 61893 : CCCGAGATCCAGGCCTCTCACCCCGGAGACCCTGTGCAGAGACATGCCGCCTTCTTCCGG : 61952 313 : Glu >>>> Target Intron 3 >>>> ValThrArgArgThrAlaArgMetValA : 323 ||| 1097 bp |||||||||||||||||||||:!!|||| Glu++ ++ValThrArgArgThrAlaArgLeuValA 61953 : GAGgt.........................agGTGACCCGGCGCACGGCCCGGCTGGTGG : 63082 324 : laGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnThrAspAsnMetSerIleL : 343 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||: laGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnThrAspAsnMetSerIleV 63083 : CTGAgtggcagtgtgtgggcttctgccACGGCGTGCTCAACACAGACAACATGAGCATCG : 63142 344 : euGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp{Ar} >>>> Target I : 357 !!|||||||||||||||||||||||||||||||||||||||{||} 328 alGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp{Ar}++ 63143 : TGGGGCTCACCATCGACTACGGGCCCTTCGGCTTCCTGGAC{AG}gt............. : 63188 358 : ntron 4 >>>> {g}TyrAspProAspHisValCysAsnAlaSerAspAsnThrGlyA : 372 bp {|}|||||||||! !||||||||||||||||||||| !.!!|||| ++{g}TyrAspProGlyHisValCysAsnAlaSerAspAlaAlaGlyA 63189 : ............ag{G}TATGACCCTGGTCACGTGTGCAACGCCTCCGACGCCGCTGGGC : 63557 373 : rgTyrAlaTyrSerLysGlnProGluValCysArgTrpAsnLeuArgLysLeuAlaGluA : 392 |||||:!!|||.!!||||||||||||||||||||||||||||||!:!||||||||||||| rgTyrSerTyrGlyLysGlnProGluValCysArgTrpAsnLeuGlnLysLeuAlaGluA 63558 : GCTACTCGTACGGCAAGCAGCCTGAGGTGTGCAGGTGGAACCTGCAGAAGCTGGCCGAGG : 63617 393 : laLeuGlnProGluLeuProLeuGluLeuGlyGluAlaIleLeuAlaGluGluPheAspA : 412 |||||.!.|||! !|||||||||||||||!.!|||||||||||||||:!!|||||||||| laLeuAspProAlaLeuProLeuGluLeuAlaGluAlaIleLeuAlaGlnGluPheAspA 63618 : CCCTGGACCCCGCGCTGCCCCTCGAGCTGGCCGAGGCCATCCTGGCGCAGGAGTTCGACG : 63677 413 : laGluPheGlnArgHisTyrLeuGlnLysMetArgArgLysLeuGlyLeuValGlnValG : 432 |||||||| |||||||||||||||||||||||||||||||||||||||||||||..!| laGluPheGlyArgHisTyrLeuGlnLysMetArgArgLysLeuGlyLeuValGlnThrG 63678 : CCGAGTTCGGCCGGCACTACCTGCAGAAGATGCGCCGGAAGCTGGGCCTCGTGCAGACGG : 63737 433 : luLeuGluGluAspGlyAlaLeuValSerLysLeuLeuGluThrMetHisLeuThr{G} : 451 ||! !|||! !|||||||||||||||::::::||||||||||||||||||||||||{|} luGlnGluGlyAspGlyAlaLeuValAlaGlnLeuLeuGluThrMetHisLeuThr{G}+ 63738 : AGCAGGAGGGGGATGgcgccctggtggcccagctccTGGAGACCATGCACCTGACC{G}g : 63795 452 : >>>> Target Intron 5 >>>> {ly}AlaAspPheThrAsnThrPheTyrLeuL : 461 4015 bp {||}|||||||||||||||:!!|||||||||| + ++{ly}AlaAspPheThrAsnSerPheTyrLeuL 63796 : t.........................ag{GG}GCTGACTTCACAAACTCCTTCTACCTGC : 67839 462 : euSerSerPheProValGluLeuGluSerProGlyLeuAlaGluPheLeuAlaArgLeuM : 481 ||||||||||||||!.!! !! !|||||||||! !|||! !|||||||||||| !:!!! euSerSerPheProAlaAlaProGluSerProAspLeuAspGluPheLeuAlaAlaMetT 67840 : TGAGCTCTTTCCCAGCTGCGCCGGAGTCCCCAGACCTGGATGAGTTCCTGGCTGCGATGA : 67899 482 : etGluGlnCysAlaSerLeuGluGluLeuArgLeuAlaPheArgProGlnMetAspPro{ : 501 ! !||||||||||||||||||||||||||||||||||||||||||||||||||||||{ hrAlaGlnCysAlaSerLeuGluGluLeuArgLeuAlaPheArgProGlnMetAspPro{ 67900 : CTGCACAGTGTGCCTCCCTGGAGGAGCTGAGGCTTGCCTTCCGACCCCAGATGGATCCC{ : 67959 502 : Ar} >>>> Target Intron 6 >>>> {g}GlnLeuSerMetMetLeuMetLeuA : 510 ||} 586 bp {|}||||||:!!|||||||||||||||| Ar}++ ++{g}GlnLeuAlaMetMetLeuMetLeuA 67960 : CG}gt.........................ag{G}CAGCTGGCCATGATGCTCATGCTGG : 68572 511 : laGlnSerAsnProGlnLeuPheAlaLeuMetGlyThrArgAlaGlyIleAlaArgGluL : 530 ||||||||||||||||||||.!.||||||!!:||||||||||||.!!:!:|||||||||| laGlnSerAsnProGlnLeuLeuAlaLeuIleGlyThrArgAlaSerLeuAlaArgGluL 68573 : CGCAGTCAAACCCGCAGCTCCTGGCGCTGATCGGCACGCGGGCGAGCCTGGCTCGGGAGC : 68632 531 : euGluArgValGluGlnGlnSerArgLeuGluGlnLeuSerAlaAlaGluLeuGlnSerA : 550 |||||||||||||||||||||||!:!|||||||||||||||! !|||||||||!!.|||! euGluArgValGluGlnGlnSerGlnLeuGluGlnLeuSerGluAlaGluLeuHisSerL 68633 : TGGAGCGCGTGGAGCAGCAGTCGCAGCTAGAGCAGCTGAGCGAGGCCGAGCTGCACAGCA : 68692 551 : rgAsnGlnGlyHisTrpAlaAspTrpLeuGlnAlaTyr{Ar} >>>> Target Intr : 563 :!|||::!.!!!.!||||||! ||||||!!.! !|||{||} 92 bp ysAsnArgSerArgTrpAlaAlaTrpLeuHisAspTyr{Ar}++ 68693 : AGAACAGGAGCCGCTGGGCCGCGTGGCTCCACGACTAC{AG}gt................ : 68735 564 : on 7 >>>> {g}AlaArgLeuAspLysAspLeuGluGlyAlaGlyAspAlaAlaAlaT : 579 {|}|||||||||!!:||||||! !|||!.!::!||||||||||||.!!| ++{g}AlaArgLeuGluLysAspArgGluAlaSerGlyAspAlaAlaThrT 68736 : .........ag{G}GCCCGGCTGGAGAAGGACCGGGAGGCCAGCGGCGACGCGGCCACCT : 68871 580 : rpGlnAlaGluHisValArgValMetHisAlaAsnAsnProLysTyrValLeuArgAsnT : 599 |||||||||||!.!..!|||||||||!.!||||||||||||||||||||||||||||||| rpGlnAlaGluArgThrArgValMetArgAlaAsnAsnProLysTyrValLeuArgAsnT 68872 : GGCAGGCCGAGCGCACACGTGTCATGCGTGCCAACAACCCCAAGTACGTGCTGAGGAACT : 68931 600 : yrIleAlaGlnAsnAlaIleGluAlaAlaGluArgGlyAspPheSerGlu >>>> Tar : 616 |||||||||||..!||||||||||||||||||!!!||||||||||||||| yrIleAlaGlnGlyAlaIleGluAlaAlaGluSerGlyAspPheSerGlu+- 68932 : ACATTGCACAGGGCGCCATTGAAGCTGCGGAGAGCGGTGACTTCTCGGAGgc........ : 68984 617 : get Intron 8 >>>> ValArgArgValLeuLysLeuLeuGluThrProTyrHisCy : 629 111 bp |||||||||||||||||||||||||||||||||||| ! ! ++ValArgArgValLeuLysLeuLeuGluThrProTyrGlyGl 68985 : .................agGTGCGGCGGGTGTTGAAGCTGCTGGAGACCCCTTACGGCGG : 69132 630 : sGluAlaGlyAlaAla<-><-><->ThrAspAlaGluAlaThrGluAla<-><-><-><- : 643 ||||||! !|||||| .!!! !|||||||||!:!|||||| yGluAlaGluAlaAlaGluProGluAlaAlaAlaGluAlaSerGluAlaAlaAlaGluTh 69133 : GGAGGCAGAGGCTGCCGAGCCCGAGGCGGCCGCGGAGGCCAGCGAGGCGGCTGCAGAGAC : 69192 644 : >AspGlyAlaAspGlyArgGlnArgSerTyrSerSerLysProProLeuTrpAlaAlaGl : 662 ! !||||||! !||||||!:!|||||||||||||||||||||||||||||||||||||| rGlyGlyAlaAlaGlyArgArgArgSerTyrSerSerLysProProLeuTrpAlaAlaGl 69193 : CGGCGGGGCAGCCGGCCGGCGGCGCTCCTACAGCAGCAAGCCCCCGCTCTGGGCGGCAGA : 69252 663 : uLeuCysValThrUnkSerSer : 669 ||||||||||||| |||||| uLeuCysValThr***SerSer 69253 : GCTGTGCGTGACGTGATCCTCG : 69275 vulgar: SPP00000019_1.0 0 669 . NIVO01039759.1:subseq(161102,119275) 49906 69275 + 2631 M 116 348 G 0 18 M 68 204 S 0 2 5 0 2 I 0 10370 3 0 2 S 1 1 M 67 201 S 0 2 5 0 2 I 0 716 3 0 2 S 1 1 M 60 180 5 0 2 I 0 1093 3 0 2 M 43 129 S 0 2 5 0 2 I 0 324 3 0 2 S 1 1 M 93 279 S 0 1 5 0 2 I 0 4011 3 0 2 S 1 2 M 49 147 S 0 2 5 0 2 I 0 582 3 0 2 S 1 1 M 61 183 S 0 2 5 0 2 I 0 88 3 0 2 S 1 1 M 52 156 5 0 2 I 0 107 3 0 2 M 19 57 G 0 9 M 8 24 G 0 12 M 27 81 # --- 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 49907 69275 2631 + . gene_id 1 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 49907 50478 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 49907 50478 . + . insertions 18 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 50479 50480 . + . intron_id 1 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 50479 60852 . + . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 60851 60852 . + . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 60853 61056 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 60853 61056 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 61057 61058 . + . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 61057 61776 . + . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 61775 61776 . + . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 61777 61957 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 61777 61957 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 61958 61959 . + . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 61958 63054 . + . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 63053 63054 . + . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 63055 63185 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 63055 63185 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 63186 63187 . + . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 63186 63513 . + . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 63512 63513 . + . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 63514 63794 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 63514 63794 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 63795 63796 . + . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 63795 67809 . + . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 67808 67809 . + . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 67810 67960 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 67810 67960 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 67961 67962 . + . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 67961 68546 . + . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 68545 68546 . + . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 68547 68732 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 68547 68732 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 68733 68734 . + . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 68733 68824 . + . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 68823 68824 . + . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 68825 68981 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 68825 68981 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 68982 68983 . + . intron_id 8 ; splice_site "GC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 68982 69092 . + . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 69091 69092 . + . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 69093 69275 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 69093 69275 . + . insertions 21 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 49907 69275 2631 + . alignment_id 1 ; Query SPP00000019_1.0 ; Align 49907 1 348 ; Align 50273 117 204 ; Align 60854 186 201 ; Align 61778 254 180 ; Align 63055 314 129 ; Align 63515 358 279 ; Align 67812 452 147 ; Align 68548 502 183 ; Align 68826 564 156 ; Align 69093 616 57 ; Align 69159 635 24 ; Align 69195 643 81 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 118 Query range: 8 -> 253 Target range: 25062 -> 89315 9 : GlyAlaSerLeuAlaAlaAlaArgLeuLeuProLeuGlyArgCysSerPro >>>> Ta : 26 ||||||:!! !..!::!..! !|||! !|||:!!|||||||||.!!||| GlyAlaAlaGlyCysSerCysAlaLeuCysProValGlyArgCysGlyPro+- 25063 : GGGGCCGCCGGCTGCAGCTGTGCCCTCTGTCCCGTGGGAAGGTGTGGGCCAgc....... : 25116 27 : rget Intron 1 >>>> SerProAlaProArgSerThrLeuSerGlyAlaAlaMetG : 39 4731 bp |||||||||! ! ! !! !! !!!!|||:!!::!..!! ++SerProAlaGlnValProGlyProCysGlySerSerGlnA 25117 : ..................agAGTCCAGCCCAGGTCCCTGGCCCCTGTGGGTCGAGTCAGG : 29884 40 : luProAlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuP : 59 !:||| !|||! ! ||| !||| ! ! !!!:!..||||||! !!.!.!!! ! spProTrpProLeuLeuLeuGlnGlyArgValThrGluThrArgAlaCysHisThrTrpS 29885 : ACCCGTGGCCGCTGCTCCTCCAGGGCAGGGTCACTGAGACGCGTGCGTGCCACACGTGGT : 29944 60 : roVal >>>> Target Intron 2 >>>> GluAlaProProProGlyProGluGl : 69 !!:!! 4710 bp ! .!! |||||| |||... erLeu-+ ++AlaThrSerProProLeuProSerPr 29945 : CCCTGct.........................agGCCACCagccccccactcccctcccc : 34684 70 : yAlaProSer<->AlaProArgProValProGlyAlaCysPheThrArgValGlnProTh : 88 ||||||::: !.!||||||||| ! !||||||... ! !|||! !!:! !:! oAlaProAlaGluGlyProArgProSerValGlyAlaAlaGlyTrpArgGlyArgGlySe 34685 : ggcccccgccGAGGGACCCCGTCCGTCTGTGGGCGCCGCGGGCTGGCGTGGGCGGGGCTC : 34744 89 : rProLeuArgGlnPro{Ar} >>>> Target Intron 3 >>>> {g}Leu<->Va : 96 !! !|||! !||||||{||} 7905 bp {|}||| || rLeuLeuProGlnPro{Ar}++ ++{g}LeuHisVa 34745 : CCTGTTACCTCAGCCA{CG}gt.........................ag{G}CTTCACGT : 42676 97 : lAlaLeuSerGluProAlaLeuAlaLeuLeuGlyLeuGlyAlaProProAlaArgGlu : 116 |:!!:!!||||||||| !! !|||:!! !! !! !! !! !! !||| !!|||||| lSerValSerGluProLeuProAlaMetGluGluProGluGluGlnProProArgGlu++ 42677 : GTCGGTGTCAGAGCCGCTGCCAGCCATGGAGGAGCCGGAGGAGCAGCCACCCCGCGAGgt : 42736 117 : >>>> Target Intron 4 >>>> AlaGluAlaGluAlaAla >>>> Target I : 122 199 bp |||!!:.!!||| !!!.! 476 ++AlaAspThrGluProVal++ 42737 : .........................agGCCGACACAGAGCCCGTCgt............. : 42955 123 : ntron 5 >>>> LeuPhePheSerGlyAsnAlaLeuLeuProGlyAlaGluProAla : 137 bp ||| !||| ! !! |||:!!! ! !!!.!|||||||||!.! -+LeuGlyPheLeuCys***AlaValCysAlaAlaAlaGluProGly+ 42956 : ............tgCTGGGCTTCCTGTGCTGAGCTGTGTGCGCAGCGGCCGAGCCGGGGg : 43474 138 : >>>> Target Intron 6 >>>> AlaHisCysTyrCysGly{H} >>>> Targ : 143 456 bp !.!||| !! ! |||{.} + ++GlyHisSerThrLysGly{G}++ 43475 : t.........................agGGACACAGCACCAAGGGA{G}gt......... : 43951 144 : et Intron 7 >>>> {is}GlnPheGlyGlnPheAlaGlyGlnLeuGlyAspGlyAl : 156 8243 bp {!.}.!. ! |||::! !|||..!||| ! !... !!:: ++{lu}AspValGlyArgGlyAlaSerGlnAlaProSerCysSe 43952 : ................ag{AG}GACGTGGGTAGGGGTGCATCCCAGGCACCTTCATGCAG : 52230 157 : aAlaMetTyrLeuGlyGlu >>>> Target Intron 8 >>>> ValCysThrAla : 166 !!.!:!: !||| !!:!! 4455 bp !||| !!! ! rValLeuValLeuTrpGln++ ++ArgCysProAsp 52231 : CGTCCTTGTCCTTTGGCAGgt.........................agCGTTGCCCTGAC : 56715 167 : ThrGlyGluArgTrpGluLeuGlnLeuLysGlyAlaGlyProThrProPheSerArgGln : 186 ||| !!...||| ..!! !!!. !||| !!.!|||! !! !||| !.!!!.!:!! ThrArgSerArgGlnArgGlnHisLysLysThrValGlyGlnIleProHisGlyHisLys 56716 : ACCAGATCTAGACAAAGGCAGCACAAGAAAACGGTAGGCCAGATCCCTCATGGACACAAA : 56775 187 : AlaAspGlyArgLysValLeuArgSerSerIleArgGlu >>>> Target Intron : 200 ||| ! !!.!!:!..!|||!:!!!!..!! !!.!.!. 300 bp AlaPheLeuAsnArgThrLeuGlnThrGluThrAsnAsn++ 56776 : GCATTCCTCAACAGAACATTGCAAACAGAAACCAACAATgt................... : 56819 201 : 9 >>>> PheLeuCysSerGluAlaMetPheHisLeuGlyValProThrThrArgAlaG : 217 !!:!: ... |||||||||||| !..! !!:!! !!:! !! ++ValIleAsnLysAlaArgMetPheHisLeuThrThrAlaSerGlnGlnProT 56820 : ......agGTCATaaacaaggcaaggatgttcCATCTCACCACTGCTTCTCAGCAGCCCT : 57168 218 : lyAlaCysValThrSerGluSer{T} >>>> Target Intron 10 >>>> {hr} : 225 !! !! ! ! !! !:!!..!{ } 32037 bp { !} rpArgSerSerLeuMetGlnGln{G}++ -+{ly} 57169 : GGAGGTCCTCGCTAATGCAACAA{G}gt..........................gg{GG} : 89230 226 : ValValArgAspValPheTyrAspGlyAsnProLysTyrGluGlnCysThrValValLeu : 245 |||:!!!:!!!:||| ! .!.||| ||| !::..!!!.|||:!! !! ! ! ValLeuGlnGluValGlnGluGlnGlyLeuProAlaTrpSerHisCysSerLysGluAla 89231 : GTTCTGCAGGAAGTTCAAGAACAGGGTTTACCAGCCTGGTCACACTGTTCAAAAGAGGCC : 89289 246 : ArgValAlaSerThrPheIleArg : 253 !:!! !.!!:!! !!||||||||| LysGluThrAlaProPheIleArg 89290 : AAAGAGACAGCACCATTTATTAGA : 89315 vulgar: SPP00000019_1.0 8 253 . NIVO01039759.1:subseq(161102,119275) 25062 89315 + 118 M 17 51 5 0 2 I 0 4727 3 0 2 M 35 105 5 0 2 I 0 4706 3 0 2 M 12 36 G 0 3 M 21 63 S 0 2 5 0 2 I 0 7901 3 0 2 S 1 1 M 1 3 G 0 3 M 20 60 5 0 2 I 0 195 3 0 2 M 6 18 5 0 2 I 0 472 3 0 2 M 15 45 5 0 2 I 0 452 3 0 2 M 6 18 S 0 1 5 0 2 I 0 8239 3 0 2 S 1 2 M 19 57 5 0 2 I 0 4451 3 0 2 M 37 111 5 0 2 I 0 296 3 0 2 M 25 75 S 0 1 5 0 2 I 0 32033 3 0 2 S 1 2 M 28 84 # --- 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 25063 89315 118 + . gene_id 2 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 25063 25113 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 25063 25113 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 25114 25115 . + . intron_id 1 ; splice_site "GC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 25114 29844 . + . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 29843 29844 . + . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 29845 29949 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 29845 29949 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 29950 29951 . + . intron_id 2 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 29950 34659 . + . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 34658 34659 . + . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 34660 34763 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 34660 34763 . + . insertions 3 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 34764 34765 . + . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 34764 42668 . + . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42667 42668 . + . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42669 42735 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42669 42735 . + . insertions 3 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 42736 42737 . + . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 42736 42934 . + . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42933 42934 . + . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42935 42952 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42935 42952 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 42953 42954 . + . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 42953 43428 . + . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 43427 43428 . + . intron_id 4 ; splice_site "TG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 43429 43473 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 43429 43473 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 43474 43475 . + . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 43474 43929 . + . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 43928 43929 . + . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 43930 43948 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 43930 43948 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 43949 43950 . + . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 43949 52191 . + . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 52190 52191 . + . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 52192 52250 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 52192 52250 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 52251 52252 . + . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 52251 56705 . + . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 56704 56705 . + . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 56706 56816 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 56706 56816 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 56817 56818 . + . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 56817 57116 . + . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 57115 57116 . + . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 57117 57192 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 57117 57192 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 57193 57194 . + . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 57193 89229 . + . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 89228 89229 . + . intron_id 9 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 89230 89315 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 89230 89315 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 25063 89315 118 + . alignment_id 2 ; Query SPP00000019_1.0 ; Align 25063 9 51 ; Align 29845 26 105 ; Align 34660 61 36 ; Align 34699 73 63 ; Align 42670 95 3 ; Align 42676 96 60 ; Align 42935 116 18 ; Align 43429 122 45 ; Align 43930 137 18 ; Align 52194 144 57 ; Align 56706 163 111 ; Align 57117 200 75 ; Align 89232 226 84 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 106 Query range: 8 -> 212 Target range: 4956 -> 106454 9 : GlyAlaSerLeuAlaAlaAlaArgLeu >>>> Target Intron 1 >>>> Le : 18 |||!.!|||||| !|||!.!|||||| 5713 bp || GlyGlySerLeuMetAlaGlyArgLeu++ -+Le 4957 : GGTGGCAGCCTCATGGCTGGCAGGCTGgt.........................ggct : 10697 19 : uProLeuGlyArgCys >>>> Target Intron 2 >>>> SerProSerProA : 28 | ||||||||| 22681 bp .!!|||.!! ! uSerLeuGlyArgGlu++ ++GlyProGlyLysG 10698 : cagtcttggGAGGGAGgt.........................agGGCCCCGGGAAGC : 33408 29 : laProArgSerThrLeuSerGlyAlaAla >>>> Target Intron 3 >>>> : 38 !||||||!!!! ! !.!!||| !.!! 4107 bp lnProArg***ArgAlaGlyGlyHisThr++ ++ 33409 : AGCCGCGATGAAGGGCCGGGGGGCACACGgt.........................ag : 37543 39 : MetGluProAlaProArg{T} >>>> Target Intron 4 >>>> {rp}LeuA : 46 :!:..!||||||||| !{ } 5371 bp {! }! ! LeuArgProAlaProSer{G}++ ++{ly}ArgH 37544 : CTCCGGCCCGCCCCGTCC{G}gt.........................ag{GC}CGAC : 42940 47 : laGlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuProValGluAlaProProPr : 65 ! !! !||| !||| !|||!.!||||||!.! ! !! !! ||||||! ! isArgAlaArgArgAspPheArgGlyLeuArgGlySerAlaGlnGlyAlaProArgAr 42941 : ACAGAGCCCGTCGTGACTTCAGGGGCCTCAGAGGCAGTGCCCAGGGTGCTCCCCGGAG : 42997 66 : oGlyProGluGly{Al} >>>> Target Intron 5 >>>> {a}Pro{S} > : 72 ! !|||||| !{!.} 5517 bp {!}|||{.} gProProGluPro{Va}++ ++{l}Pro{G}++ 42998 : ACCCCCAGAACCT{GT}gt.........................ag{G}CCA{G}gt. : 48538 73 : >>> Target Intron 6 >>>> {er}AlaProArgProValProGlyAlaCysP : 82 12463 bp {!!} !|||||||||! !||| !!||| -+{ly}AsnProArgProGluProCysAlaValV 48539 : ........................cg{GG}AACCCGCGACCCGAGCCGTGCGCCGTGG : 61028 83 : heThrArgValGlnProThrProLeu{Ar} >>>> Target Intron 7 >>>> : 91 ! !|||:!! |||||| !|||{||} 2406 bp alLeuArgLeuAlaProThrPheLeu{Ar}++ - 61029 : TGCTGCGCCTGGCCCCCACGTTCCTC{AG}gt.........................c : 63461 92 : {g}GlnProArgLeuValAlaLeuSerGluProAlaLeuAlaLeuLeuGly{Le} : 108 {|} |||!:!! !||| !!|||.!! !! !! ! !|||! !|||{ } +{g}ValProGlnTrpValProLeuGlyThrThrHisSerTyrLeuCysGly{Ar}++ 63462 : g{G}GTCCCTCAGTGGGTCCCTTTAGGCACCACCCACTCTTACCTGTGCGGC{AG}gt : 63514 109 : >>>> Target Intron 8 >>>> {u}GlyAlaProProAlaArgGluAlaGluA : 118 3681 bp {!}||| |||! !|||! !!!:::!|||. ++{g}Gly***ProHisAlaLeuAspSerGluC 63515 : .........................ag{g}ggttgaccCCACGCCCTTGACAGTGAAT : 67223 119 : laGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGlyAlaGluProAlaAl : 137 .!! !||| ! ! ||||||!:!||||||:!!! !..! !... !!!.! ysAlaAlaLeuThrThrGlySerGlySerAlaLeuValArgSerLeuSerThrGlyLe 67224 : GCGCAGCGCTGACCACGGGGTCAGGCAGCGCCCTAGTCCGTTCACTTTCCACGGGGCT : 67280 138 : aHis >>>> Target Intron 9 >>>> Cys{T} >>>> Target Intro : 140 !!!. 32058 bp ...{ } 3267 bp uGln++ ++Ala{A}++ 67281 : GCAGgt.........................agGCA{G}gt................. : 99350 141 : n 10 >>>> {yr}CysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeu{Gl} > : 153 { }||| !|||..! |||||| ::!!.!!::|||{||} ++{la}CysProHisSerProGlyGlnGluSerAlaArgLeu{Gl}++ 99351 : .........ag{CG}TGCCCACACTCGCCGGGCCAGGAGAGCGCCCGTCTG{GG}gt. : 102657 154 : >>> Target Intron 11 >>>> {y}AspGlyAlaAlaMetTyrLeuGlyGluV : 163 1443 bp {|}...||| ! !!.!. ! ! ! !! ++{y}SerGlyArgProPheMet***PheLeuA 102658 : .........................ag{C}TCAGGGAGGCCCTTCATGTAGTTCTTGG : 104126 164 : alCysThrAla{T} >>>> Target Intron 12 >>>> {hr}GlyGluArgT : 171 .!|||.!!!.!{.} 2179 bp {!!}|||:!! !! laCysAlaGly{A}+- -+{la}GlyLysGlyG 104127 : CCTGTGCGGGA{G}ga..........................cg{cc}gGCAAAGGTC : 106329 172 : rpGluLeuGlnLeuLysGlyAlaGlyProThrProPheSerArgGlnAlaAspGlyAr : 190 !:!!|||||||||:!!!.! ! !! ! !||| ! !!||| ! !||| !! ! lnGlnLeuGlnLeuGlnAlaGlnProGlnGlyProArgProArgAlaArgAspArg** 106330 : AGCAGCTCCAGTTACAGGCACAGCCTCAGGGCCCACGTCCCAGAGCACGGGACCGCTG : 106386 191 : gLysValLeuArgSerSerIleArgGluPheLeuCysSerGluAlaMetPheHisLeu : 209 !:!! !||| !! !!!!!:!!! ! .!. ! ..!||||||..! !!|||! ! *GlnProLeuGlyProArgLeuThrProLeuAlaLeuGluGluAlaGlnValHisPro 106387 : ACAGCCCCTGGGGCCAAGACTCACACCTCTGGCACTGGAGGAGGCCCAGGTCCACCCC : 106443 210 : GlyValPro : 212 !.!!.!||| AlaAlaPro 106444 : GCGGCACCA : 106454 vulgar: SPP00000019_1.0 8 212 . NIVO01039759.1:subseq(161102,119275) 4956 106454 + 106 M 9 27 5 0 2 I 0 5709 3 0 2 M 6 18 5 0 2 I 0 22677 3 0 2 M 14 42 5 0 2 I 0 4103 3 0 2 M 6 18 S 0 1 5 0 2 I 0 5367 3 0 2 S 1 2 M 25 75 S 0 2 5 0 2 I 0 5513 3 0 2 S 1 1 M 1 3 S 0 1 5 0 2 I 0 12459 3 0 2 S 1 2 M 18 54 S 0 2 5 0 2 I 0 2402 3 0 2 S 1 1 M 16 48 S 0 2 5 0 2 I 0 3677 3 0 2 S 1 1 M 30 90 5 0 2 I 0 32054 3 0 2 M 1 3 S 0 1 5 0 2 I 0 3263 3 0 2 S 1 2 M 12 36 S 0 2 5 0 2 I 0 1439 3 0 2 S 1 1 M 13 39 S 0 1 5 0 2 I 0 2175 3 0 2 S 1 2 M 45 135 # --- 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 4957 106454 106 + . gene_id 3 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 4957 4983 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 4957 4983 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 4984 4985 . + . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 4984 10696 . + . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 10695 10696 . + . intron_id 0 ; splice_site "gg" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 10697 10714 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 10697 10714 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 10715 10716 . + . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 10715 33395 . + . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 33394 33395 . + . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 33396 33437 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 33396 33437 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 33438 33439 . + . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 33438 37544 . + . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 37543 37544 . + . intron_id 2 ; splice_site "aG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 37545 37563 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 37545 37563 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 37564 37565 . + . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 37564 42934 . + . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42933 42934 . + . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42935 43013 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42935 43013 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 43014 43015 . + . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 43014 48530 . + . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 48529 48530 . + . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 48531 48535 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 48531 48535 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 48536 48537 . + . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 48536 60998 . + . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 60997 60998 . + . intron_id 5 ; splice_site "CG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 60999 61056 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 60999 61056 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 61057 61058 . + . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 61057 63462 . + . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 63461 63462 . + . intron_id 6 ; splice_site "CG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 63463 63513 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 63463 63513 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 63514 63515 . + . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 63514 67194 . + . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 67193 67194 . + . intron_id 7 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 67195 67285 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 67195 67285 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 67286 67287 . + . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 67286 99343 . + . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 99342 99343 . + . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 99344 99347 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 99344 99347 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 99348 99349 . + . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 99348 102614 . + . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 102613 102614 . + . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 102615 102654 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 102615 102654 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 102655 102656 . + . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 102655 104097 . + . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 104096 104097 . + . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 104098 104138 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 104098 104138 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 104139 104140 . + . intron_id 12 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 104139 106317 . + . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 106316 106317 . + . intron_id 11 ; splice_site "cg" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 106318 106454 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 106318 106454 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 4957 106454 106 + . alignment_id 3 ; Query SPP00000019_1.0 ; Align 4957 9 27 ; Align 10697 18 18 ; Align 33396 24 42 ; Align 37545 38 18 ; Align 42937 45 75 ; Align 48532 71 3 ; Align 61001 73 54 ; Align 63464 92 48 ; Align 67196 109 90 ; Align 99344 139 3 ; Align 102617 141 36 ; Align 104099 154 39 ; Align 106320 168 135 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 104 Query range: 14 -> 184 Target range: 13359 -> 116035 15 : AlaArgLeuLeuProLeuGlyArg >>>> Target Intron 1 >>>> CysSe : 24 !.!||||||:!!||| !|||!:! 18455 bp ! || GlyArgLeuValProLysGlyGln++ ++ArgSe 13360 : GGCCGCCTCGTACCCAAGGGGCAGgt.........................agAGGAG : 31842 25 : rProSerProAlaProArgSerThrLeuSerGlyAlaAlaMetGluProAlaProArg : 43 ||||! ! !!||| !!||| !!||| !||| !|||.!!! !... ! !||| ! rProPheThrAlaThrArgArgThrThrSerProAlaThrArgArgCysMetProAla 31843 : CCCATTTACTGCTACACGCCGCACAACTTCACCCGCGACCAGGCGCTGTATGCCCGCG : 31899 44 : TrpLeuAlaGlyLeu{Ar} >>>> Target Intron 2 >>>> {g}PheAspA : 52 !||||||! !{||} 20332 bp {|}! |||. AlaThrAlaGlyArg{Ar}-+ ++{g}***AspG 31900 : GCTACTGCTGGACGG{AG}ct.........................ag{G}TGAGACG : 52258 53 : sn{A} >>>> Target Intron 3 >>>> {rg}AlaLeuArgAlaLeuProVa : 60 ..{|} 10032 bp {||}|||:!!!:!||||||||| ly{A}++ ++{rg}AlaValGlnAlaLeuProGl 52259 : GA{A}gt.........................ag{GG}GCCGTGCAGGCACTCCCGCA : 62314 61 : l >>>> Target Intron 4 >>>> GluAlaProProProGlyProGluGlyA : 70 ! 10970 bp ! !||||||||| !!..!|||||||||: n++ +-ValAlaProProThrSerProGluGlyS 62315 : Agt.........................atGTGGCACCGCCCACGTCACCTGAGGGCA : 73314 71 : laProSerAlaProArgProValPro<->GlyAla{Cy} >>>> Target Intro : 81 :!|||:!!:!!||| !!! !!.!||| |||.!!{||} 4835 bp erProAlaSerProGlyHisAlaProLeuGlyThr{Cy}++ 73315 : GCCCAGCCTCTCCTGGTCACGCCCCTCTGGGCACC{TG}gt................. : 73354 82 : n 5 >>>> {s}PheThrArgValGlnProThr >>>> Target Intron 6 > : 89 {|}||| !!:! !:!!|||! ! 17451 bp ++{s}PheLeuLysArgLysProMet++ 73355 : ........ag{C}TTCTTGAAGAGAAAGCCGATGgt...................... : 78211 90 : >>> ProLeuArgGlnProArgLeuValAlaLeuSerGluPro >>>> Target : 102 ||| !!.!:!!||| !!|||! !||||||..!:!!||| 225 ++ProAlaHisGluProCysLeuGlyAlaLeuAspGlnPro+- 78212 : ...agCCAGCCCACGAGCCCTGCCTTGGAGCCTTGGACCAGCCAgg............ : 95701 103 : Intron 7 >>>> AlaLeuAlaLeuLeuGly{L} >>>> Target Intron 8 : 108 7 bp |||:!! !:!!||| !{ } 3921 bp ++AlaValLeuIleLeuLys{S}++ 95702 : .............agGCTGTGCTCATCCTGAAA{A}gt.................... : 97977 109 : >>>> {eu}GlyAlaProProAlaArgGluAlaGluAlaGluAlaAlaLeuPhePh : 124 { !}||||||||| !! ! !:!!! !...:!!:!!!.!..!|||.!! ++{er}GlyAlaProAlaArgAlaGlnGluSerSerGlnGlyCysLeuLeuGl 97978 : .....ag{GT}GGAGCCCCAGCCAGGGCCCAGGAGTCTTCACAAGGCTGTCTCCTTGG : 101943 125 : eSerGlyAsnAlaLeuLeuProGlyAlaGluProAlaAlaHisCysTyrCysGlyHis : 143 .!! !..! !!! !||||||||| ! !|||! !||| !!:! !! !! yGlyLeuGlyProGlnLeuProGlyArgLeuGluAlaGluHisLeuPheIleCysAsp 101944 : AGGCCTTGGCCCCCAGCTGCCGGGGAGGCTTGAAGCTGAGCACCTCTTTATATGTGAC : 102000 144 : GlnPheGlyGln >>>> Target Intron 9 >>>> PheAlaGlyGlnLeuGl : 153 ! |||||| 6476 bp .!. ! || Thr***GlyGln+- ++LeuProGlnProGlnGl 102001 : ACCTGAGGCCAGga.........................agCTGCCgcagccccaggg : 108506 154 : yAspGlyAlaAlaMetTyrLeu{Gl} >>>> Target Intron 10 >>>> {y : 161 | ||||||!.! |||{||} 2575 bp {| yTrpGlyAlaGlyGlyArgLeu{Gl}++ +-{y 108507 : ctggggcGCAGGAGGCAGACTG{GG}gt..........................aa{A : 111107 162 : }GluValCysThrAlaThrGlyGluArgTrpGluLeuGlnLeuLys{G} >>>> Ta : 177 } ! !||| !! ! !:! ...||| |||:!!{|} }ThrProValGlnAlaLeuAspThrGlnThrSerLeuValLeuGln{G}++ 111108 : }ACTCCCGTGCAGGCACTTGACACTCAGACCTCCCTGGTCCTGCAG{G}gt....... : 111156 178 : rget Intron 11 >>>> {ly}AlaGlyProThrProPheSer : 184 4859 bp {||}||||||||| !|||.!.!!! ++{ly}AlaGlyProLeuProLeuThr 111157 : ...................ag{gg}gcAGGTCCCCTTCCACTGACC : 116035 vulgar: SPP00000019_1.0 14 184 . NIVO01039759.1:subseq(161102,119275) 13359 116035 + 104 M 8 24 5 0 2 I 0 18451 3 0 2 M 26 78 S 0 2 5 0 2 I 0 20328 3 0 2 S 1 1 M 3 9 S 0 1 5 0 2 I 0 10028 3 0 2 S 1 2 M 7 21 5 0 2 I 0 10966 3 0 2 M 18 54 G 0 3 M 2 6 S 0 2 5 0 2 I 0 4831 3 0 2 S 1 1 M 7 21 5 0 2 I 0 17447 3 0 2 M 13 39 5 0 2 I 0 2253 3 0 2 M 6 18 S 0 1 5 0 2 I 0 3917 3 0 2 S 1 2 M 39 117 5 0 2 I 0 6472 3 0 2 M 13 39 S 0 2 5 0 2 I 0 2571 3 0 2 S 1 1 M 15 45 S 0 1 5 0 2 I 0 4855 3 0 2 S 1 2 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 13360 116035 104 + . gene_id 4 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 13360 13383 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 13360 13383 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 13384 13385 . + . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 13384 31838 . + . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 31837 31838 . + . intron_id 0 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 31839 31918 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 31839 31918 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 31919 31920 . + . intron_id 2 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 31919 52250 . + . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 52249 52250 . + . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 52251 52261 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 52251 52261 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 52262 52263 . + . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 52262 62293 . + . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 62292 62293 . + . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 62294 62316 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 62294 62316 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 62317 62318 . + . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 62317 73286 . + . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 73285 73286 . + . intron_id 3 ; splice_site "AT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 73287 73351 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 73287 73351 . + . insertions 3 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 73352 73353 . + . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 73352 78186 . + . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 78185 78186 . + . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 78187 78208 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 78187 78208 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 78209 78210 . + . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 78209 95659 . + . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 95658 95659 . + . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 95660 95698 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 95660 95698 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 95699 95700 . + . intron_id 7 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 95699 97955 . + . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 97954 97955 . + . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 97956 97974 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 97956 97974 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 97975 97976 . + . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 97975 101895 . + . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 101894 101895 . + . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 101896 102014 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 101896 102014 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 102015 102016 . + . intron_id 9 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 102015 108490 . + . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 108489 108490 . + . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 108491 108531 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 108491 108531 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 108532 108533 . + . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 108532 111106 . + . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 111105 111106 . + . intron_id 9 ; splice_site "AA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 111107 111153 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 111107 111153 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 111154 111155 . + . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 111154 116012 . + . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 116011 116012 . + . intron_id 10 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 116013 116035 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 116013 116035 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 13360 116035 104 + . alignment_id 4 ; Query SPP00000019_1.0 ; Align 13360 15 24 ; Align 31839 23 78 ; Align 52252 50 9 ; Align 62296 54 21 ; Align 73287 61 54 ; Align 73344 79 6 ; Align 78188 82 21 ; Align 95660 89 39 ; Align 97956 102 18 ; Align 101898 109 117 ; Align 108491 148 39 ; Align 111108 162 45 ; Align 116015 178 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 104 Query range: 8 -> 182 Target range: 1318 -> 112392 9 : GlyAlaSer{L} >>>> Target Intron 1 >>>> {eu}AlaAlaAlaArgL : 17 .!!|||:!!{ } 15756 bp { !}||||||!.!|||| SerAlaAla{A}++ ++{la}AlaAlaGlyArgL 1319 : AGTGCAGCA{G}gt.........................ag{CA}GCTGCAGGGCGCC : 17099 18 : euLeuProLeuGlyArgCysSerProSerProAlaPro{Ar} >>>> Target In : 30 ||! ! !!|||...:::... ||| |||{||} 16087 euArgAlaLeuAlaGlnAlaLeuProHisLeuProPro{Ar}++ 17100 : TGCGGGCTctggcccaggccctgccccacctcccccct{AG}gt.............. : 17142 31 : tron 2 >>>> {g}SerThrLeuSerGlyAlaAlaMetGluProAlaProArgTrp : 44 bp {|} !!||| !:!!||| !||| :!!! !..!|||||| ! ++{g}ArgThrAsnAlaGlyTrpAla***GlnArgCysProArgGln 17143 : ...........ag{G}CGGACGAATGCGGGCTGGGCCTGACAGCGGTGCCCGCGGCAG : 33267 45 : >>>> Target Intron 3 >>>> LeuAlaGlyLeuArgPheAspAsnArgAl : 54 4919 bp :!!!.!||||||!:!.!. ::! !!. ++ ++MetGlyGlyLeuGlnLeuThrSerSerGl 33268 : gt.........................agATGGGTGGCCTCCAGCTGACGTCCTCCGG : 38216 55 : aLeuArgAlaLeuProValGluAlaPro >>>> Target Intron 4 >>>> P : 64 !||| !!.!!!!|||! !|||!.! ! 4381 bp yLeuAlaGlyPheProGlyGluGlySer++ ++G 38217 : GCTTGCGGGGTTCCCCGGAGAGGGGAGTgt.........................agg : 42627 65 : roProGlyProGlu >>>> Target Intron 5 >>>> GlyAlaProSerAla : 73 |||||||||::: 7949 bp ! !!||||||||| lyProGlyProGln++ -+ProProProSerAla 42628 : gcccagggccccaggt.........................ggCCGCCCCCGAGCGCC : 50603 74 : ProArgProValProGlyAla >>>> Target Intron 6 >>>> CysPheTh : 83 ||| !||| !||||||||| 24087 bp .!! ProAlaProProProGlyAla++ ++LeuLeuLe 50604 : CCCGCGCCCCCGCCTGGCGCGgt.........................agCTGCTCCT : 74720 84 : rArgValGlnProThrProLeuArgGlnProArgLeuValAlaLeuSerGluProAla : 102 !!:!! !! ! ! !!||||||! ! |||..!|||!.!!.!:!!:!!||| ! ! uGlnGlyProGlnProProLeuProValProGluLeuAlaGlyValAlaGluValLeu 74721 : CCAGGGCCCTCAGCCTCCTCTCCCGGTCCCGGAGCTCGCGGGCGTAGCTGAAGTCCTC : 74777 103 : LeuAlaLeuLeuGlyLeuGlyAlaProProAlaArgGluAlaGluAlaGluAlaAlaL : 122 :!! !|||||| !! !|||..!||| !!:!!! !:!! ! !!:!!||| !!! ValGlnLeuLeuLeuProGlyCysProAlaSerLeuGlnAsnThrProGlnAlaProA 74778 : GTCCAGCTCCTCCTGCCTGGCTGCCCGGCGTCGCTGCAGAACACCCCACAGGCGCCCC : 74837 123 : eu{Ph} >>>> Target Intron 7 >>>> {e}PheSerGlyAsnAlaLeuLe : 130 !{! } 16406 bp { } :!! ! !:!! !|| rg{**}++ ++{*}GlyAlaProProSerGlyLe 74838 : GC{TA}gt.........................ag{G}GGAGCACCACCCTCAGGCCT : 91267 131 : uPro{G} >>>> Target Intron 8 >>>> {ly}AlaGluProAlaAlaHis : 138 ||||{|} 587 bp {||}...::: !.!!.!!! uPro{G}++ +-{ly}ThrGlnValThrThrPro 91268 : CCCA{G}gt.........................aa{gc}acacaagTTACTACACCA : 91878 139 : CysTyrCysGly{Hi} >>>> Target Intron 9 >>>> {s}GlnPheGlyG : 147 |||!:!||| !{||} 15530 bp {|}! |||| CysPheCysPro{Hi}++ ++{s}LeuGlnGlyG 91879 : TGTTTTTGCCCC{CA}gt.........................ag{C}CTCCAGGGCC : 107435 148 : lnPheAla >>>> Target Intron 10 >>>> GlyGlnLeuGlyAspGlyAl : 156 || ! ! 3563 bp |||! ! !||| !!||| ! lnThrArg++ ++GlyProAlaGlyHisGlyPr 107436 : AGACCCGGgt..........................agGGACCGGCGGGACACGGCCC : 111025 157 : aAlaMetTyrLeu{G} >>>> Target Intron 11 >>>> {ly}GluValCy : 164 !|||:!: ! !{|} 1287 bp {||}|||:!!|| oAlaLeuGlnAla{G}+- ++{ly}GluLeuCy 111026 : TGCTCTACAGGCA{G}ga..........................ag{GT}GAGCTCTG : 112336 165 : sThrAlaThrGlyGluArgTrpGluLeuGlnLeuLysGlyAlaGlyProThrPro : 182 |.!!!.!! !|||!!: !!! ...! ! ! !!..||| !!|||||| !!||| sAlaGlyArgGlyAspValCysSerGlnAlaProSerGlyProGlyProProPro 112337 : TGCGGGGAGGGGGGACGTGTGCTCTCAGGCCCCCAGCGGCCCAGGCCCCCCGCCC : 112392 vulgar: SPP00000019_1.0 8 182 . NIVO01039759.1:subseq(161102,119275) 1318 112392 + 104 M 3 9 S 0 1 5 0 2 I 0 15752 3 0 2 S 1 2 M 17 51 S 0 2 5 0 2 I 0 16083 3 0 2 S 1 1 M 14 42 5 0 2 I 0 4915 3 0 2 M 19 57 5 0 2 I 0 4377 3 0 2 M 5 15 5 0 2 I 0 7945 3 0 2 M 12 36 5 0 2 I 0 24083 3 0 2 M 42 126 S 0 2 5 0 2 I 0 16402 3 0 2 S 1 1 M 8 24 S 0 1 5 0 2 I 0 583 3 0 2 S 1 2 M 10 30 S 0 2 5 0 2 I 0 15526 3 0 2 S 1 1 M 6 18 5 0 2 I 0 3559 3 0 2 M 11 33 S 0 1 5 0 2 I 0 1283 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 1319 112392 104 + . gene_id 5 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 1319 1328 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 1319 1328 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 1329 1330 . + . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 1329 17084 . + . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 17083 17084 . + . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 17085 17139 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 17085 17139 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 17140 17141 . + . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 17140 33226 . + . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 33225 33226 . + . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 33227 33269 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 33227 33269 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 33270 33271 . + . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 33270 38188 . + . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 38187 38188 . + . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 38189 38245 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 38189 38245 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 38246 38247 . + . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 38246 42626 . + . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42625 42626 . + . intron_id 3 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42627 42641 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42627 42641 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 42642 42643 . + . intron_id 5 ; splice_site "gT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 42642 50590 . + . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 50589 50590 . + . intron_id 4 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 50591 50626 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 50591 50626 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 50627 50628 . + . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 50627 74713 . + . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 74712 74713 . + . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 74714 74841 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 74714 74841 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 74842 74843 . + . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 74842 91247 . + . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 91246 91247 . + . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 91248 91273 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 91248 91273 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 91274 91275 . + . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 91274 91860 . + . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 91859 91860 . + . intron_id 7 ; splice_site "aa" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 91861 91894 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 91861 91894 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 91895 91896 . + . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 91895 107424 . + . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 107423 107424 . + . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 107425 107443 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 107425 107443 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 107444 107445 . + . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 107444 111006 . + . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 111005 111006 . + . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 111007 111040 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 111007 111040 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 111041 111042 . + . intron_id 11 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 111041 112327 . + . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 112326 112327 . + . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 112328 112392 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 112328 112392 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 1319 112392 104 + . alignment_id 5 ; Query SPP00000019_1.0 ; Align 1319 9 9 ; Align 17087 13 51 ; Align 33228 31 42 ; Align 38189 45 57 ; Align 42627 64 15 ; Align 50591 69 36 ; Align 74714 81 126 ; Align 91249 124 24 ; Align 91863 133 30 ; Align 107426 144 18 ; Align 111007 150 33 ; Align 112330 162 63 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence Model: protein2genome:local Raw score: 104 Query range: 15 -> 112 Target range: 58590 -> 118327 16 : ArgLeuLeuProLeuGly{Ar} >>>> Target Intron 1 >>>> {g}CysS : 24 ||| ||||||||||||{||} 18533 bp {|}..!! ArgArgLeuProLeuGly{Ar}+- ++{g}AlaC 58591 : agacgcttaccccttgga{ag}ga.........................ag{A}GCCT : 77148 25 : erProSerProAlaProArgSerThr{Le} >>>> Target Intron 2 >>>> : 33 !!|||:::||||||||| {:!} 14438 bp ysProAlaProAlaProProHisArg{Va}++ + 77149 : GCCCcgctcccgccccgccccaccgc{GT}gt.........................a : 91613 34 : {u}SerGlyAlaAlaMetGluProAlaProArgTrpLeuAlaGlyLeuArgPheAsp : 51 {!}||| !:!!!.!:!: !|||!.! !! !||| !:!!|||:!!|||!!.||| +{l}SerMetSerGlyValThrProGlySerAspTrpGluSerGlyValArgLeuAsp 91614 : g{G}TCAATGTCTGGCGTCACGCCCGGCTCAGACTGGGAGTCAGGAGTCAGATTGGAT : 91667 52 : {A} >>>> Target Intron 3 >>>> {sn}ArgAlaLeuArgAlaLeuProV : 60 {.} 7673 bp {.!}|||:!!:!!||| !||||||: {G}-+ ++{ly}ArgSerValArgArgLeuProL 91668 : {G}ct.........................ag{GC}AGGTCAGTGCGCCGCCTGCCCC : 99367 61 : alGluAlaProPro >>>> Target Intron 4 >>>> ProGlyProGlu{Gl : 69 !!! !||| !!||| 6085 bp ||| !! !|||{|| euValAlaThrPro+- ++ProPheGlnGlu{Gl 99368 : TCGTGGCAACCCCAgg.........................agCCCTTCCAGGAA{GG : 105479 70 : } >>>> Target Intron 5 >>>> {y}AlaProSerAlaProArgProValP : 78 } 4727 bp {|}||||||||| ||| ||| | }++ ++{y}AlaProSerIleProSerProSerP 105480 : }gt.........................ag{A}Gccccctccatcccctcccccagcc : 110233 79 : ro >>>> Target Intron 6 >>>> GlyAlaCysPheThrArgValGlnPro : 87 || 7990 bp |||||| ......::: !! ro++ ++GlyAlaThrProAlaHisLeuProSer 110234 : cagt.........................agGGCGccacccctgcccacctgcctTCG : 118250 88 : ThrProLeuArgGlnProArgLeuValAlaLeuSerGluProAlaLeuAlaLeuLeuG : 107 !! !!|||! !!!.|||! ! !:!!::!! !:!!...||| !! !!.!||||||| ProAlaLeuLeuHisProProAlaLeuSerProAlaSerProArgSerGlyLeuLeuG 118251 : CCCGCACTCCTCCACCCGCCTGCTCTGAGTCCTGCGTCTCCCCGCTCCGGCCTGCTCG : 118310 108 : lyLeuGlyAlaProPro : 112 || !|||.!!|||||| lyAlaGlyThrProPro 118311 : GGGCGGGCACCCCTCCT : 118327 vulgar: SPP00000019_1.0 15 112 . NIVO01039759.1:subseq(161102,119275) 58590 118327 + 104 M 6 18 S 0 2 5 0 2 I 0 18529 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 14434 3 0 2 S 1 1 M 18 54 S 0 1 5 0 2 I 0 7669 3 0 2 S 1 2 M 12 36 5 0 2 I 0 6081 3 0 2 M 4 12 S 0 2 5 0 2 I 0 4723 3 0 2 S 1 1 M 9 27 5 0 2 I 0 7986 3 0 2 M 34 102 # --- 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 58591 118327 104 + . gene_id 6 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 58591 58610 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 58591 58610 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 58611 58612 . + . intron_id 1 ; splice_site "ga" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 58611 77143 . + . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 77142 77143 . + . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 77144 77176 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 77144 77176 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 77177 77178 . + . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 77177 91614 . + . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 91613 91614 . + . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 91615 91670 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 91615 91670 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 91671 91672 . + . intron_id 3 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 91671 99343 . + . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 99342 99343 . + . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 99344 99381 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 99344 99381 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 99382 99383 . + . intron_id 4 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 99382 105466 . + . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 105465 105466 . + . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 105467 105480 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 105467 105480 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 105481 105482 . + . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 105481 110207 . + . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 110206 110207 . + . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 110208 110235 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 110208 110235 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 110236 110237 . + . intron_id 6 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 110236 118225 . + . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 118224 118225 . + . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 118226 118327 . + . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 118226 118327 . + . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 58591 118327 104 + . alignment_id 6 ; Query SPP00000019_1.0 ; Align 58591 16 18 ; Align 77145 23 30 ; Align 91616 34 54 ; Align 99346 53 36 ; Align 105467 65 12 ; Align 110209 70 27 ; Align 118226 79 102 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 134 Query range: 18 -> 219 Target range: 114297 -> 464 19 : ProLeuGlyArgCys{S} >>>> Target Intron 1 >>>> {er}ProSerP : 27 |||! !|||||||||{:} 10839 bp {!!}||| !!| ProProGlyArgCys{A}++ ++{la}ProArgP 114297 : CCACCGGGTAGGTGC{G}gt.........................ag{CA}CCCCGGC : 103434 28 : roAlaProArgSerThrLeuSerGlyAlaAlaMetGluProAlaProArgTrpLeuAl : 46 ||!.!||| !||| !!|||||| ! !!.!! ! ! !::!|||||| ! !|| roValProSerSerProLeuSerThrProThrCysAlaLeuSerProArgLeuCysAl 103433 : CCGTCCCCTCCAGCCCACTGAGCACCCCCACCTGCGCTCTGAGCCCCAGGCTTTGCGC : 103377 47 : aGlyLeuArgPheAspAsnArgAlaLeuArg >>>> Target Intron 2 >>>> : 57 ||||! !! !.!! |||||||||! ! 9338 bp aGlyCysProLeuArgProArgAlaLeuLeu++ 103376 : CGGCTGTCCTCTTAGACCGAGGGCCCTGCTGgt......................... : 103342 58 : AlaLeuProValGluAlaProProProGlyProGlu{Gl} >>>> Target In : 69 |||! !||| !! ! ! !|||||||||||| {||} 4270 ++AlaProProProAlaArgGlyProProGlyProPro{Gl}++ 103341 : agGCTCCGCCCCCTGCGCGCGGGCCGCCCGGCCCCCCC{GG}gt.............. : 93966 70 : tron 3 >>>> {y}AlaProSerAlaProArgProValProGlyAlaCysPheThr : 83 bp {|} !|||! ! !|||! !|||:!!||||||.!! .!! ! ++{y}LeuProTyrArgProLeuProLeuProGlyThrLeuLeuTrp 93965 : ...........ag{G}CTTCCATACAGGCCGCTCCCACTCCCGGGGACACTGCTCTGG : 89658 84 : {Ar} >>>> Target Intron 4 >>>> {g}ValGlnProThrProLeuArgG : 92 { } 10422 bp {!} ! ||| !|||||||||| {Al}++ ++{a}ProAlaProGlyProLeuArgG 89657 : {GC}gt.........................ag{G}CCTGCCCCAGGACCTCTGCGCC : 79209 93 : lnProArgLeuValAlaLeu{Se} >>>> Target Intron 5 >>>> {r}Gl : 100 || !!! !||| !:!!:!!{!!} 5947 bp {!}! lnAlaThrLeuSerSerVal{Th}++ ++{r}Va 79208 : AGGCCACACTCTCCTCAGTG{AC}gt.........................ag{T}GT : 73238 101 : uProAlaLeuAlaLeuLeuGlyLeuGlyAlaProProAlaArgGluAlaGluAlaGlu : 119 !|||!.! !!.!:!!|||||||||||| ! !!||| !!!:!! |||...:!!... lProValGlyValValLeuGlyLeuGlyLeuSerProProLysAlaAlaSerSerArg 73237 : GCCTGTAGGCGTGGTGCTGGGGCTGGGGCTTTCACCCCCCAAAGCTGCCTCCTCACGT : 73181 120 : AlaAlaLeuPhePheSerGlyAsnAlaLeuLeuPro{Gl} >>>> Target Intr : 132 :!!||| !! !.!!||||||:!!||| ! !! !{||} 46 bp SerAlaGlySerIleSerGlyAspAlaArgGlyArg{Gl}-+ 73180 : TCTGCTGGTTCCATTTCAGGGGATGCTAGAGGCCGT{GG}ct................ : 73138 133 : on 6 >>>> {y}AlaGluProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGl : 147 {|}:!!:!! !!::!||||||! !::...||| !!||| ! |||! -+{y}SerGlnThrSerAlaHisSerTrpAlaGlyAspGlnValGlyPr 73137 : .........tg{C}TCCCAGACAAGCGCCCACTCGTGGGCAGGGGACCAGGTAGGACC : 73051 148 : nPheAlaGlyGlnLeuGlyAspGlyAlaAlaMetTyrLeuGlyGluValCysThrAla : 166 !! !!::!:!!|||..!! ! !||| |||||| !!.!|||..! !! oArgProTrpArgValGlySerGluLeuAlaAla---LeuGlyLeuAlaCysValPro 73050 : CAGGCCATGGAGGGTGGGCTCTGAGTTGGCTGCC---CTAGGCCTGGCATGTGTCCCC : 72997 167 : ThrGlyGluArgTrpGluLeuGln{L} >>>> Target Intron 7 >>>> {e : 175 |||! ! ! ! ! !|||:!!{!} 19903 bp { ThrValProPheArgGlyLeuGlu{*}++ ++{* 72996 : ACTGTCCCCTTTCGTGGGCTTGAG{T}gt.........................ag{A : 53066 176 : u}LysGlyAlaGlyProThrProPheSer{Ar} >>>> Target Intron 8 >> : 185 !} |||||||||||| |||||| {||} 20955 bp *}AlaGlyAlaGlyProPheProPhePro{Ar}++ 53065 : G}GCTGGAGCCgggcccttccccttcccc{ag}gt....................... : 53033 186 : >> {g}GlnAlaAspGlyArg >>>> Target Intron 9 >>>> LysValL : 193 {|}:!! !..!..!..! 13191 bp .....!| ++{g}LysLeuSerSerGlu++ ++AsnThrL 53032 : ..ag{G}AAGTTGAGCTCGGAGgt.........................agaacACCC : 18867 194 : euArg >>>> Target Intron 10 >>>> SerSerIleArgGlu{P} >>> : 200 ||!:! 7109 bp |||! !! !||||||{ } euGln++ ++SerPheSerArgGlu{V}++ 18866 : TGCAGgt..........................agTCGTTTAGCCGGGAA{G}gt... : 11734 201 : > Target Intron 11 >>>> {he}LeuCysSerGluAlaMetPheHisLeu{G : 210 5443 bp {!!}...||| :::....!.|||||||||{. ++{al}PheCysIleGlnValPhePheHisLeu{S 11733 : .......................ag{tt}ttctgtatacaggtctTTTTTCACCTT{a : 6264 211 : l} >>>> Target Intron 12 >>>> {y}ValProThrThrArgAlaGlyAl : 218 !} 5770 bp {!}:::|||||| |||... e}-+ ++{r}LeuProThrMetArgGlyThrAr 6263 : g}ct..........................ag{c}ctcccaaccatgagaggcacgag : 470 219 : aCys : 219 ||| gCys 469 : atgc : 465 vulgar: SPP00000019_1.0 18 219 . NIVO01039759.1:subseq(161102,119275) 114297 464 - 134 M 5 15 S 0 1 5 0 2 I 0 10835 3 0 2 S 1 2 M 32 96 5 0 2 I 0 9334 3 0 2 M 12 36 S 0 2 5 0 2 I 0 4266 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 10418 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 5943 3 0 2 S 1 1 M 32 96 S 0 2 5 0 2 I 0 42 3 0 2 S 1 1 M 26 78 G 1 0 M 15 45 S 0 1 5 0 2 I 0 19899 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 20951 3 0 2 S 1 1 M 5 15 5 0 2 I 0 13187 3 0 2 M 4 12 5 0 2 I 0 7105 3 0 2 M 5 15 S 0 1 5 0 2 I 0 5439 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 5766 3 0 2 S 1 1 M 9 27 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 465 114297 134 - . gene_id 1 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 114282 114297 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 114282 114297 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 114280 114281 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 103443 114281 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 103443 103444 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 103345 103442 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 103345 103442 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 103343 103344 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 94007 103344 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 94007 94008 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 93969 94006 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 93969 94006 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 93967 93968 . - . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 89699 93968 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 89699 89700 . - . intron_id 2 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 89654 89698 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 89654 89698 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 89652 89653 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 79232 89653 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 79232 79233 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 79187 79231 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 79187 79231 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 79185 79186 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 73240 79186 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 73240 73241 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 73141 73239 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 73141 73239 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 73139 73140 . - . intron_id 6 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 73095 73140 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 73095 73096 . - . intron_id 5 ; splice_site "TG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 72970 73094 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 72970 73094 . - . insertions 0 ; deletions 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 72968 72969 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53067 72969 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53067 53068 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53036 53066 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53036 53066 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53034 53035 . - . intron_id 8 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 32081 53035 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 32081 32082 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 32065 32080 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 32065 32080 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 32063 32064 . - . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 18874 32064 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 18874 18875 . - . intron_id 8 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 18862 18873 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 18862 18873 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 18860 18861 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 11753 18861 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 11753 11754 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 11737 11752 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 11737 11752 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 11735 11736 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 6294 11736 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 6294 6295 . - . intron_id 10 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 6263 6293 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 6263 6293 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 6261 6262 . - . intron_id 12 ; splice_site "ct" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 493 6262 . - . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 493 494 . - . intron_id 11 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 465 492 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 465 492 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 465 114297 134 - . alignment_id 1 ; Query SPP00000019_1.0 ; Align 114298 19 15 ; Align 103441 25 96 ; Align 94007 57 36 ; Align 89698 70 42 ; Align 79231 85 42 ; Align 73239 100 96 ; Align 73094 133 78 ; Align 73016 160 45 ; Align 53065 176 27 ; Align 32080 186 15 ; Align 18874 191 12 ; Align 11753 195 15 ; Align 6292 201 27 ; Align 492 211 27 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 121 Query range: 13 -> 197 Target range: 117873 -> 14491 14 : AlaAlaArgLeuLeuProLeuGlyArgCysSerProSerProAlaProArgSerThrL : 33 ||| !|||||||||||| !||| ! ..! !:!! !!.! ! !:!!.!! AlaArgArgLeuLeuProAlaGlyAlaGluGlnAspAlaValGlyGlyAlaAlaAlaA 117873 : GCGCGCCGGCTTCTACCGGCTGGAGCTGAACAAGACGCTGTGGGAGGTGCCGCAGCGG : 117816 34 : euSerGlyAlaAlaMet{G} >>>> Target Intron 1 >>>> {lu}Pro : 41 !:!!||||||||| {|} 763 bp {||}||| laAlaGlyAlaAlaPro{G}++ ++{lu}Pro++ 117815 : CTGCAGGGGCTGCGCCC{G}gt.........................ag{AA}CCGgt : 117029 42 : >>>> Target Intron 2 >>>> >>>> Target Intron 3 >>>> Al : 41 358 bp 3678 bp || ++++ +-Al 117028 : .........................aggt.........................aaGC : 112993 42 : aProArgTrpLeuAla{G} >>>> Target Intron 4 >>>> {ly}LeuArg : 49 |||| !|||||| {|} 85 bp {||}|||||| aProAlaTrpLeuArg{G}-+ +-{ly}LeuArg 112992 : CCCTGCCTGGCttagg{g}ct.........................at{GC}CTCAGA : 112884 50 : PheAspAsnArgAlaLeuArgAlaLeuProValGluAla >>>> Target Intro : 63 !::: !!|||! ! !||| !|||..! ! 2819 bp ArgThrSerGlyAlaSerSerAlaGluProThrProTrp++ 112883 : AGGACCTCAGGAGCATCTTCCGCGGAGCCAACCCCCTGGgt................. : 112840 64 : n 5 >>>> ProProProGlyProGluGlyAlaProSerAlaProArg{Pr} >>> : 76 ||| ! !||||||! !||| !!|||||||||||| !{ } ++ProGlyGlyGlyProAlaGlyProProSerAlaProAla{**}++ 112839 : ........agCCAGGTGGGGGGCCTGCAGGACCACCCTCTGCTCCAGCG{TG}gt... : 109980 77 : > Target Intron 6 >>>> {o}ValProGlyAlaCysPhe >>>> Target : 83 1538 bp {!}!.!||||||:!! 11 ++{*}AlaProGlySerLeuThr++ 109979 : ......................ag{A}GCCCCTGGGTCTCTGACGgt........... : 108423 84 : Intron 7 >>>> ThrArgValGlnProThrProLeuArg{Gl} >>>> Targ : 92 160 bp ! !..!||||||:!! !!:!!! !{::} ++AspSerThrGlnProSerAlaIleLeu{Ar}++ 108422 : ..............agGATTCGACTCAGCCATCGGCGATCCTG{AG}gt......... : 97234 93 : et Intron 8 >>>> {n}ProArgLeuValAlaLeuSerGluProAlaLeuAlaL : 105 1030 bp {!}|||!.! !!.! ! !..!!!: !|||||| ! ++{g}ProHisGluAlaLeuAlaGlnAspGluAlaLeuIleA 97233 : ................ag{G}CCACATGAGGCCCTGGCCCAGGACGAGGCCCTCATTG : 96169 106 : euLeu{Gl} >>>> Target Intron 9 >>>> {y}LeuGlyAlaPro >>> : 112 !|||{||} 7909 bp {|}! !|||!.! ! laLeu{Gl}+- ++{y}***GlyGlyGlu++ 96168 : CGCTC{GG}ga.........................ag{G}TAAGGAGGCGAGgt... : 88237 113 : > Target Intron 10 >>>> ProAlaArgGluAlaGluAlaGluAlaAlaLeu : 122 8918 bp ||||||! !!!: !!.....!... !!.!||| ++ProAlaLeuAspProSerCysSerLysGlyLeu 88236 : .......................agCCCGCGCTGGACCCCTCCTGCAGCAAGGGTCTC : 79291 123 : PhePheSer >>>> Target Intron 11 >>>> GlyAsnAlaLeuLeuProG : 132 ! |||..! 5974 bp ! !!.. ! !:!!||| ValPheGln++ ++ValThrTrpAlaValProH 79290 : GTGTTCCAGgt..........................agGTGACGTGGGCGGTGCCAC : 73287 133 : lyAlaGluProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGl : 151 !|||...! !||| ! ! !!! !|||||| !! !.!. !|||! !||| !!:: isAlaSerGlnAlaLeuGlySerCysCysGlyAlaProLeuHisGlnCysAlaCysAr 73286 : ATGCCAGCCAGGCTCTGGGCAGCTGCTGCGGAGCCCCGCTGCATCAGTGTGCCTGTAG : 73230 152 : nLeuGlyAspGlyAlaAlaMetTyrLeuGlyGluValCysThrAla{Th} >>>> T : 167 !! !|||! !||||||!.! !:! ! !:!! !||| ! !{||} gArgGlyAlaGlyAlaGlyAlaPheThrProGlnSerCysLeuLeu{Th}++ 73229 : GCGTGGTGCTGGGGCTGGGGCTTTCACCCCCCAAAGCTGCCTCCTC{AC}gt...... : 73178 168 : arget Intron 12 >>>> {r}GlyGluArgTrpGluLeuGlnLeuLysGlyAla : 178 23590 bp {|}|||..! !|||..!! ! ||| !|||:!! ++{r}GlyArgSerTrpArgSerAlaLeuGlyGlySer 73177 : ....................ag{C}GGCAGGTCATGGAGGTCCGCCCTGGGGGGCTCC : 49559 179 : GlyPro >>>> Target Intron 13 >>>> ThrProPheSerArgGlnAlaA : 188 |||||| 35008 bp |||! !|||..! !::! ! GlyPro++ ++ThrGlnPheGlnSerArgArgA 49558 : GGGCCGgt..........................agACTCAGTTTCAGTCTAGACGGA : 14521 189 : spGlyArgLysValLeuArgSerSerIle : 197 !|||||| !|||!:!! !!!!:!! rgHisArgLysArgLeuGlnLeuThrVal 14520 : GGCACCGGAAACGCCTGCAGTTGACTGTT : 14492 vulgar: SPP00000019_1.0 13 197 . NIVO01039759.1:subseq(161102,119275) 117873 14491 - 121 M 25 75 S 0 1 5 0 2 I 0 759 3 0 2 S 1 2 M 1 3 5 0 2 I 0 354 3 0 2 5 0 2 I 0 3674 3 0 2 M 6 18 S 0 1 5 0 2 I 0 81 3 0 2 S 1 2 M 15 45 5 0 2 I 0 2815 3 0 2 M 13 39 S 0 2 5 0 2 I 0 1534 3 0 2 S 1 1 M 6 18 5 0 2 I 0 11156 3 0 2 M 9 27 S 0 2 5 0 2 I 0 1026 3 0 2 S 1 1 M 14 42 S 0 2 5 0 2 I 0 7905 3 0 2 S 1 1 M 4 12 5 0 2 I 0 8914 3 0 2 M 14 42 5 0 2 I 0 5970 3 0 2 M 41 123 S 0 2 5 0 2 I 0 23586 3 0 2 S 1 1 M 13 39 5 0 2 I 0 35004 3 0 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 14492 117873 121 - . gene_id 2 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117798 117873 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117798 117873 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117796 117797 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 117035 117797 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 117035 117036 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117030 117034 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117030 117034 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117028 117029 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 116672 117029 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 116672 116673 . - . intron_id 1 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 116670 116671 . - . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 112994 116671 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 112994 112995 . - . intron_id 2 ; splice_site "AA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 112975 112993 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 112975 112993 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 112973 112974 . - . intron_id 4 ; splice_site "ct" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 112890 112974 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 112890 112891 . - . intron_id 3 ; splice_site "AT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 112843 112889 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 112843 112889 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 112841 112842 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 110024 112842 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 110024 110025 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 109983 110023 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 109983 110023 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 109981 109982 . - . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 108445 109982 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 108445 108446 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 108426 108444 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 108426 108444 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 108424 108425 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 97266 108425 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 97266 97267 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 97237 97265 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 97237 97265 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 97235 97236 . - . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 96207 97236 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 96207 96208 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 96162 96206 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 96162 96206 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 96160 96161 . - . intron_id 9 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 88253 96161 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 88253 88254 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 88240 88252 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 88240 88252 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 88238 88239 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 79322 88239 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 79322 79323 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 79280 79321 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 79280 79321 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 79278 79279 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 73306 79279 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 73306 73307 . - . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 73181 73305 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 73181 73305 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 73179 73180 . - . intron_id 12 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 49591 73180 . - . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 49591 49592 . - . intron_id 11 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 49551 49590 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 49551 49590 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 49549 49550 . - . intron_id 13 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 14543 49550 . - . intron_id 13 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 14543 14544 . - . intron_id 12 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 14492 14542 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 14492 14542 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 14492 117873 121 - . alignment_id 2 ; Query SPP00000019_1.0 ; Align 117874 14 75 ; Align 117033 40 3 ; Align 112994 41 18 ; Align 112888 48 45 ; Align 110024 63 39 ; Align 108444 77 18 ; Align 97266 83 27 ; Align 96206 93 42 ; Align 88252 108 12 ; Align 79322 112 42 ; Align 73306 126 123 ; Align 49590 168 39 ; Align 14543 181 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 119 Query range: 8 -> 193 Target range: 69783 -> 8200 9 : GlyAlaSerLeuAlaAlaAlaArgLeuLeuProLeuGlyArgCysSerProSerProAla : 28 ||| ... |||..!||| !! ! !|||||| !..!! !:!!|||||||||||| GlyArgGlyArgAlaGlyAlaGlyAlaAlaProLeuThrGluSerAlaProSerProAla 69783 : gggcgggggagggctgGGGCCGGGGCTGCGCCGCTCACTGAATCCGCCccttcccccgcc : 69726 29 : ProArgSerThrLeu >>>> Target Intron 1 >>>> SerGlyAlaAlaMetG : 39 ||| |||:!! 8563 bp :!!|||! !||| ProProLeuThrVal++ ++AlaGlyGluAlaAlaP 69725 : ccgcccctcacAGTGgt.........................agGCGGGGGAGGCTGCTT : 61130 40 : luProAlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeu >>>> Tar : 56 |||||||||..! ! !!|||! ||| ... ||| heProAlaProGluAlaAlaProGlyHisArgProGlnProLeuAlaTrp+- 61129 : TCCCCGCACCTGAGGCAGCCCCTGGTCAcagaccccagcccctggcctgggg........ : 61077 57 : get Intron 2 >>>> ArgAlaLeuProValGluAlaProProPro{G} >>>> T : 66 8013 bp ||| ! !||| :::||| |||{|} ++ArgLeuGluProGlyProSerProSerPro{G}++ 61076 : .................agAGGCTGGAGCCgggcccttccccttcccca{g}gt...... : 53033 67 : arget Intron 3 >>>> {ly}ProGluGlyAlaProSerAlaProArgProValPr : 78 3371 bp {||}|||! !!!.! !!:!! ! !!!:!|||! !|| ++{ly}ProAlaTrpGlyThrAlaArgSerGlnProAspPr 53032 : ...................ag{GT}CCTGCCTGGGGGACCGCGAGGTCCCAGCCGGACCC : 49629 79 : oGlyAlaCysPheThrArgValGlnProThrProLeu{Ar} >>>> Target Intro : 91 ||||!.!... ! ! !!! ! |||.!!|||! !{||} 18775 bp oGlyGlyAlaArgCysGlyAspCysProAlaProGln{Ar}+- 49628 : GGGGGGAGCGCGCTGCGGGGACTGCCCCGCGCCACAG{CG}gc................. : 49586 92 : n 4 >>>> {g}GlnProArgLeuValAlaLeuSerGluProAlaLeuAlaLeuLeuGl : 107 {|}::!! !|||! !! !|||:!!.!! ! !||||||!.!! !|||.. ++{g}ArgArgArgProGluAlaValGlyThrArgAlaLeuValCysLeuSe 49585 : ........ag{G}AGACGCAGACCAGAAGCAGTGGGGACCCGCGCGCTCGTCTGTCTGTC : 30767 108 : yLeuGlyAlaProProAlaArgGluAlaGluAlaGluAlaAlaLeuPhePheSerGlyAs : 127 !:!! !||||||! ! !!!:!! ..! .!!:!! !!|||||| !!::.!!|||! rValGlnAlaProHisProLysAlaCysCysThrLysProAlaLeuAspTrpGlyGlyIl 30766 : TGTGCAGGCCCCCCACCCCAAGGCCTGCTGCACGAAGCCAGCCCTTGACTGGGGAGGCAT : 30707 128 : nAlaLeuLeuPro >>>> Target Intron 5 >>>> GlyAlaGluProAlaAla : 137 ! !! !|||||| 1694 bp ||||||...||| eTrpSerLeuPro++ ++GlyAlaAsnProHisLeu 30706 : CTGGTCACTGCCAgt.........................agggagccaacccgcatctc : 28983 138 : HisCysTyrCysGlyHisGln >>>> Target Intron 6 >>>> PheGlyGlnP : 148 ||| ||| 13546 bp !:!|||! !. LeuCysLeuLeuArgTrpGln+- ++TyrGlyLeuM 28982 : ctgtgtctcctgcgctggcaggc.........................agTATGGCCTGA : 15404 149 : heAlaGlyGlnLeuGlyAspGlyAlaAlaMetTyrLeuGly >>>> Target Intro : 162 !.|||..! !:!!! ! !|||||| ! !||| ! 2837 bp etAlaSerAlaMetValCysGlyAlaGlnAlaThrLeuLys++ 15403 : TGGCCTCTGCGATGGTCTGCGGGGCACAGGCCACCCTTAAGgt................. : 15360 163 : n 7 >>>> GluValCysThrAlaThrGlyGluArgTrpGluLeuGlnLeuLys >>> : 177 ...|||..!||| !||||||! ! !!|||! ||| :!! ++SerValAlaThrLeuThrGlyValTrpTrpGlyLeuThrValAla++ 15359 : ........agAGTGTAGCCACGTTAACAGGCGTGTGGTGGGGTCTCACTGTGGCTgt... : 12478 178 : > Target Intron 8 >>>> GlyAlaGlyProThrProPheSerArgGlnAlaAsp : 188 4229 bp |||::: |||:::||| ...:::... ++GlySerArgProSerProArgGlyLysMetGlnLys 12477 : ......................agggatcaagaccatccccaaggggaaaaatgcagaaa : 8218 189 : GlyArgLysValLeu : 193 |||::: |||::: GlyLysValValVal 8217 : ggcaaagtggttgtc : 8201 vulgar: SPP00000019_1.0 8 193 . NIVO01039759.1:subseq(161102,119275) 69783 8200 - 119 M 25 75 5 0 2 I 0 8559 3 0 2 M 22 66 5 0 2 I 0 8009 3 0 2 M 10 30 S 0 1 5 0 2 I 0 3367 3 0 2 S 1 2 M 24 72 S 0 2 5 0 2 I 0 18771 3 0 2 S 1 1 M 40 120 5 0 2 I 0 1690 3 0 2 M 13 39 5 0 2 I 0 13542 3 0 2 M 17 51 5 0 2 I 0 2833 3 0 2 M 15 45 5 0 2 I 0 4225 3 0 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 8201 69783 119 - . gene_id 3 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 69709 69783 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 69709 69783 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 69707 69708 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 61146 69708 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 61146 61147 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 61080 61145 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 61080 61145 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 61078 61079 . - . intron_id 2 ; splice_site "gG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53067 61079 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53067 53068 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53036 53066 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53036 53066 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53034 53035 . - . intron_id 3 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 49665 53035 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 49665 49666 . - . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 49589 49664 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 49589 49664 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 49587 49588 . - . intron_id 4 ; splice_site "GC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 30814 49588 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 30814 30815 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 30693 30813 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 30693 30813 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 30691 30692 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 28999 30692 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 28999 29000 . - . intron_id 4 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 28960 28998 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 28960 28998 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 28958 28959 . - . intron_id 6 ; splice_site "gc" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 15414 28959 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 15414 15415 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 15363 15413 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 15363 15413 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 15361 15362 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 12526 15362 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 12526 12527 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 12481 12525 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 12481 12525 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 12479 12480 . - . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 8252 12480 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 8252 8253 . - . intron_id 7 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 8201 8251 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 8201 8251 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 8201 69783 119 - . alignment_id 3 ; Query SPP00000019_1.0 ; Align 69784 9 75 ; Align 61146 34 66 ; Align 53067 56 30 ; Align 49663 67 72 ; Align 30813 92 120 ; Align 28999 132 39 ; Align 15414 145 51 ; Align 12526 162 45 ; Align 8252 177 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 114 Query range: 4 -> 231 Target range: 95024 -> 9370 5 : ArgAlaAlaLeuGlyAlaSerLeuAlaAlaAlaArgLeuLeuProLeuGlyArg{Cy} : 23 !:!::!:!!|||! !|||.!!|||!.! !||| !:!! !||| !! !!.!{||} GlnSerSerLeuAspAlaGlyLeuGlyTyrAlaAlaValThrProThrAspAsn{Cy}++ 95024 : CAGAGTTCCCTGGATGCTGGTCTGGGCTATGCCGCTGTCACTCCCACAGACAAC{TG}gt : 94968 24 : >>>> Target Intron 1 >>>> {s}SerProSerProAlaProArgSerThrLeu : 33 5007 bp {|}||||||!!!|||! ! !|||.!! !! ! ++{s}SerProCysProGluGluArgGlyCysCys 94967 : .........................ag{C}TCTCCGTGCCCCGAGGAGCGCGGCTGCTGT : 89933 34 : SerGlyAlaAlaMetGluProAlaProArgTrpLeuAla >>>> Target Intron : 47 !!||| !||| |||||| !! ! ! ! 1639 bp ArgGlyLeuAlaGlyProProAlaAspLeuAspThrGln+- 89932 : CGTGGCCTTGCTGGCCCCCCCGCTGATCTGGACACTCAGga................... : 89889 48 : 2 >>>> >>>> Target Intron 3 >>>> GlyLeuArgPheAspAsnArgAl : 54 14457 bp ||||||! !|||! ...|||!. ++++ ++GlyLeuProPheValGlyArgGl 89888 : ......aggt.........................agGGGCTCCCATTTGTGGGGAGAGG : 73774 55 : aLeuArgAlaLeuProValGluAlaPro{Pr} >>>> Target Intron 4 >>>> : 64 ! !!:!.!!! !||||||..! !! !{ } 2489 bp yArgLysThrCysProValArgProCys{Se}++ + 73773 : CAGAAAGACCTGCCCAGTGAGGCCCTGC{AG}gt.........................a : 71255 65 : {o}ProGlyProGluGlyAlaProSerAlaProArgProValProGlyAlaCysPheTh : 83 {!} !!.! !!...||| !!||| !!||||||||| !! !|||.!! ! !! ! ! +{r}GlyAlaSerArgGlyProProProAlaProArgAlaSerProSerLeuArgProPr 71254 : g{C}GGAGCCTCCCGTGGCCCGCCTCCTGCACCACGGGCTTCCCCGAGCCTTCGCCCTCC : 71198 84 : rArgValGlnProThrProLeuArgGlnProArgLeuValAlaLeuSerGluProAlaLe : 103 !|||! !!::||| !|||:!!|||!:: !||| ! ! ! !:!!|||! !||| oArgGlyArgProGlyProValArgArgGlyArgGluArgArgAlaAlaGluArgAlaAl 71197 : CCGAGGACGCCCGGGTCCCGTCAGACGCGGACGAGAGCGCCGTGCAGCTGAGCGAGCTGC : 71138 104 : uAlaLeu >>>> Target Intron 5 >>>> LeuGlyLeuGlyAlaProPro{A} : 113 !||| ! 373 bp |||||| !||| ! !!|||{|} aAlaAla+- ++LeuGlyAlaGlyGlnThrPro{A} 71137 : TGCCGCTgc.........................agCTTGGGGCGGGCCAGACGCCC{G} : 70735 114 : >>>> Target Intron 6 >>>> {la}Arg >>>> Target Intron 7 > : 115 455 bp {||}||| 8437 bp +- ++{la}Arg++ 70734 : gg.........................ag{CG}CGGgt...................... : 70272 116 : >>> GluAlaGluAlaGluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuProGlyA : 133 ! !.!! ! !||| !:!!.!! !!|||||| !! ! !||| !|||: +-AlaGlyAlaArgProAlaArgValLeuValSerGlyLeuGluAspLeuGluGlyS 70271 : ...acGCTGGGGCCCGCCCGGCCCGTGTGCTCGTCTCTGGGCTTGAAGATCTCGAAGGAT : 61783 134 : laGluProAlaAlaHisCysTyrCysGlyHis{Gl} >>>> Target Intron 8 > : 144 !!||||||!.!!.!.!. !:!! !! !|||{::} 9692 bp erGluProGlyGlyGluThrHisValAspHis{Ar}++ 61782 : CCGAACCTGGAGGGGAGACCCACGTTGATCAC{AG}gt...................... : 61746 145 : >>> {n}PheGlyGlnPheAla >>>> Target Intron 9 >>>> GlyGlnLe : 152 {!} ||| !||| ! 7659 bp |||:!! ++{g}ArgGlyLeuPheGln++ ++GlyGluGl 61745 : ...ag{G}AGGGGCTTATTCCAGgt.........................agGGAGAGGG : 44375 153 : uGlyAspGlyAlaAlaMet{T} >>>> Target Intron 10 >>>> {yr}LeuG : 161 !|||:!!||| !! ! { } 2001 bp { }|||! yGlyAsnGlyProLeuGlu{A}++ ++{la}LeuA 44374 : CGGCAATGGCCCGCTTGAA{G}gt..........................ag{CG}CTGG : 42347 162 : lyGluValCysThrAlaThrGly{G} >>>> Target Intron 11 >>>> {lu} : 169 .!..!||||||..!:!! !|||{ } 6393 bp {!!} laArgValCysValSerHisGly{*}++ ++{**} 42346 : CACGGGTGTGTGTCTCACACGGG{T}gt..........................ag{AA} : 35929 170 : ArgTrpGlu<->LeuGlnLeuLysGlyAlaGlyProThrProPheSerArgGlnAlaAsp : 188 ! !|||..! ! !|||! !:!!||| !|||||| ! !!.!..!!||| !!.!! ThrTrpArgTrpCysGlnProGluGlyGlnGlyProArgAlaLeuGlyArgTrpValGly 35928 : ACGTGGAGATGGTGCCAGCCTGAGGGGCAGGGACCACGTGCCCTGGGACGCTGGGTGGGG : 35870 189 : GlyArgLysValLeu{Ar} >>>> Target Intron 12 >>>> {g}SerSerIl : 197 ! !!!!!.. !! !{||} 2024 bp {|}:!!||| GluSerSerArgTyr{Ar}++ -+{g}AlaSerTy 35869 : GAGAGCAGCAGGTAC{AG}gt..........................cg{G}GCCTCGTA : 33819 198 : eArgGluPheLeuCysSerGlu{Al} >>>> Target Intron 13 >>>> {a}M : 206 !|||! !.!.:!!||||||...{!.} 14877 bp {!} rArgValLeuMetCysSerSer{Gl}++ ++{y}H 33818 : CAGGGTGCTGATGTGCAGCAGC{GG}gt..........................ag{G}C : 18915 207 : etPheHisLeuGlyValProThrThrArgAlaGlyAlaCysValThrSerGlu >>>> : 224 ||| !||||||||| ||| ... ||| !:!! isPhePheLeuGlyValCysThrCysPheValPheLeuLysAsnThrLeuGln++ 18914 : ACTTCTTCCTGGGAGTCtgtacttgttttgttttcttaaagaacACCCTGCAGgt..... : 18859 225 : Target Intron 14 >>>> SerThrValValArg >>>> Target Intron 1 : 229 7054 bp ..!:!!:!!:!!!:! 2413 bp ++GluSerLeuLeuLys++ 18858 : .....................agGAATCACTGCTCAAGgt.................... : 11790 230 : 5 >>>> AspValPhe : 231 |||:::::: ++AspIleTyr 11789 : ......aggatatatac : 9371 vulgar: SPP00000019_1.0 4 231 . NIVO01039759.1:subseq(161102,119275) 95024 9370 - 114 M 18 54 S 0 2 5 0 2 I 0 5003 3 0 2 S 1 1 M 23 69 5 0 2 I 0 1635 3 0 2 5 0 2 I 0 14453 3 0 2 M 17 51 S 0 2 5 0 2 I 0 2485 3 0 2 S 1 1 M 41 123 5 0 2 I 0 369 3 0 2 M 7 21 S 0 1 5 0 2 I 0 451 3 0 2 S 1 2 M 1 3 5 0 2 I 0 8433 3 0 2 M 29 87 S 0 2 5 0 2 I 0 9688 3 0 2 S 1 1 M 5 15 5 0 2 I 0 7655 3 0 2 M 9 27 S 0 1 5 0 2 I 0 1997 3 0 2 S 1 2 M 9 27 S 0 1 5 0 2 I 0 6389 3 0 2 S 1 2 M 3 9 G 0 3 M 21 63 S 0 2 5 0 2 I 0 2020 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 14873 3 0 2 S 1 1 M 18 54 5 0 2 I 0 7050 3 0 2 M 5 15 5 0 2 I 0 2409 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 9371 95024 114 - . gene_id 4 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 94969 95024 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 94969 95024 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 94967 94968 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 89962 94968 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 89962 89963 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 89892 89961 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 89892 89961 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 89890 89891 . - . intron_id 2 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 88253 89891 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 88253 88254 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 88251 88252 . - . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 73796 88252 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 73796 73797 . - . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 73743 73795 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 73743 73795 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 73741 73742 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 71254 73742 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 71254 71255 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 71130 71253 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 71130 71253 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 71128 71129 . - . intron_id 5 ; splice_site "GC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 70757 71129 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 70757 70758 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 70735 70756 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 70735 70756 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 70733 70734 . - . intron_id 6 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 70280 70734 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 70280 70281 . - . intron_id 5 ; splice_site "aG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 70275 70279 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 70275 70279 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 70273 70274 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 61838 70274 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 61838 61839 . - . intron_id 6 ; splice_site "AC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 61749 61837 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 61749 61837 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 61747 61748 . - . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 52057 61748 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 52057 52058 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 52041 52056 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 52041 52056 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 52039 52040 . - . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 44382 52040 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 44382 44383 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 44354 44381 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 44354 44381 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 44352 44353 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 42353 44353 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42353 42354 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42323 42352 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42323 42352 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 42321 42322 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 35930 42322 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 35930 35931 . - . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 35851 35929 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 35851 35929 . - . insertions 3 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 35849 35850 . - . intron_id 12 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 33827 35850 . - . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 33827 33828 . - . intron_id 11 ; splice_site "CG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 33794 33826 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 33794 33826 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 33792 33793 . - . intron_id 13 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 18917 33793 . - . intron_id 13 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 18917 18918 . - . intron_id 12 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 18862 18916 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 18862 18916 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 18860 18861 . - . intron_id 14 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 11808 18861 . - . intron_id 14 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 11808 11809 . - . intron_id 13 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 11793 11807 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 11793 11807 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 11791 11792 . - . intron_id 15 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 9380 11792 . - . intron_id 15 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 9380 9381 . - . intron_id 14 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 9371 9379 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 9371 9379 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 9371 95024 114 - . alignment_id 4 ; Query SPP00000019_1.0 ; Align 95025 5 54 ; Align 89961 24 69 ; Align 73796 47 51 ; Align 71253 65 123 ; Align 70757 106 21 ; Align 70278 114 3 ; Align 61838 115 87 ; Align 52056 145 15 ; Align 44382 150 27 ; Align 42351 160 27 ; Align 35928 170 9 ; Align 35916 173 63 ; Align 33826 195 30 ; Align 18916 206 54 ; Align 11808 224 15 ; Align 9380 229 9 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 108 Query range: 13 -> 579 Target range: 118276 -> 25339 14 : AlaAlaArgLeuLeuProLeuGlyArgCysSer >>>> Target Intron 1 >> : 25 ::! !|||:!! ! !! !|||||| ... 292 bp SerArgArgValGluGluCysGlyArgArgGln++ 118276 : AGCAGGCGGGTGGAGGAGTGCGGGCGAaggcaggt....................... : 118241 26 : >> ProSerProAlaProArgSerThrLeuSerGlyAlaAlaMetGluPro{Al} : 41 |||:!! !|||||||||.!!.!! |||||||||... |||{::} ++ProAlaGlyAlaProArgGlyAlaGlySerGlyAlaGlyArgAlaPro{Se}-+ 118240 : ..agCCGGCTGGGGCTCCGCGGGGCGCCgggagcggggcggggcgcgcgccG{AG}ct : 117901 42 : >>>> Target Intron 2 >>>> {a}Pro >>>> Target Intron 3 >> : 43 342 bp {!}||| 445 bp ++{r}Pro+- 117900 : .........................ag{C}CCGgg....................... : 117553 44 : >> ArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuProVal : 60 ! ! |||!.!!.!! ! !!!. ||| !!:!! !!.!:!! !||| ++ThrValLeuGlyAlaSerValLeuThrValArgProValValGlyValAspVal 117552 : ..agACCGTACTTGGAGCTTCAGTGTTGACAGTGAGGCCAGTTGTGGGTGTGGATGTT : 117059 61 : GluAlaProProProGlyProGluGly >>>> Target Intron 4 >>>> : 70 |||!.! !||||||.!!|||||| ! 358 bp GluGlyCysProProSerProGluPro++ ++++ 117058 : GAAGGGTGCCCCCCCAGTCCAGAACCGgt.........................aggt : 116671 71 : >>>> Target Intron 5 >>>> {A} >>>> Target Intron 6 >>>> : 70 3071 bp {|} 1409 bp ++{A}++ + 116670 : .........................ag{G}gt.........................a : 112192 71 : {la}ProSerAlaProArgProValProGlyAlaCysPheThrArgValGln >>> : 87 {||}|||:::... |||||| !|||||||||.!! ! !..! ! +{la}ProAlaCysGlnAlaProValGlyGlyAlaCysLeuAspAlaThrThr+- 112191 : g{cc}ccagcctgccaggcccctgtgGGGGGCGCCTGCCTCGACGCCACCACAgc... : 112138 88 : > Target Intron 7 >>>> ProThrProLeuArgGlnProArgLeuValAlaL : 98 671 bp !! ! !||||||:!! !! ! !!.! ! -+ThrTrpGluLeuArgLysValProGluAlaTrpG 112137 : ......................ggACATGGGAGCTGCGGAAGGTTCCCGAAGCATGGG : 111436 99 : euSerGluProAlaLeuAlaLeuLeuGlyLeuGlyAlaProProAlaArgGluAla{G : 117 !|||! !|||||| !!.!||| !||||||||||||||| !!:!!|||..! !{ lySerGlyProAlaGluGlyLeuAlaGlyLeuGlyAlaProAlaSerArgArgTrp{P 111435 : GGTCCGGGCCCGCTGAGGGGCTGGCAGGCTTGGGAGCTCCGGCCTCCAGGAGGTGG{C : 111379 118 : l} >>>> Target Intron 8 >>>> {u}AlaGluAlaAlaLeuPhePheSer : 125 } 120 bp {!}||||||!.!.!!! ! ! ! r}++ ++{o}AlaGluGlyThrGlnArgProLeu 111378 : C}gt.........................ag{A}GCGGAGGGGACCCAGCGACCTCTG : 111235 126 : GlyAsnAlaLeuLeuPro{G} >>>> Target Intron 9 >>>> {ly}AlaG : 134 |||.!.|||! ! !|||{!} 1685 bp {.!}:!!. GlyGlnAlaProAlaPro{A}-+ -+{la}SerA 111234 : GGACAGGCCCCTGCTCCA{G}at.........................gg{CC}TCCC : 109523 135 : luProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeuGl : 153 .! !!||| !!! ! !! !||| |||||| !||| || rgAlaAlaProProGlnValSerGlyGlyAlaAlaGlyGlnArgArgGlyAlaGlyGl 109522 : GGGCGGCGCCGCCTCAGGTTTCCGGAGGGGCCGCAGGGCAGCGGCGCGGCGCcggggg : 109466 154 : yAspGlyAlaAlaMetTyrLeuGlyGluValCys >>>> Target Intron 10 : 165 |:::|||......:!: ! !!.!..!!.! 250 bp yGluGlyGlyGlyValThrCysAlaArgAlaPro+- 109465 : ggagggcgggggcgTCACGTGCGCCCGGGCCCCGgg...................... : 109428 166 : >>>> ThrAlaThrGlyGluArgTrpGluLeuGlnLeuLysGlyAlaGlyProThrP : 182 !!.!||| ! ! !||||||:!!!:::!! ! ! !! !! ! !| ++GluValThrLysThrAlaTrpGluValArgValValTyrGlnAspLeuGlnP 109427 : ....agGAGGTGACCAAGACGGCCTGGGAGGTGCGCGTCGTGTACCAGGATCTGCAGC : 109129 183 : roPheSerArgGlnAlaAspGlyArgLys{Va} >>>> Target Intron 11 > : 192 || ! .!! ! ||| !!||| ! !{ } 3959 bp roValGlySerGlyAlaTyrGlyAlaVal{Cy}++ 109128 : CCGTGGGCTCCGGCGCCTACGGCGCCGTG{TG}gt....................... : 109095 193 : >>> {l}LeuArgSerSerIleArgGluPheLeuCysSerGluAlaMetPheHisLe : 209 {!}||||||!!!!!! !||| :!!|||!!!||||||:!! !...|| -+{s}LeuArgArgArgGlyAlaGluArgValCysThrGluAlaLeuAlaArgLe 109094 : ...cg{C}TTGAGGAGAAGGGGGGCGGAGAGGGTCTGCACAGAGGCACTGGCCAGGCT : 105089 210 : uGlyValProThrThrArgAlaGlyAlaCysValThrSerGluSerThrValValArg : 228 |||| !||| ! !|||::!!.!!.! ! !||| !!! !..! !:!!:!!||| uGlyGlnProGlnGlyArgSerAlaGlyGluGluThrProGlyAspLeuLeuLeuArg 105088 : GGGGCAGCCGCAGGGGCGGAGCGCGGGGGAGGAGACCCCCGGGGACCTGTTACTGAGG : 105032 229 : >>>> Target Intron 12 >>>> AspValPheTyrAspGlyAsnPro >> : 237 3339 bp |||!.! ! ! !..!.!.||| ++ ++AspAlaProGluAlaSerGluPro++ 105031 : gt..........................agGATGCACCAGAAGCTTCAGAGCCAgt.. : 101664 238 : >> Target Intron 13 >>>> LysTyrGluGlnCysThrValValLeu{Ar} : 246 4401 bp ! ! ||| :!!!.!:!!|||{||} ++AspSerThrGlnProSerAlaIleLeu{Ar}+ 101663 : ........................agGATTCGACTCAGCCATCGGCGATCCTG{AG}g : 97236 247 : >>>> Target Intron 14 >>>> {g}ValAlaSerThrPheIleArgPheGl : 255 314 bp {|}...|||!!!|||!::! !! !! ! + ++{g}AlaAlaThrThrTrpSerProSerPr 97235 : t..........................ag{g}gcgGCTACCACCTGGAGTCCCTCTCC : 96897 256 : y{S} >>>> Target Intron 15 >>>> {er}PheGluIlePheLysSerAl : 263 !{|} 2072 bp {||} !..!:!!|||! !!. o{S}++ ++{er}GlyArgValPheThrLeuVa 96896 : C{A}gt..........................ag{GC}GGCCGAGTCTTCACCCTTGT : 94801 264 : aAspGlu >>>> Target Intron 16 >>>> HisThrGlyArgAlaGlyPro : 272 !|||||| 1487 bp ! .!!||||||! !.!!||| lAspGlu++ ++ProAlaGlyArgGluSerPro 94800 : CGATGAGgt..........................agCCGGCCGGTCGGGAGAGCCCT : 93287 273 : SerValGly{Ar} >>>> Target Intron 17 >>>> {g}AsnAspIleArg : 280 |||:!! !!{||} 464 bp {|} !!!::!!||| SerLeuArg{Ar}+- ++{g}ProGluLeuArg 93286 : TCCCTACGG{CG}gc..........................ag{G}CCCGAGTTACGT : 92799 281 : ValGlnLeuLeuAspTyrValIleSerSerPheTyrProGluIleGln{A} >>>> : 297 !.!...:!!!!! |||:!! !! !||| !!:!||| :!!! !{|} AlaSerValPheLeuTyrLeuProPheSerHisPheProCysLeuPro{A}-+ 92798 : GCCAGTGTTTTCTTGTATTTGCCATTCAGTCATTTCCCCTGCCTTCCA{G}tt..... : 92745 298 : Target Intron 18 >>>> {la}AlaHisAlaSerAspSerValGlnArgAsnA : 308 2786 bp {||} !!.!||| !! |||!.! ! !! ++{la}LeuArgAlaProArgSerAlaAlaAlaValV 92744 : .....................ag{CT}CTCCGTGCCCCGAGGAGCGCGGCTGCTGTCG : 89929 309 : laAlaPhePheArgGluValThrArgArgThrAla{Ar} >>>> Target Intro : 320 .!|||!!..!. ! ! !! ! !!||| !{||} 4224 bp alAlaLeuLeuAlaProProLeuIleTrpThrLeu{Ar}+- 89928 : TGGCCTTGCTGGCCCCCCCGCTGATCTGGACACTC{AG}ga................. : 89889 321 : n 19 >>>> {g}MetValAlaGluTrpGlnCysValGlyPheCysHisGlyValLe : 335 {|}::::::||| ||| |||||||||||||||... ...:: ++{g}IleIleAlaPheTrpCysCysValGlyPheCysArgThrThrMe 89888 : .........ag{g}ataattgctttttggtgttgtgttggtttctgccgtacaacaat : 85624 336 : uAsnThrAspAsnMetSerIle{L} >>>> Target Intron 20 >>>> {eu : 343 :!..! !..!::: |||{!} 1434 bp { ! tArgIleSerHisAspTyrIle{C}++ ++{ys 85623 : gAGAATCAGTCatgactatata{t}gt..........................ag{GC : 84165 344 : }GlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp{A} >>>> Target I : 357 }...||| ||| ||| ... ! !!! !! !{!} 535 }SerLeuPheProAspGlnGlyLeuIleProValHisGly{L}++ 84164 : }tctctgttccctgaccagggattgattcCGGTCCACGGC{A}gt............. : 84121 358 : ntron 21 >>>> {rg}TyrAspProAspHisValCysAsnAlaSerAspAsnThr : 370 8 bp {:!} ! :!!||||||.....! ! !!!!! ! ! ++{ys}GluAsnProAspArgThrThrValLeuThrGlyMetGlu 84120 : .............ag{AG}GAAAACCCAGACAGGACTACTGTGTTGACTGGGATGGAG : 78727 371 : GlyArgTyrAlaTyrSerLysGlnProGluValCysArgTrpAsnLeuArgLysLeuA : 390 |||||| ||| !||| ! !|||!!:|||||| ! ! ||||||:!! !: GlyArgAlaAlaValSerTrpValProAspValCysAlaGlyAlaLeuArgGlnThrS 78726 : GGCAGGGCAGCGGTTTCCTGGGTGCCTGACGTTTGCGCTGGAGCGCTCCGGCAGACCT : 78667 391 : laGluAlaLeu >>>> Target Intron 22 >>>> GlnProGluLeuProLe : 399 !! ! !! ! 438 bp ! |||!!:! !! !|| erTrpLysTyr++ ++ProProAspHisArgLe 78666 : CCTGGAAGTATgt..........................agCCTCCTGACCATCGGCT : 78202 400 : uGluLeuGlyGluAlaIleLeuAlaGluGlu >>>> Target Intron 23 >>> : 410 |...||| !|||||| !|||! :!! 14439 bp uSerLeuGlnGluAlaGlyThrAlaAlaGln++ 78201 : TTCTCTTCAAGAAGCTGGGACGGCAGCTCAGgt......................... : 78167 411 : > PheAspAlaGluPheGlnArgHisTyrLeuGlnLysMetArgArgLysLeuGlyL : 428 !!!:|||:!!.!!! ! !||| !|||||| !:!!! ! !:!!||||||: -+HisGluAlaGlnLeuProAlaHisLeuLeuGlnValValProAlaGluLeuGlyV 78166 : .tgCACGAGGCCCAGCTTCCGGCGCATCTTCTGCAGGTAGTGCCGGCCGAACTCGGCG : 63676 429 : euValGlnValGluLeuGluGluAspGlyAlaLeuVal{S} >>>> Target Int : 441 !!! !! :!!...! !!!:! !||| !|||! !{.} 4284 alGluLeuLeuArgGlnAspGlyLeuGlyGlnLeuGlu{A}+- 63675 : TCGAACTCCTGCGCCAGGATGGCCTCGGCCAGCTCGAG{G}gg............... : 63634 442 : ron 24 >>>> {er}LysLeuLeuGluThrMetHisLeuThrGlyAlaAspPheTh : 455 bp {.!}! !!! !|||..!:!:||||||! ! !|||..!.!.:! -+{sp}ThrPheThrGluValLeuHisLeuIleLysAlaSerLeuSe 63633 : ...........tg{AC}ACTTTCACAGAAGTTTTACATTTAATAAAGGCCAGCCTATC : 59311 456 : rAsnThrPheTyrLeuLeuSerSerPhe >>>> Target Intron 25 >>>> : 465 ! !! !! !:::!!||||||||| ! 5370 bp rPheIleSerTrpValLeuSerSerVal-+ +- 59310 : ATTTATTTCATGGGTCCTGTCTTCTGTGtt..........................ac : 53913 466 : ProValGluLeuGluSerProGlyLeuAlaGluPheLeuAlaArgLeuMetGluGlnC : 484 !!!.!...||| |||||||||!!! !||| :!!::!|||! ! .!.! | SerAlaSerLeuCysSerProGlyPhe***Glu---ValSerArgProSerAsnLeuC 53912 : TCCGCTTCCCTTTGCTCGCCTGGCTTTTGAGAG---GTCAGCCGTCCTTCTAATCTCT : 53857 485 : ysAlaSerLeuGluGlu >>>> Target Intron 26 >>>> LeuArgLeuAl : 493 ||:!!|||:!!...||| 804 bp ::!!!!! !|| ysSerSerValArgGlu++ ++ValSerGlnAl 53856 : GCTCCTCTGTGCGTGAAgt..........................aggtCAGTCAGGC : 53026 494 : a<->PheArgProGlnMet >>>> Target Intron 27 >>>> AspProArg : 501 | .!.|||||||||..! 4195 bp ! |||||| aLeuIleArgProGlnGln++ ++LysProArg 53025 : TCTGATAAGACCCCAGCAGgt..........................agAAGCCCCGA : 48804 502 : GlnLeuSerMetMet >>>> Target Intron 28 >>>> LeuMetLeuAlaG : 511 ...:!!||| ||| 4459 bp :!! ||||||: SerIleSerAspMet+- ++ValGluLeuAlaG 48803 : TCCATATCTGACATGgg..........................agGTGGAACTTGCAG : 44315 512 : lnSerAsnProGlnLeuPheAlaLeuMetGlyThr >>>> Target Intron 29 : 523 !!.!!|||||| !.!.!.! ! |||||| 1383 bp luGlyAsnProAlaGlyLeuGlyGlyGlyGlyThr++ 44314 : AAGGGAACCCTGCTGGCCTGGGTGGGGGCGGGACGgt..................... : 44277 524 : >>>> ArgAlaGlyIleAlaArgGluLeuGluArgValGluGlnGlnSerArgLeu : 539 !!..!|||! !||| !!.!.:!!...! !..!......|||!!!|||||| -+GlyCysGlyThrAlaGlyHisValSerProThrArgSerGlnTrpArgLeu 44276 : .....cgGGCTGTGGGACCGCAGGCCATGTGTCCCCAACACGCTCCCAATGGCGCCTG : 42848 540 : GluGlnLeuSerAlaAlaGluLeuGlnSerArgAsnGln{G} >>>> Target In : 553 ! !!:!! !||||||!.!:!!! !!!.||| !!!!. {!} 17073 AlaArgProSerAlaGlyGlnGlnHisSerGlyLysThr{A}++ 42847 : GCGCGGCCTTCAGCTGGCCAGCAACACAGTGGGAAAACT{G}gt.............. : 42803 554 : tron 30 >>>> {ly}HisTrpAlaAspTrpLeuGlnAlaTyrArgAlaArgLeu{ : 567 bp {.!}|||!:: !||||||||| .!! !!:! ! ! !{ ++{la}HisPheArgAspTrpLeuCysThrIleGlnArgLeuAla{ 42802 : ............ag{CA}CACTTTCGTGACTGGCTCTGCACGATCCAGAGGTTGGCA{ : 25691 568 : A} >>>> Target Intron 31 >>>> {sp}LysAspLeuGluGlyAlaGlyA : 575 |} 313 bp {||} ||| ......|||. A}++ ++{sp}LeuArgLeu***SerValGlyS 25690 : G}gt..........................ag{ac}ctcaggctctagagcgtgggct : 25354 576 : spAlaAlaAlaTrp : 579 ..|||||||||||| erAlaAlaAlaTrp 25353 : cagctgccgcgtgg : 25340 vulgar: SPP00000019_1.0 13 579 . NIVO01039759.1:subseq(161102,119275) 118276 25339 - 108 M 11 33 5 0 2 I 0 288 3 0 2 M 16 48 S 0 2 5 0 2 I 0 338 3 0 2 S 1 1 M 1 3 5 0 2 I 0 441 3 0 2 M 27 81 5 0 2 I 0 354 3 0 2 5 0 2 I 0 3067 3 0 2 S 0 1 5 0 2 I 0 1405 3 0 2 S 1 2 M 16 48 5 0 2 I 0 667 3 0 2 M 30 90 S 0 2 5 0 2 I 0 116 3 0 2 S 1 1 M 14 42 S 0 1 5 0 2 I 0 1681 3 0 2 S 1 2 M 32 96 5 0 2 I 0 246 3 0 2 M 27 81 S 0 2 5 0 2 I 0 3955 3 0 2 S 1 1 M 36 108 5 0 2 I 0 3335 3 0 2 M 8 24 5 0 2 I 0 4397 3 0 2 M 9 27 S 0 2 5 0 2 I 0 310 3 0 2 S 1 1 M 9 27 S 0 1 5 0 2 I 0 2068 3 0 2 S 1 2 M 9 27 5 0 2 I 0 1483 3 0 2 M 10 30 S 0 2 5 0 2 I 0 460 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 2782 3 0 2 S 1 2 M 22 66 S 0 2 5 0 2 I 0 4220 3 0 2 S 1 1 M 22 66 S 0 1 5 0 2 I 0 1430 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 5354 3 0 2 S 1 2 M 36 108 5 0 2 I 0 434 3 0 2 M 16 48 5 0 2 I 0 14435 3 0 2 M 31 93 S 0 1 5 0 2 I 0 4280 3 0 2 S 1 2 M 23 69 5 0 2 I 0 5366 3 0 2 M 11 33 G 1 0 M 13 39 5 0 2 I 0 800 3 0 2 M 4 12 G 0 3 M 5 15 5 0 2 I 0 4191 3 0 2 M 8 24 5 0 2 I 0 4455 3 0 2 M 16 48 5 0 2 I 0 1379 3 0 2 M 30 90 S 0 1 5 0 2 I 0 17069 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 309 3 0 2 S 1 2 M 12 36 # --- 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 25340 118276 108 - . gene_id 5 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 118244 118276 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 118244 118276 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 118242 118243 . - . intron_id 1 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 117952 118243 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 117952 117953 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117902 117951 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117902 117951 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117900 117901 . - . intron_id 2 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 117560 117901 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 117560 117561 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117556 117559 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117556 117559 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117554 117555 . - . intron_id 3 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 117111 117555 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 117111 117112 . - . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117030 117110 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117030 117110 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117028 117029 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 116672 117029 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 116672 116673 . - . intron_id 3 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 116670 116671 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 113601 116671 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 113601 113602 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 113600 113600 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 113600 113600 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 113598 113599 . - . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 112191 113599 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 112191 112192 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 112141 112190 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 112141 112190 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 112139 112140 . - . intron_id 7 ; splice_site "GC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 111470 112140 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 111470 111471 . - . intron_id 6 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 111378 111469 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 111378 111469 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 111376 111377 . - . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 111258 111377 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 111258 111259 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 111214 111257 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 111214 111257 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 111212 111213 . - . intron_id 9 ; splice_site "AT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 109529 111213 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 109529 109530 . - . intron_id 8 ; splice_site "gG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 109431 109528 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 109431 109528 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 109429 109430 . - . intron_id 10 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 109181 109430 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 109181 109182 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 109098 109180 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 109098 109180 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 109096 109097 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 105139 109097 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 105139 105140 . - . intron_id 10 ; splice_site "CG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 105030 105138 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 105030 105138 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 105028 105029 . - . intron_id 12 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 101691 105029 . - . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 101691 101692 . - . intron_id 11 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 101667 101690 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 101667 101690 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 101665 101666 . - . intron_id 13 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 97266 101666 . - . intron_id 13 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 97266 97267 . - . intron_id 12 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 97237 97265 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 97237 97265 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 97235 97236 . - . intron_id 14 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 96923 97236 . - . intron_id 14 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 96923 96924 . - . intron_id 13 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 96894 96922 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 96894 96922 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 96892 96893 . - . intron_id 15 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 94822 96893 . - . intron_id 15 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 94822 94823 . - . intron_id 14 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 94793 94821 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 94793 94821 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 94791 94792 . - . intron_id 16 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 93306 94792 . - . intron_id 16 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 93306 93307 . - . intron_id 15 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 93274 93305 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 93274 93305 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 93272 93273 . - . intron_id 17 ; splice_site "GC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 92810 93273 . - . intron_id 17 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 92810 92811 . - . intron_id 16 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 92748 92809 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 92748 92809 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 92746 92747 . - . intron_id 18 ; splice_site "TT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 89962 92747 . - . intron_id 18 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 89962 89963 . - . intron_id 17 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 89892 89961 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 89892 89961 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 89890 89891 . - . intron_id 19 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 85668 89891 . - . intron_id 19 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 85668 85669 . - . intron_id 18 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 85600 85667 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 85600 85667 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 85598 85599 . - . intron_id 20 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 84166 85599 . - . intron_id 20 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 84166 84167 . - . intron_id 19 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 84124 84165 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 84124 84165 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 84122 84123 . - . intron_id 21 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 78766 84123 . - . intron_id 21 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 78766 78767 . - . intron_id 20 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 78656 78765 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 78656 78765 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 78654 78655 . - . intron_id 22 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 78218 78655 . - . intron_id 22 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 78218 78219 . - . intron_id 21 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 78170 78217 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 78170 78217 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 78168 78169 . - . intron_id 23 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 63731 78169 . - . intron_id 23 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 63731 63732 . - . intron_id 22 ; splice_site "TG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 63637 63730 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 63637 63730 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 63635 63636 . - . intron_id 24 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 59353 63636 . - . intron_id 24 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 59353 59354 . - . intron_id 23 ; splice_site "TG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 59282 59352 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 59282 59352 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 59280 59281 . - . intron_id 25 ; splice_site "TT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53912 59281 . - . intron_id 25 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53912 53913 . - . intron_id 24 ; splice_site "AC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53840 53911 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53840 53911 . - . insertions 0 ; deletions 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53838 53839 . - . intron_id 26 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53036 53839 . - . intron_id 26 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53036 53037 . - . intron_id 25 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53006 53035 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53006 53035 . - . insertions 3 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53004 53005 . - . intron_id 27 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 48811 53005 . - . intron_id 27 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 48811 48812 . - . intron_id 26 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 48787 48810 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 48787 48810 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 48785 48786 . - . intron_id 28 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 44328 48786 . - . intron_id 28 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 44328 44329 . - . intron_id 27 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 44280 44327 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 44280 44327 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 44278 44279 . - . intron_id 29 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 42897 44279 . - . intron_id 29 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42897 42898 . - . intron_id 28 ; splice_site "CG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42806 42896 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42806 42896 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 42804 42805 . - . intron_id 30 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 25733 42805 . - . intron_id 30 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 25733 25734 . - . intron_id 29 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 25691 25732 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 25691 25732 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 25689 25690 . - . intron_id 31 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 25378 25690 . - . intron_id 31 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 25378 25379 . - . intron_id 30 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 25340 25377 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 25340 25377 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 25340 118276 108 - . alignment_id 5 ; Query SPP00000019_1.0 ; Align 118277 14 33 ; Align 117952 25 48 ; Align 117559 42 3 ; Align 117111 43 81 ; Align 112189 71 48 ; Align 111470 87 90 ; Align 111257 118 42 ; Align 109527 133 96 ; Align 109181 165 81 ; Align 105138 193 108 ; Align 101691 229 24 ; Align 97266 237 27 ; Align 96922 247 27 ; Align 94820 257 27 ; Align 93306 266 30 ; Align 92809 277 60 ; Align 89960 298 66 ; Align 85667 321 66 ; Align 84164 344 39 ; Align 78764 358 108 ; Align 78218 394 48 ; Align 63731 410 93 ; Align 59351 442 69 ; Align 53912 465 33 ; Align 53879 477 39 ; Align 53036 490 12 ; Align 53021 494 15 ; Align 48811 499 24 ; Align 44328 507 48 ; Align 42897 523 90 ; Align 25731 554 39 ; Align 25376 568 36 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 108 Query range: 22 -> 174 Target range: 117050 -> 16958 23 : CysSerProSerProAlaPro >>>> Target Intron 1 >>>> >>>> T : 30 ||| !!|||||||||! !||| 358 bp CysProProSerProGluPro++ ++++ 117050 : TGCCCCCCCAGTCCAGAACCGgt.........................aggt...... : 116669 31 : arget Intron 2 >>>> >>>> Target Intron 3 >>>> ArgSerTh : 32 28419 bp 16453 bp |||||| ++++ -+ArgSerGl 116668 : ...................aggt.........................ggAGGAGCCA : 71793 33 : rLeuSerGlyAlaAlaMetGluProAlaProArgTrpLeu{A} >>>> Target I : 46 !:!!||||||.!! !! ...||||||||| !! ! :!!{.} 1264 nValSerGlyThrGlnSerArgProAlaProGlyGlyVal{C}++ 71792 : GGTCAGTGGGACCCAGAGCCGTCCTGCCCCTGGGGGCGTC{T}gt............. : 71748 47 : ntron 4 >>>> {la}GlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuProV : 60 bp {.!} !!||| !! !.!.:!!|||!.!! !|||!.!||||||! ++{ys}ArgLeuAlaSerGlnHisArgGlyTyrArgGlyLeuProG 71747 : ............ag{GT}CGACTGGCCTCTCAACATCGTGGTTACCGAGGGCTGCCTG : 70445 61 : alGlu >>>> Target Intron 5 >>>> AlaProProProGlyProGluGly : 69 !:!! 17373 bp !! ! !|||||||||... luGln++ ++ArgLeuGluProGlyProSerPro 70444 : AGCAGgt.........................agAGGCTGGAGCCgggcccttcccct : 53045 70 : AlaPro{S} >>>> Target Intron 6 >>>> {er}AlaProArgProValP : 78 :::|||{.} 6085 bp {.!}||| !!||| !!.!! SerPro{A}++ ++{sp}AlaAlaArgArgAlaG 53044 : tcccca{g}gt.........................ag{AC}GCAGCCAGGAGGGCTC : 46933 79 : roGlyAlaCysPheThrArgValGlnProThrProLeuArgGlnProArg{L} >>> : 95 !.!!:!! ! |||||||||||| ! !||| ! !!.!.||| !{ } lnSerSerArgGlyThrArgValGlnGluGluProAlaGlyAspProAla{G}++ 46932 : AGAGCTCTCGGGGGACCAGGGTCCAAGAAGAGCCCGCAGGTGACCCAGCA{G}gt... : 46879 96 : > Target Intron 7 >>>> {eu}ValAlaLeuSerGluProAlaLeuAlaLeu : 105 19743 bp { !}|||!.!! ! !!|||||||||! !||| ! ++{ly}ValGlyProProGluProAlaArgAlaAla 46878 : ......................ag{GG}GTCGGGCCGCCCGAGCCGGCGCGGGCTGCG : 27109 106 : LeuGlyLeuGlyAlaProProAlaArgGluAlaGluAlaGluAlaAlaLeuPhePheS : 125 !||| !|||||| !! !! !! !..!|||! !||| !||| !! ! . GlyGlyAlaGlyAlaAlaAlaProAlaSerAlaAlaAlaProAlaArgProSerGlyG 27108 : GGAGGCGCAGGGGCCGCCGCCCCCGCCTCGGCTGCAGCCCCGGCGCGTCCTtccggcg : 27049 126 : erGlyAsn{A} >>>> Target Intron 8 >>>> {la}LeuLeuProGlyAl : 133 ..|||...{|} 527 bp {||} !:!!|||||||| lyGlyGly{A}+- ++{la}GlyValProGlyAl 27048 : ggggcggc{g}gc.........................ag{CC}GGCGTCCCCGGCGC : 26498 134 : aGluProAlaAlaHisCysTyr{C} >>>> Target Intron 9 >>>> {ys} : 141 |.!. !! !!.!!||| !! { } 316 bp {! } aHisThrProThrHisGlyLeu{G}++ ++{ly} 26497 : CCACACCCCGACCCATGGCCTG{G}gt.........................ag{GA} : 26157 142 : GlyHisGlnPhe >>>> Target Intron 10 >>>> GlyGlnPheAlaGlyG : 151 !||| .!! 5304 bp ||||||.!.|||||| ThrHisAlaIle++ ++GlyGlnLeuAlaGlyV 26156 : ACCCATGCCATTgt..........................agGGACAGCTGGCCGGGG : 20824 152 : lnLeuGlyAspGlyAlaAla >>>> Target Intron 11 >>>> MetTyrLe : 160 |||! ! ! !!.!! ! 3794 bp ! ! !! alLeuValLysTrpThrLys++ ++ArgArgSe 20823 : TCCTCGTCAAGTGGACAAAGgt..........................agAGGCGCTC : 17003 161 : uGlyGluValCysThrAlaThrGlyGluArgTrpGluLeuGln : 174 !|||.!.:!! ! !! !|||||| ! !|||! !|||||| rGlyHisLeuHisGlnGluThrGlyProLeuTrpGlyLeuGln 17002 : AGGACACCTCCACCAGGAGACAGGGCCCCTGTGGGGGCTGCAG : 16959 vulgar: SPP00000019_1.0 22 174 . NIVO01039759.1:subseq(161102,119275) 117050 16958 - 108 M 7 21 5 0 2 I 0 354 3 0 2 5 0 2 I 0 28415 3 0 2 5 0 2 I 0 16449 3 0 2 M 16 48 S 0 1 5 0 2 I 0 1260 3 0 2 S 1 2 M 15 45 5 0 2 I 0 17369 3 0 2 M 10 30 S 0 1 5 0 2 I 0 6081 3 0 2 S 1 2 M 22 66 S 0 1 5 0 2 I 0 19739 3 0 2 S 1 2 M 32 96 S 0 1 5 0 2 I 0 523 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 312 3 0 2 S 1 2 M 4 12 5 0 2 I 0 5300 3 0 2 M 12 36 5 0 2 I 0 3790 3 0 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 16959 117050 108 - . gene_id 6 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117030 117050 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117030 117050 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117028 117029 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 116672 117029 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 116672 116673 . - . intron_id 0 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 116670 116671 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 88253 116671 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 88253 88254 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 88251 88252 . - . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 71800 88252 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 71800 71801 . - . intron_id 2 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 71751 71799 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 71751 71799 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 71749 71750 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 70487 71750 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 70487 70488 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 70440 70486 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 70440 70486 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 70438 70439 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53067 70439 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53067 53068 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53036 53066 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53036 53066 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53034 53035 . - . intron_id 6 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 46951 53035 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 46951 46952 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 46882 46950 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 46882 46950 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 46880 46881 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 27139 46881 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 27139 27140 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 27040 27138 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 27040 27138 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 27038 27039 . - . intron_id 8 ; splice_site "gc" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 26513 27039 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 26513 26514 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 26474 26512 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 26474 26512 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 26472 26473 . - . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 26158 26473 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 26158 26159 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 26144 26157 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 26144 26157 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 26142 26143 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 20840 26143 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 20840 20841 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 20804 20839 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 20804 20839 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 20802 20803 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 17010 20803 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 17010 17011 . - . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 16959 17009 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 16959 17009 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 16959 117050 108 - . alignment_id 6 ; Query SPP00000019_1.0 ; Align 117051 23 21 ; Align 71800 30 48 ; Align 70485 47 45 ; Align 53067 62 30 ; Align 46949 73 66 ; Align 27137 96 96 ; Align 26511 129 36 ; Align 26156 142 12 ; Align 20840 146 36 ; Align 17010 158 51 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 108 Query range: 19 -> 200 Target range: 119160 -> 15928 20 : LeuGlyArgCysSerProSerProAlaProArgSerThrLeuSerGlyAlaAla{Me} : 38 ||||||||| !!|||! !:!!||||||||| ||| ||| !!.!..!{ } LeuGlyArgGlySerArgAlaProAlaProProSerProAlaSerProGlyCys{Gl} 119160 : CTTGGGAGGGGCAGCCGAGCGCcggcccccccctcccccgcttcCCCAGGGTGC{GG} : 119106 39 : >>>> Target Intron 1 >>>> {t}GluProAlaProArgTrpLeuAlaGl : 47 265 bp {!}..! !!!.! !!||| ! ! !|| ++ ++{y}ArgThrGlyThrArgProGlnArgGl 119105 : gt.........................ag{G}AGGACGGGTACCAGGCCCCAAAGAGG : 118814 48 : yLeu{Ar} >>>> Target Intron 2 >>>> {g}PheAspAsnArgAlaLeu : 55 |! !{||} 7868 bp {|} !... |||::!:!! yPro{Ar}++ ++{g}GlySerLeuArgSerVal 118813 : GCCC{AG}gt.........................ag{A}GGTTCACTGCGCAGCGTC : 110922 56 : ArgAlaLeuProValGluAlaProProPro{G} >>>> Target Intron 3 >> : 66 |||:!! !||| ! ||||||! ! !!{|} 5632 bp ArgSerArgProArgProAlaProHisSer{G}++ 110921 : AGGTCCAGACCCAGACCTGCCCCTCACTCT{G}gt....................... : 110886 67 : >> {ly}ProGlu >>>> Target Intron 4 >>>> GlyAlaProSerAla : 73 {||}|||||| 3558 bp ! !||||||..!||| ++{ly}ProGlu++ ++AspAlaProGluAla 110885 : ..ag{GC}CCGGAGgt.........................agGATGCACCAGAAGCT : 101678 74 : ProArgProVal >>>> Target Intron 5 >>>> >>>> Target Int : 78 !!..!|||||| 13411 bp 8799 b SerGluProVal+- ++++ 101677 : TCAGAGCCAGTGgg.........................aggt............... : 88250 79 : ron 6 >>>> ProGlyAlaCysPheThr >>>> Target Intron 7 >>>> : 84 p |||!.! ! !|||||| 26369 bp ++ProAlaGlnThrPheThr++ + 88249 : ..........agCCAGCTCAGACCTTCACGgt.........................a : 53068 85 : ArgValGlnProThrProLeuArgGlnPro{A} >>>> Target Intron 8 > : 94 |||:!!:!!||| ||| ...|||{ } 9872 bp +ArgLeuGluProGlyProSerProSerPro{V}++ 53067 : gAGGCTGGAGCCgggcccttccccttcccca{g}gt...................... : 53033 95 : >>> {rg}LeuValAlaLeuSerGluProAlaLeuAlaLeuLeuGlyLeuGlyAlaP : 111 { !}! ! !..!! !|||..!|||.!! ! ! !:!!|||:!!||||||| ++{al}SerSerCysTrpSerSerProThrArgMetSerValGlyValGlyAlaP 53032 : ...ag{TC}TCGAGCTGCTGGTCCTCACCCACCAGGATGAGCGTTGGGGTAGGAGCCC : 43113 112 : roProAlaArgGluAlaGlu >>>> Target Intron 9 >>>> AlaGluAla : 120 || !..!|||! !|||:!! 3850 bp !.! .!! roGlyCysArgGlyAlaGln+- ++GlyProThr 43112 : CAGGCTGCCGAGGGGCCCAGga.........................agGGTCCCACT : 39236 121 : AlaLeuPhePhe{S} >>>> Target Intron 10 >>>> {er}GlyAsnAla : 128 |||:!! !!::{:} 10662 bp {!!}|||::: AlaMetAspTrp{A}-+ ++{la}GlyHisPro 39235 : GCTATGGACTGG{G}ct..........................ag{ca}ggacacccc : 28550 129 : LeuLeuProGlyAlaGluProAlaAlaHis{C} >>>> Target Intron 11 > : 139 ||||||:!!.!.||||||! ! !{.} 2451 bp ProProProGlySerAsnProAlaGluGly{A}++ 28549 : ccacccccgggctCAAACCCTGCAGAGGGT{G}gt....................... : 28514 140 : >>> {ys}TyrCysGlyHisGlnPheGlyGlnPheAlaGlyGlnLeu{G} >>>> : 153 {..}! !|||! !||||||!:! !||| ! !|||!!.! !{|} ++{la}CysCysGluHisGlnTyrLeuGlnAlaLeuGlyHisCys{G}++ 28513 : ...ag{CA}TGCTGTGAACACCAGTATCTGCAGGCCTTGGGTCACTGC{G}gt..... : 26021 154 : Target Intron 12 >>>> {ly}AspGlyAlaAlaMetTyrLeuGlyGlu{Va} : 163 9692 bp {||}||| !! ! ! !!!!..!...{ } ++{ly}AspArgArgHisAlaAlaPheSerSer{Se} 26020 : .....................ag{GA}GACCGCAGACACGCTGCCTTCTCCTCC{AG} : 16302 164 : >>>> Target Intron 13 >>>> {l}CysThrAlaThrGlyGluArgTrpG : 172 193 bp {!}|||!.!:!! ! !:!!||| ! | ++ ++{r}CysAsnSerGlyThrGlnArgGlyG 16301 : gt..........................ag{C}TGCAACTCAGGGACACAGAGAGGTG : 16082 173 : luLeuGlnLeuLysGlyAlaGlyProThrProPheSerArg{Gl} >>>> Target : 186 |||||! :!! !:!!||||||.!! !.!.!.!|||{..} luLeuProValGlyProSerGlyProAla***LeuLysArg{Me}++ 16081 : AACTCCCCGTCGGCCCCTCGGGTCCAGCCTGACTGAAGCGC{AT}gt........... : 16036 187 : Intron 14 >>>> {n}AlaAspGlyArgLysValLeuArgSerSerIleArgGl : 199 67 bp {!} !! !|||||| ! :!! !! !||||||!!:..! ++{t}TyrAlaGlyArgAspIleSerLeuSerSerMetGluTh 16035 : ...............ag{G}TACGCTGGTCGGGACATTAGTCTCTCCAGCATGGAGAC : 15934 200 : uPhe : 200 !||| rPhe 15933 : GTTC : 15929 vulgar: SPP00000019_1.0 19 200 . NIVO01039759.1:subseq(161102,119275) 119160 15928 - 108 M 18 54 S 0 2 5 0 2 I 0 261 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 7864 3 0 2 S 1 1 M 16 48 S 0 1 5 0 2 I 0 5628 3 0 2 S 1 2 M 2 6 5 0 2 I 0 3554 3 0 2 M 9 27 5 0 2 I 0 13407 3 0 2 5 0 2 I 0 8795 3 0 2 M 6 18 5 0 2 I 0 26365 3 0 2 M 10 30 S 0 1 5 0 2 I 0 9868 3 0 2 S 1 2 M 23 69 5 0 2 I 0 3846 3 0 2 M 7 21 S 0 1 5 0 2 I 0 10658 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 2447 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 9688 3 0 2 S 1 2 M 9 27 S 0 2 5 0 2 I 0 189 3 0 2 S 1 1 M 22 66 S 0 2 5 0 2 I 0 63 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 15929 119160 108 - . gene_id 7 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 119105 119160 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 119105 119160 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 119103 119104 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 118840 119104 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 118840 118841 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 118807 118839 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 118807 118839 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 118805 118806 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 110939 118806 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 110939 110940 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 110889 110938 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 110889 110938 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 110887 110888 . - . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 105257 110888 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 105257 105258 . - . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 105249 105256 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 105249 105256 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 105247 105248 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 101691 105248 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 101691 101692 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 101664 101690 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 101664 101690 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 101662 101663 . - . intron_id 5 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 88253 101663 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 88253 88254 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 88251 88252 . - . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 79454 88252 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 79454 79455 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 79436 79453 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 79436 79453 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 79434 79435 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53067 79435 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53067 53068 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53036 53066 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53036 53066 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53034 53035 . - . intron_id 8 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 43164 53035 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 43164 43165 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 43093 43163 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 43093 43163 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 43091 43092 . - . intron_id 9 ; splice_site "GA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 39243 43092 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 39243 39244 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 39221 39242 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 39221 39242 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 39219 39220 . - . intron_id 10 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 28559 39220 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 28559 28560 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 28517 28558 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 28517 28558 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 28515 28516 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 26066 28516 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 26066 26067 . - . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 26024 26065 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 26024 26065 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 26022 26023 . - . intron_id 12 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 16332 26023 . - . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 16332 16333 . - . intron_id 11 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 16301 16331 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 16301 16331 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 16299 16300 . - . intron_id 13 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 16108 16300 . - . intron_id 13 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 16108 16109 . - . intron_id 12 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 16039 16107 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 16039 16107 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 16037 16038 . - . intron_id 14 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 15972 16038 . - . intron_id 14 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 15972 15973 . - . intron_id 13 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 15929 15971 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 15929 15971 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 15929 119160 108 - . alignment_id 7 ; Query SPP00000019_1.0 ; Align 119161 20 54 ; Align 118839 39 30 ; Align 110938 50 48 ; Align 105255 67 6 ; Align 101691 69 27 ; Align 79454 78 18 ; Align 53067 84 30 ; Align 43162 95 69 ; Align 39243 118 21 ; Align 28557 126 39 ; Align 26064 140 39 ; Align 16330 154 27 ; Align 16107 164 66 ; Align 15971 187 42 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 106 Query range: 13 -> 219 Target range: 110060 -> 12562 14 : AlaAlaArgLeuLeuProLeuGlyArgCysSerProSer{Pr} >>>> Target I : 27 |||!.!|||||| !! !||| !! ! !||||||:!!{ } 5353 AlaGlyArgLeuAlaHisLeuTrpAlaValSerProAla{Ar}++ 110060 : GCAGGGCGGCTTGCACATCTCTGGGCAGTCTCCCCAGCC{AG}gt............. : 110017 28 : ntron 1 >>>> {o}AlaProArgSerThrLeuSerGlyAlaAlaMetGluProAl : 41 bp {!}!.!||| !! !! !||| !!|||! !||| !... !|| ++{g}GlyProTrpArgLeuLeuProGlyGluAlaTrpSerTrpAl 110016 : ............ag{G}GGGCCGTGGCGGCTGCTCCCTGGGGAGGCTTGGAGCTGGGC : 104626 42 : aProArgTrpLeuAlaGlyLeuArgPheAsp{As} >>>> Target Intron 2 : 52 | ! ||| ...||| ||| |||{..} 51525 bp aGlyGlyTrpAlaGlyGlyGlyArgProAsp{Gl}++ 104625 : GGGGGgctgggcggggggtgggaggcCAGAT{GG}gt..................... : 104589 53 : >>>> {n}ArgAlaLeuArgAlaLeuProValGluAla >>>> Target Intro : 63 {.} !! ! !||||||||||||::: 963 bp ++{y}GlyTrpSerArgAlaLeuProLeuProGln++ 104588 : ....ag{A}GGCTGGAGCCgggcccttccccttccccaggt................. : 53033 64 : n 3 >>>> ProProProGlyProGluGlyAlaProSer{Al} >>>> Target : 73 ||||||||| !|||! !|||||| !|||{ } 243 -+ProProProHisProGlyGlyAlaTyrSer{Ar}++ 53032 : ........tgcctccccctcaCCCAGGAGGGGCTTATTCC{AG}gt............ : 52038 74 : Intron 4 >>>> {a}ProArgProValProGlyAlaCysPheThrArgValGlnP : 87 44 bp {!}||| !|||||| !! ! !|||.!. !||| ! | ++{g}ProAspProValSerProGlnCysLeuAspArgSerThrP 52037 : .............ag{G}CCAGACCCCGTGTCTCCTCAATGCCTAGACCGCAGCACCC : 27656 88 : roThrPro{L} >>>> Target Intron 5 >>>> {eu}ArgGlnProArgLe : 95 || !!|||{ } 10393 bp { !}|||..!|||!:!! roProPro{A}++ ++{rg}ArgSerProGlnTr 27655 : CTCCACCC{A}gt.........................ag{gg}AGGTCACCACAGTG : 17239 96 : uValAlaLeuSerGluProAlaLeuAla{L} >>>> Target Intron 6 >>>> : 105 !! ! !! !!!! |||||||||!.!{ } 169 bp pGlyLeuHisThrProProAlaLeuGly{A}++ 17238 : GGGTCTGCACACACCTCCAGCTCTCGGT{G}gt......................... : 17206 106 : {eu}LeuGlyLeuGlyAlaProProAlaArgGluAla >>>> Target Intro : 117 { !} !!.!|||..!|||||||||||| !|||||| 213 bp +-{la}ThrAlaLeuSerAlaProProAlaSerGluAla-+ 17205 : ac{CC}ACCGCCCTGTCAGCTCCTCCTGCCTCAGAGGCGct................. : 17002 118 : n 7 >>>> GluAlaGluAlaAlaLeuPhePheSerGly{A} >>>> Target I : 127 |||!.!.!.:!!::!|||! !|||||| {.} 2105 ++GluValHisSerSerLeuSerPheSerTrp{G}++ 17001 : ........agGAAGTTCACTCCAGCCTTTCCttttcctgg{g}gt............. : 16758 128 : ntron 8 >>>> {sn}AlaLeuLeuProGlyAlaGluPro >>>> Target In : 136 bp {.!} !! !||||||||| !!!:||| 739 ++{ly}ProAlaLeuProGlyArgAspPro+- 16757 : ............ag{GC}CCTGCACTGCCCGGGCGGGACCCTgg.............. : 14627 137 : tron 9 >>>> AlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGly : 150 bp |||..!... !! ! !|||! !::!.!! !|||.!!|||! ! ++AlaCysArgSerGlnProGlyProArgLeuThrGlnLeuAlaAsp 14626 : ...........agGCCTGCAGGAGCCAGCCTGGTCCCAGACTCACCCAGCTTGCTGAT : 13848 151 : GlnLeuGlyAspGlyAlaAlaMet{Ty} >>>> Target Intron 10 >>>> : 159 ! ! !|||!!:||| !! ! {!:} 972 bp LeuCysGlyGluGlyProTrpArg{Tr}++ ++ 13847 : CTCTGTGGTGAAGGCCCGTGGCGC{TG}gt..........................ag : 12849 160 : {r}LeuGlyGluValCysThrAlaThrGlyGlu{Ar} >>>> Target Intron : 170 {:}|||..!!!::!!! !||| ! !..!..!{||} 104 bp {p}LeuSerAspIleSerThrTrpCysAsnArg{Ar}++ 12848 : {G}CTTTCTGACATCTCCACGTGGTGCAACAGG{AG}gt................... : 12812 171 : 11 >>>> {g}TrpGluLeuGlnLeuLysGlyAlaGlyProThrProPheSerArgG : 186 {|}||| ! !! :!!...|||:!!|||||| !||| !!!! !! -+{g}TrpThrGlyProValSerGlySerGlyProLeuProGlyArgLeuL 12811 : .......gg{A}TGGACAGGGCCTGTTTCTGGGTCTGGGCCACTGCCAGGGAGGCTGC : 12664 187 : lnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSerGluAl : 205 !..! !! ! ! !! !|||.!!..! ! !! ! ! !|||.!! !:! euCysThrArgSerHisCysProArgGlyAspAlaCysThrAlaHisCysGlyProSe 12663 : TGTGCACGCGCTCCCACTGCCCCCGGGGAGACGCCTGCACGGCACACTGCGGGCCATC : 12607 206 : aMetPheHisLeuGlyValProThrThrArgAlaGlyAlaCys : 219 ! !!!. ! !|||||| !..!!:!|||||| !||| rProAlaGlnAlaLeuValProCysValGlnAlaGlyLeuCys 12606 : TCCTGCTCAGGCACTCGTGCCCTGTGTCCAGGCCGGTCTGTGT : 12563 vulgar: SPP00000019_1.0 13 219 . NIVO01039759.1:subseq(161102,119275) 110060 12562 - 106 M 13 39 S 0 2 5 0 2 I 0 5349 3 0 2 S 1 1 M 24 72 S 0 2 5 0 2 I 0 51521 3 0 2 S 1 1 M 10 30 5 0 2 I 0 959 3 0 2 M 10 30 S 0 2 5 0 2 I 0 24340 3 0 2 S 1 1 M 16 48 S 0 1 5 0 2 I 0 10389 3 0 2 S 1 2 M 14 42 S 0 1 5 0 2 I 0 165 3 0 2 S 1 2 M 11 33 5 0 2 I 0 209 3 0 2 M 10 30 S 0 1 5 0 2 I 0 2101 3 0 2 S 1 2 M 8 24 5 0 2 I 0 735 3 0 2 M 23 69 S 0 2 5 0 2 I 0 968 3 0 2 S 1 1 M 10 30 S 0 2 5 0 2 I 0 100 3 0 2 S 1 1 M 49 147 # --- 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 12563 110060 106 - . gene_id 8 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 110020 110060 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 110020 110060 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 110018 110019 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 104667 110019 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 104667 104668 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 104592 104666 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 104592 104666 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 104590 104591 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 53067 104591 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 53067 53068 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 53036 53066 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 53036 53066 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 53034 53035 . - . intron_id 3 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 52073 53035 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 52073 52074 . - . intron_id 2 ; splice_site "tg" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 52041 52072 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 52041 52072 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 52039 52040 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 27697 52040 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 27697 27698 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 27647 27696 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 27647 27696 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 27645 27646 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 17254 27646 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 17254 17255 . - . intron_id 4 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 17209 17253 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 17209 17253 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 17207 17208 . - . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 17040 17208 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 17040 17041 . - . intron_id 5 ; splice_site "AC" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 17005 17039 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 17005 17039 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 17003 17004 . - . intron_id 7 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 16792 17004 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 16792 16793 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 16761 16791 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 16761 16791 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 16759 16760 . - . intron_id 8 ; splice_site "gt" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 14656 16760 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 14656 14657 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 14630 14655 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 14630 14655 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 14628 14629 . - . intron_id 9 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 13891 14629 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 13891 13892 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 13820 13890 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 13820 13890 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 13818 13819 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 12848 13819 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 12848 12849 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 12815 12847 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 12815 12847 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 12813 12814 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 12711 12814 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 12711 12712 . - . intron_id 10 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 12563 12710 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 12563 12710 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 12563 110060 106 - . alignment_id 8 ; Query SPP00000019_1.0 ; Align 110061 14 39 ; Align 104666 28 72 ; Align 53066 53 30 ; Align 52073 63 30 ; Align 27696 74 48 ; Align 17252 91 42 ; Align 17038 106 33 ; Align 16792 117 30 ; Align 14654 128 24 ; Align 13891 136 69 ; Align 12847 160 30 ; Align 12710 171 147 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 102 Query range: 39 -> 198 Target range: 117420 -> 50898 40 : ProAlaProArgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArg >>>> : 57 ||||||||| !!|||:!!||| !|||..! !!:.!.! !..!||| !! ProAlaProGlyTrpValAlaLeuLeuGluLysGluGluProCysLeuGly++ 117420 : CCCGCCCCAGGGTGGGTAGCTTTGCTTGAAAAAGAAGAGCCCTGCTTGGGGgt..... : 117367 58 : Target Intron 1 >>>> >>>> Target Intron 2 >>>> AlaLeuP : 59 698 bp 3730 bp .!!|||| ++++ ++ThrLeuP 117366 : ....................aggt.........................agACCCTTC : 112935 60 : roValGluAlaProProProGlyProGluGlyAlaProSerAlaProArgProValPr : 78 || !|||||| !||||||||| !..!::!|||!!! !!||| !!! ! ! ro---TrpAlaProArgProGlyProThrSerSerProCysProProCysLeuArgAr 112934 : CG---TGGGCACCTAGGCCCGGACCTACATCCAGTCCCTGCCCCCCATGCCTCAGAAG : 112881 79 : oGlyAlaCysPheThrArgValGlnProThrProLeu >>>> Target Intron : 91 ! !:!! ! :!! !!.!:!!|||||||||! ! 1696 bp gThrSerGlyAlaSerSerAlaGluProThrProTrp++ 112880 : GACCTCAGGAGCATCTTCCGCGGAGCCAACCCCCTGGgt................... : 112840 92 : 3 >>>> ArgGln >>>> Target Intron 4 >>>> ProArgLeu >>>> : 96 !||| 378 bp ! !|||||| ++AspGln+- ++LeuArgLeu+- 112839 : ......agGACCAGgg.........................agCTCAGGCTGgg.... : 110751 97 : Target Intron 5 >>>> ValAlaLeuSerGluProAlaLeuAlaLeuLeuGl : 107 2227 bp !|||! !!!! |||||||||...||| ! ++SerAlaSerCysAlaProAlaLeuGlyLeuArgGl 110750 : .....................agTCTGCCTCCTGCgccccagccctggggctgcGGCA : 108493 108 : yLeuGlyAlaProProAlaArgGluAlaGlu{Al} >>>> Target Intron 6 : 118 !|||||| !||| ! ! !|||:!!|||{ } 1466 bp nLeuGlyArgProArgLysAlaGluSerGlu{Ph}++ 108492 : GCTGGGAAGGCCGAGGAAGGCAGAATCAGAG{TT}gt..................... : 108456 119 : >>>> {a}GluAlaAlaLeuPhePheSerGlyAsnAlaLeuLeuPro{G} >>>> : 132 {!}! |||..!||| !.!.||||||!..!.!:!!:!!|||{|} ++{e}AlaAlaCysLeuAspLeuSerGlyArgGlyMetValPro{G}-+ 108455 : ....ag{T}GCTGCCTGCCTGGACCTGTCTGGCAGAGGCATGGTCCCT{G}ct..... : 106949 133 : Target Intron 7 >>>> {ly}AlaGluProAlaAlaHisCysTyrCysGlyHi : 143 5824 bp {||} !!!:! !!.!|||...||| ...|||! +-{ly}LeuAspHisGlyAlaArgCysArgAlaGlyPr 106948 : ....................aa{GC}TTAGACCATGGAGCCAGATGCAGGGCAGGGCC : 101095 144 : sGlnPhe{G} >>>> Target Intron 8 >>>> {ly}GlnPheAlaGlyGln : 151 !.!. {|} 22895 bp {||}...!::! !|||... oAspGly{G}++ +-{ly}SerTrpAspGlySer 101094 : TGACGGG{G}gt.........................aa{GA}AGCTGGGACGGCAGC : 78176 152 : Leu{G} >>>> Target Intron 9 >>>> {ly}AspGlyAlaAlaMetTyrL : 160 ! !{|} 6552 bp {||}.!.||| !!.! | Ser{G}++ ++{ly}GlnGlyLeuGlyGlyValL 78175 : TCA{G}gt.........................ag{GT}CAGGGGTTGGGGGGTGTGC : 71597 161 : euGlyGluValCysThrAlaThrGlyGluArgTrpGluLeuGlnLeuLys >>>> T : 177 ||||| :!!!! .!!!.!|||!.! ! !|||!!:! ! ! !::! euGlyLeuLeuTrpAlaGlyThrAlaLeuSerTrpAspTrpAlaGlyArg++ 71596 : TGGGCCTTTTGTGGGCAGGCACGGCTCTGTCCTGGGACTGGGCAGGGCGGgt...... : 71544 178 : arget Intron 10 >>>> GlyAlaGlyProThrProPheSerArgGlnAlaAsp : 188 20582 bp |||:!!||||||! !||| :!!||| !!! ++GlySerGlyProArgProAlaAlaArgAlaProGly 71543 : ....................agGGATCCGGACCCAGGCCGGCAGCGCGAGCCCCCGGA : 50931 189 : GlyArgLysValLeuArgSerSerIleArg : 198 ||| !::!..! !! !!!!|||:!:||| GlyAlaArgThrAlaProThrSerLeuArg 50930 : GGAGCTCGGACAGCGCCCACCTCACTGCGC : 50899 vulgar: SPP00000019_1.0 39 198 . NIVO01039759.1:subseq(161102,119275) 117420 50898 - 102 M 17 51 5 0 2 I 0 694 3 0 2 5 0 2 I 0 3726 3 0 2 M 3 9 G 1 0 M 30 90 5 0 2 I 0 1692 3 0 2 M 2 6 5 0 2 I 0 374 3 0 2 M 3 9 5 0 2 I 0 2223 3 0 2 M 22 66 S 0 2 5 0 2 I 0 1462 3 0 2 S 1 1 M 13 39 S 0 1 5 0 2 I 0 5820 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 22891 3 0 2 S 1 2 M 6 18 S 0 1 5 0 2 I 0 6548 3 0 2 S 1 2 M 23 69 5 0 2 I 0 20578 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 # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 50899 117420 102 - . gene_id 9 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 117370 117420 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 117370 117420 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 117368 117369 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 116672 117369 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 116672 116673 . - . intron_id 0 ; splice_site "ag" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 116670 116671 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 112942 116671 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 112942 112943 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 112843 112941 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 112843 112941 . - . insertions 0 ; deletions 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 112841 112842 . - . intron_id 3 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 111147 112842 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 111147 111148 . - . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 111141 111146 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 111141 111146 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 111139 111140 . - . intron_id 4 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 110763 111140 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 110763 110764 . - . intron_id 3 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 110754 110762 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 110754 110762 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 110752 110753 . - . intron_id 5 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 108527 110753 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 108527 108528 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 108459 108526 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 108459 108526 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 108457 108458 . - . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 106993 108458 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 106993 106994 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 106952 106992 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 106952 106992 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 106950 106951 . - . intron_id 7 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 101128 106951 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 101128 101129 . - . intron_id 6 ; splice_site "AA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 101086 101127 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 101086 101127 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 101084 101085 . - . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 78191 101085 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 78191 78192 . - . intron_id 7 ; splice_site "AA" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 78170 78190 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 78170 78190 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 78168 78169 . - . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 71618 78169 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 71618 71619 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 71547 71617 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 71547 71617 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 71545 71546 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 50965 71546 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 50965 50966 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 50899 50964 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 50899 50964 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 50899 117420 102 - . alignment_id 9 ; Query SPP00000019_1.0 ; Align 117421 40 51 ; Align 112942 57 9 ; Align 112933 61 90 ; Align 111147 91 6 ; Align 110763 93 9 ; Align 108527 96 66 ; Align 106992 119 39 ; Align 101126 133 39 ; Align 78189 147 18 ; Align 71616 154 69 ; Align 50965 177 66 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00000019_1.0 # Protein # Selenoprotein O (SelO) # Homo sapiens # Complete Target: NIVO01039759.1:subseq(161102,119275) Ammotragus lervia isolate NAZ scaffold2579_len733371_cov71, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 100 Query range: 5 -> 206 Target range: 106724 -> 19811 6 : AlaAlaLeuGlyAlaSerLeuAla >>>> Target Intron 1 >>>> AlaAl : 15 |||||| !|||!.!|||! !||| 5366 bp !.!.! AlaAlaAlaGlyGlySerProAla++ ++ValTh 106724 : GCAGCTGCAGGGGGCTCTCCTGCAgt.........................agGTCAC : 101331 16 : aArgLeuLeuProLeuGlyArgCysSer{P} >>>> Target Intron 2 >>>> : 25 !!:!||| !|||||| !! !||| !{ } 11339 bp rLysLeuThrProLeuProThrCysVal{T}++ 101330 : AAAGCTGACCCCCCTCCCAACCTGTGTC{A}gt......................... : 101298 26 : {ro}SerProAlaProArgSerThrLeuSerGlyAlaAlaMetGluProAlaPro : 43 {!!} !! !||||||||||||.!! !:!!! !!.!|||:!! ! !! !!||| ++{hr}LeuArgAlaProArgSerAlaAlaAlaValValAlaLeuLeuAlaProPro- 101297 : ag{CT}CTCCGTGCCCCGAGGAGCGCGGCTGCTGTCGTGGCCTTGCTGGCCCCCCCGc : 89908 44 : >>>> Target Intron 3 >>>> >>>> Target Intron 4 >>>> A : 43 1656 bp 9520 bp + ++++ -+G 89907 : t.........................aggt.........................tgG : 78732 44 : rgTrpLeuAlaGlyLeuArgPheAspAsnArgAlaLeuArgAlaLeuProValGluAl : 62 !!||| !||||||! !|||||| !... !! ! ! !|||||| ! !...!. lyTrpArgAlaGlyGlnArgPheProGlyCysLeuThrPheAlaLeuGluArgSerGl 78731 : GATGGAGGGCAGGGCAGCGGTTTCCTGGGTGCCTGACGTTTGCGCTGGAGCGCTCCGG : 78675 63 : aProProProGly{P} >>>> Target Intron 5 >>>> {ro}GluGlyAla : 70 ! !|||||||||{ } 1941 bp { !}|||||| ! yArgProProGly{S}++ ++{er}GluGlyGln 78674 : CAGACCTCCTGGA{A}gt.........................ag{GT}GAGGGGCAG : 76710 71 : ProSerAlaProArgProValProGlyAlaCysPheThrArgValGlnPro{Th} > : 88 !.!! !|||! !|||!.!||| !!..! !! ! !! !||||||{!:} SerGlyArgProProProAlaProArgCysLeuProIleCysProGlnPro{Se}++ 76709 : AGCGGCCGGCCTCCGCCAGCCCCACGCTGCCTGCCCATCTGCCCTCAGCCC{AG}gt. : 76652 89 : >>> Target Intron 6 >>>> {r}ProLeuArgGlnProArgLeuValAlaLe : 98 9375 bp {!}|||:!!..!... !||| ! !||||| ++{r}ProValGluSerGluArgThrArgAlaLe 76651 : ........................ag{C}CCCGTGGAAAGTGAACGGACTAGGGCGCT : 67251 99 : uSerGluProAla >>>> Target Intron 7 >>>> LeuAlaLeuLeuGlyL : 108 | !!!!:|||!.! 4022 bp ! !!:!! !||| uProAspProVal++ ++GlyProMetAlaGlyS 67250 : GCCTGACCCCGTGgt.........................agGGGCCGATGGCAGGCA : 63199 109 : euGlyAlaProProAlaArgGluAlaGluAlaGluAlaAlaLeu{Ph} >>>> Tar : 123 !|||.!!||| !!..!! !! !::!..! !! !::!! !{!:} erGlyThrProThrCysProGlySerArgArgAlaArgSerArg{Tr}++ 63198 : GCGGGACGCCCACCTGTCCAGGAAGCCGAAGGGCCCGTAGTCGA{TG}gt........ : 63150 124 : get Intron 8 >>>> {e}PheSerGly >>>> Target Intron 9 >>>> : 127 1227 bp {:} !!|||||| 9859 bp ++{p}ValSerGly++ 63149 : .................ag{G}GTCTCCGGGgt......................... : 61913 128 : AsnAlaLeuLeuPro{G} >>>> Target Intron 10 >>>> {ly}AlaG : 134 .!.!.!|||:!!|||{|} 9863 bp {||} !: ++GluGlyLeuIlePro{G}++ ++{ly}HisG 61912 : agGAGGGGCTTATTCCA{G}gt..........................ag{GA}CACC : 42172 135 : luProAlaAlaHisCysTyrCysGlyHisGlnPheGlyGlnPheAlaGly >>>> T : 151 !! !:!!!.!!..!! ||| !! !::! ! |||!!.!::!.! ! lnGlySerGlyArgTrpGlyCysArgGlyArgValGlyHisTrpGlyGln++ 42171 : AGGGGTCAGGGCGGTGGGGATGTCGGGGCAGGGTGGGGCATTGGGGGCAGgt...... : 42119 152 : arget Intron 11 >>>> GlnLeuGlyAspGlyAlaAlaMetTyr-LeuGlyGl : 162 6192 bp :!!! !||||||||||||::!:!! # !||| ++LysArgGlyAspGlyAlaSerLeuArg#AlaGlyTh 42118 : ....................agAAACGTGGAGATGGTGCCAGCCTGAGGGGCAGGGAC : 35895 163 : uValCysThrAlaThrGlyGluArgTrpGluLeuGlnLeuLys >>>> Target I : 177 ..!||| !!!.!||| !! !! ! |||! !|||:!!:!! 720 rThrCysProGlyThrLeuGlyGlyGlyGluGlnGlnValGln++ 35894 : CACGTGCCCTGGGACGCTGGGTGGGGGAGAGCAGCAGGTACAGgt............. : 35848 178 : ntron 12 >>>> GlyAla{Gl} >>>> Target Intron 13 >>>> {y} : 179 9 bp |||::!{ } 937 bp {!} ++GlySer{Ly}++ ++{s} 35847 : .............agGGCAGC{AA}gt..........................ag{G} : 27696 180 : ProThrProPheSerArgGlnAlaAspGlyArgLysValLeuArgSerSerIleArgG : 199 ||| !||| ! |||! !|||..! ! !|||!....!! !! ! !!|||:!:!.!: ProAspProValSerProGlnCysLeuAspArgSerThrProProProSerValAsnG 27695 : CCAGACCCCGTGTCTCCTCAATGCCTAGACCGCAGCACCCCTCCACCCAGTGTGAACC : 27638 200 : lu{P} >>>> Target Intron 14 >>>> {he}LeuCysSerGluAlaMet : 206 !!{ } 7803 bp { }||||||!!!! !!.!||| ln{G}+- ++{lu}LeuCysTrpAlaGlyMet 27637 : AA{G}gg..........................ag{AG}CTCTGCTGGGCAGGGATG : 19812 vulgar: SPP00000019_1.0 5 206 . NIVO01039759.1:subseq(161102,119275) 106724 19811 - 100 M 8 24 5 0 2 I 0 5362 3 0 2 M 11 33 S 0 1 5 0 2 I 0 11335 3 0 2 S 1 2 M 17 51 5 0 2 I 0 1652 3 0 2 5 0 2 I 0 9516 3 0 2 M 24 72 S 0 1 5 0 2 I 0 1937 3 0 2 S 1 2 M 20 60 S 0 2 5 0 2 I 0 9371 3 0 2 S 1 1 M 14 42 5 0 2 I 0 4018 3 0 2 M 20 60 S 0 2 5 0 2 I 0 1223 3 0 2 S 1 1 M 3 9 5 0 2 I 0 9855 3 0 2 M 5 15 S 0 1 5 0 2 I 0 9859 3 0 2 S 1 2 M 18 54 5 0 2 I 0 6188 3 0 2 M 9 27 F 0 1 M 17 51 5 0 2 I 0 7205 3 0 2 M 2 6 S 0 2 5 0 2 I 0 933 3 0 2 S 1 1 M 20 60 S 0 1 5 0 2 I 0 7799 3 0 2 S 1 2 M 6 18 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local gene 19812 106724 100 - . gene_id 10 ; sequence SPP00000019_1.0 ; gene_orientation + NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 106701 106724 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 106701 106724 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 106699 106700 . - . intron_id 1 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 101335 106700 . - . intron_id 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 101335 101336 . - . intron_id 0 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 101301 101334 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 101301 101334 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 101299 101300 . - . intron_id 2 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 89962 101300 . - . intron_id 2 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 89962 89963 . - . intron_id 1 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 89909 89961 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 89909 89961 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 89907 89908 . - . intron_id 3 ; splice_site "CT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 88253 89908 . - . intron_id 3 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 88253 88254 . - . intron_id 2 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 88251 88252 . - . intron_id 4 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 78733 88252 . - . intron_id 4 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 78733 78734 . - . intron_id 3 ; splice_site "TG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 78660 78732 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 78660 78732 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 78658 78659 . - . intron_id 5 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 76719 78659 . - . intron_id 5 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 76719 76720 . - . intron_id 4 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 76655 76718 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 76655 76718 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 76653 76654 . - . intron_id 6 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 67280 76654 . - . intron_id 6 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 67280 67281 . - . intron_id 5 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 67237 67279 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 67237 67279 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 67235 67236 . - . intron_id 7 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 63215 67236 . - . intron_id 7 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 63215 63216 . - . intron_id 6 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 63153 63214 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 63153 63214 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 63151 63152 . - . intron_id 8 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 61926 63152 . - . intron_id 8 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 61926 61927 . - . intron_id 7 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 61916 61925 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 61916 61925 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 61914 61915 . - . intron_id 9 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 52057 61915 . - . intron_id 9 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 52057 52058 . - . intron_id 8 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 52041 52056 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 52041 52056 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 52039 52040 . - . intron_id 10 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 42178 52040 . - . intron_id 10 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 42178 42179 . - . intron_id 9 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 42122 42177 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 42122 42177 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 42120 42121 . - . intron_id 11 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 35930 42121 . - . intron_id 11 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 35930 35931 . - . intron_id 10 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 35851 35929 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 35851 35929 . - . insertions 0 ; deletions 0 ; frameshifts 1 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 35849 35850 . - . intron_id 12 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 28642 35850 . - . intron_id 12 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 28642 28643 . - . intron_id 11 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 28634 28641 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 28634 28641 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 28632 28633 . - . intron_id 13 ; splice_site "GT" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 27697 28633 . - . intron_id 13 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 27697 27698 . - . intron_id 12 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 27635 27696 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 27635 27696 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice5 27633 27634 . - . intron_id 14 ; splice_site "GG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local intron 19832 27634 . - . intron_id 14 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local splice3 19832 19833 . - . intron_id 13 ; splice_site "AG" NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local cds 19812 19831 . - . NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local exon 19812 19831 . - . insertions 0 ; deletions 0 NIVO01039759.1:subseq(161102,119275) exonerate:protein2genome:local similarity 19812 106724 100 - . alignment_id 10 ; Query SPP00000019_1.0 ; Align 106725 6 24 ; Align 101335 14 33 ; Align 89960 26 51 ; Align 78733 43 72 ; Align 76717 68 60 ; Align 67279 89 42 ; Align 63215 103 60 ; Align 61925 124 9 ; Align 52057 127 15 ; Align 42176 133 54 ; Align 35930 151 27 ; Align 35902 160 51 ; Align 28642 177 6 ; Align 27696 180 60 ; Align 19830 201 18 # --- END OF GFF DUMP --- # -- completed exonerate analysis