Command line: [exonerate -m p2g --showtargetgff -q ../SelI-human.fa -t SelI-NIVO01032443.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000015_1.0 # Protein # Selenoprotein I (SelI) # Homo sapiens # Complete Target: NIVO01032443.1:subseq(1395967,37695) Ammotragus lervia isolate NAZ scaffold4835_len3564779_cov73, whole genome shotgun sequence Model: protein2genome:local Raw score: 1933 Query range: 0 -> 397 Target range: 0 -> 37695 1 : MetAlaGlyTyrGluTyrValSerProGluGlnLeuAlaGlyPheAspLysTyrLys > : 20 ||||||.!!|||||||||||||||||||||||||||||||||||||||||||||||| MetAlaSerTyrGluTyrValSerProGluGlnLeuAlaGlyPheAspLysTyrLys++ 1 : ATGGCAAGTTACGAATACGTGAGCCCGGAGCAGCTGGCTGGCTTTGATAAGTACAAGgt. : 60 21 : >>> Target Intron 1 >>>> TyrSerAlaValAspThrAsnProLeuSerLeuT : 31 17424 bp |||||||||||||||||||||||||||||||||| ++TyrSerAlaValAspThrAsnProLeuSerLeuT 61 : ........................agTACAGTGCTGTGGATACCAATCCACTCTCTCTGT : 17515 32 : yrValMetHisProPheTrpAsnThrIleValLys >>>> Target Intron 2 >> : 43 ||||||||||||||||||||||||||:!!|||||| 451 bp yrValMetHisProPheTrpAsnThrValValLys++ 17516 : ATGTCATGCACCCGTTTTGGAACACTGTAGTAAAGgt....................... : 17553 44 : >> ValPheProThrTrpLeuAlaProAsnLeuIleThrPheSerGlyPheLeuLeuVa : 61 |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ++ValPheProThrTrpLeuAlaProAsnLeuIleThrPheSerGlyPheLeuLeuVa 17554 : ..agGTATTTCCTACTTGGCTGGCTCCAAATCTGATAACCTTCTCTGGCTTTCTGCTGGT : 18056 62 : lValPheAsnPheLeuLeuMetAlaTyrPheAspProAspPheTyrAlaSer{A} >>> : 79 |||||||||||||||||||:!!||||||||||||||||||||||||||||||{|} lValPheAsnPheLeuLeuLeuAlaTyrPheAspProAspPheTyrAlaSer{A}++ 18057 : CGTGTTCAATTTTCTACTTTTGGCATACTTTGATCCTGACTTTTATGCTTCA{G}gt... : 18113 80 : > Target Intron 3 >>>> {la}ProGlyHisLysHisValProAspTrpValTr : 90 2244 bp {||}|||||||||||||||||||||||||||||||| ++{la}ProGlyHisLysHisValProAspTrpValTr 18114 : ......................ag{CA}CCAGGTCACAAGCATGTACCCGACTGGGTCTG : 20387 91 : pIleValValGlyIleLeuAsnPheValAlaTyrThrLeu{A} >>>> Target Int : 104 |||||||||||||||||||||||||:!!||||||||||||{|} 4046 b pIleValValGlyIleLeuAsnPheMetAlaTyrThrLeu{A}++ 20388 : GATTGTAGTGGGCATCCTCAACTTCATGGCCTACACTCTA{G}gt............... : 20432 105 : ron 4 >>>> {sp}GlyValAspGlyLysGlnAlaArgArgThrAsnSerSerThrPr : 119 p {||}|||||||||||||||||||||||||||||||||||||||||||| ++{sp}GlyValAspGlyLysGlnAlaArgArgThrAsnSerSerThrPr 20433 : ..........ag{AT}GGTGTGGACGGAAAGCAAGCCCGCAGAACCAATTCCAGCACCCC : 24520 120 : oLeuGlyGluLeuPheAspHisGlyLeuAspSerTrpSerCysValTyrPheValValTh : 139 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| oLeuGlyGluLeuPheAspHisGlyLeuAspSerTrpSerCysValTyrPheValValTh 24521 : GCTGGGGGAGCTTTTTGACCATGGCCTGGATAGTTGGTCATGTGTTTACTTTGTTGTCAC : 24580 140 : rValTyrSerIlePheGlyArgGlySerThrGlyValSerValPheValLeuTyrLeuLe : 159 ||||||||||||||||||||||||||||:!!||||||||||||||||||||||||||||| rValTyrSerIlePheGlyArgGlySerSerGlyValSerValPheValLeuTyrLeuLe 24581 : CGTGTATTCCATTTTTGGACGAGGATCATCTGGTGTCagtgtttttgttctttatctCCT : 24640 160 : uLeuTrpValValLeuPheSerPheIleLeuSerHisTrpGluLysTyrAsnThrGlyIl : 179 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| uLeuTrpValValLeuPheSerPheIleLeuSerHisTrpGluLysTyrAsnThrGlyIl 24641 : GCTATgggtagttttgttttctttcatcctgTCTCATTGGGAAAAGTATAACACAGGAAT : 24700 180 : eLeuPheLeuProTrpGlyTyrAspIleSerGlnVal >>>> Target Intron 5 : 192 ||||||||||||||||||||||||||||||||||||| 902 bp eLeuPheLeuProTrpGlyTyrAspIleSerGlnVal++ 24701 : TCTTTTCCTGCCATGGGGATATGACATTAGCCAGGTGgt..................... : 24741 193 : >>>> ThrIleSerPheValTyrIleValThrAlaValValGlyValGluAlaTrpTyr : 209 |||||||||||||||||||||||||||||||||||||||||||||||||||||| ++ThrIleSerPheValTyrIleValThrAlaValValGlyValGluAlaTrpTyr 24742 : ....agACTATTTCTTTTGTCTACATAGTGACTGCAGTTGTGGGAGTTGAGGCCTGGTAT : 25692 210 : GluProPheLeuPheAsnPheLeuTyrArgAspLeuPheThrAlaMetIleIle{G} > : 228 ||||||||||||||||||||||||||||||||||||||||||||||||||||||{|} GluProPheLeuPheAsnPheLeuTyrArgAspLeuPheThrAlaMetIleIle{G}++ 25693 : GAACCTTTCCTGTTTAATTTCTTATATAGAGACCTATTCACTGCAATGATCATT{G}gt. : 25752 229 : >>> Target Intron 6 >>>> {ly}CysAlaLeuCysValThrLeuProMetSer : 238 6203 bp {||}|||||||||||||||||||||||||||||| ++{ly}CysAlaLeuCysValThrLeuProMetSer 25753 : ........................ag{GT}TGTGCACTGTGTGTGACTCTTCCAATGAGT : 31982 239 : LeuLeuAsnPhePhe{Ar} >>>> Target Intron 7 >>>> {g}SerTyrLys : 247 |||||||||||||||{||} 1999 bp {|}||||||||| LeuLeuAsnPhePhe{Ar}++ ++{g}SerTyrLys 31983 : TTGTTAAATTTTTTC{ag}gt.........................ag{a}agctataaa : 34008 248 : AsnAsnThrLeuLysLeuAsnSerValTyrGluAlaMetValProLeuPheSerProCys : 267 |||||||||||||||! !||||||||||||||||||:!!||||||!!!|||||||||||| AsnAsnThrLeuLysHisAsnSerValTyrGluAlaValValProPhePheSerProCys 34009 : aataaCACGTTGAAACACAATTCAGTCTATGAAGCTGTGGTTCCCTTCTTTTCTCCATGT : 34068 268 : LeuLeuPheIleLeuSerThrAlaTrpIleLeuTrpSerProSerAspIleLeuGluLeu : 287 ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| LeuLeuPheIleLeuSerThrAlaTrpIleLeuLeuSerProSerAspIleLeuGluLeu 34069 : TTGCTATTCATTTTGTCTACAGCATGGATCCTCCTATCACCTTCAGATATTTTAGAGTTA : 34128 288 : HisProArgValPheTyrPheMetValGlyThrAlaPheAlaAsnSerThr >>>> Ta : 305 ||||||||||||||||||!!.|||||||||||||||||||||||||||||| HisProArgValPheTyrLeuMetValGlyThrAlaPheAlaAsnSerThr++ 34129 : CACCCTAGAGTGTTCTACTTAATGGTTGGAACAGCCTTTGCCAACAGCAcagt....... : 34184 306 : rget Intron 8 >>>> CysGlnLeuIleValCysGlnMetSerSerThrArgCysP : 318 1204 bp |||||||||||||||||||||||||||||||||||||||| ++CysGlnLeuIleValCysGlnMetSerSerThrArgCysP 34185 : ..................agTGTCAGCTGATTGTTTGTCAAATGAGCAGTACCCGGTGCC : 35425 319 : roThrLeuAsnTrpLeuLeuValProLeuPheLeuValValLeuValValAsnLeuGlyV : 338 ||||||||||||||||||||:!!||||||||| !:!!|||:!!|||||||||:!!|||| roThrLeuAsnTrpLeuLeuLeuProLeuPheAlaIleValMetValValAsnValGlyV 35426 : CAACTCTGAATTGGTTGCTGCTTCCTCTTTTTGCGATTGTCATGGTGGTGAATGTAGGAG : 35485 339 : alAlaSerTyrValGluSerIleLeuLeuTyrThrLeuThrThrAlaPheThrLeuAlaH : 358 ||.!! !!|||||||||||||||||||||!:!.!!||||||.!!|||||||||||||||| alThrProTyrValGluSerIleLeuLeuPheAlaLeuThrAlaAlaPheThrLeuAlaH 35486 : TAACCCCTTACGTGGAGAGCATTCTCCTGTTTGCGCTGACGGCTGCTTTCACTTTGGCCC : 35545 359 : isIleHisTyrGlyValArgVal >>>> Target Intron 9 >>>> ValLysGl : 368 ||:!!|||||||||||||||||| 2031 bp |||||||| isValHisTyrGlyValArgVal++ ++ValLysGl 35546 : ACGTCCACTATGGGGTACGAGTGgt.........................agGTAAAGCA : 37606 369 : nLeuSerSerHisPheGlnIleTyrProPheSerLeuArgLysProAsnSerAspUnkLe : 388 |||||||!:!||||||!!.|||||||||||||||||||||||||||||||||||| || nLeuSerAsnHisPheHisIleTyrProPheSerLeuArgLysProAsnSerAsp***Le 37607 : GCTGAGCAACCATTTTCACATTTACCCCTTCTCATTGAGAAAACCAAACTCGGATTGACT : 37666 389 : uGlyMetGluGluLysAsnIleGlyLeu : 397 ||||:!!||||||||||||||||||||| uGlyValGluGluLysAsnIleGlyLeu 37667 : AGGAGTGGAAGAAAAGAATATTGGCCTG : 37695 vulgar: SPP00000015_1.0 0 397 . NIVO01032443.1:subseq(1395967,37695) 0 37695 + 1933 M 19 57 5 0 2 I 0 17420 3 0 2 M 23 69 5 0 2 I 0 447 3 0 2 M 36 108 S 0 1 5 0 2 I 0 2240 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 4042 3 0 2 S 1 2 M 87 261 5 0 2 I 0 898 3 0 2 M 36 108 S 0 1 5 0 2 I 0 6199 3 0 2 S 1 2 M 15 45 S 0 2 5 0 2 I 0 1995 3 0 2 S 1 1 M 60 180 5 0 2 I 0 1200 3 0 2 M 61 183 5 0 2 I 0 2027 3 0 2 M 32 96 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-26 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local gene 1 37695 1933 + . gene_id 1 ; sequence SPP00000015_1.0 ; gene_orientation + NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 1 57 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 1 57 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 58 59 . + . intron_id 1 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 58 17481 . + . intron_id 1 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 17480 17481 . + . intron_id 0 ; splice_site "aG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 17482 17550 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 17482 17550 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 17551 17552 . + . intron_id 2 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 17551 18001 . + . intron_id 2 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 18000 18001 . + . intron_id 1 ; splice_site "ag" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 18002 18110 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 18002 18110 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 18111 18112 . + . intron_id 3 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 18111 20354 . + . intron_id 3 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 20353 20354 . + . intron_id 2 ; splice_site "AG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 20355 20429 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 20355 20429 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 20430 20431 . + . intron_id 4 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 20430 24475 . + . intron_id 4 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 24474 24475 . + . intron_id 3 ; splice_site "AG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 24476 24738 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 24476 24738 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 24739 24740 . + . intron_id 5 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 24739 25640 . + . intron_id 5 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 25639 25640 . + . intron_id 4 ; splice_site "AG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 25641 25749 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 25641 25749 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 25750 25751 . + . intron_id 6 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 25750 31952 . + . intron_id 6 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 31951 31952 . + . intron_id 5 ; splice_site "AG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 31953 32001 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 31953 32001 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 32002 32003 . + . intron_id 7 ; splice_site "gt" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 32002 34000 . + . intron_id 7 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 33999 34000 . + . intron_id 6 ; splice_site "ag" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 34001 34181 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 34001 34181 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 34182 34183 . + . intron_id 8 ; splice_site "gt" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 34182 35385 . + . intron_id 8 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 35384 35385 . + . intron_id 7 ; splice_site "AG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 35386 35568 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 35386 35568 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice5 35569 35570 . + . intron_id 9 ; splice_site "GT" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local intron 35569 37599 . + . intron_id 9 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local splice3 37598 37599 . + . intron_id 8 ; splice_site "AG" NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local cds 37600 37695 . + . NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local exon 37600 37695 . + . insertions 0 ; deletions 0 NIVO01032443.1:subseq(1395967,37695) exonerate:protein2genome:local similarity 1 37695 1933 + . alignment_id 1 ; Query SPP00000015_1.0 ; Align 1 1 57 ; Align 17482 20 69 ; Align 18002 43 108 ; Align 20357 80 72 ; Align 24478 105 261 ; Align 25641 192 108 ; Align 31955 229 45 ; Align 34002 245 180 ; Align 35386 305 183 ; Align 37600 366 96 # --- END OF GFF DUMP --- # -- completed exonerate analysis