Command line: [exonerate -m p2g --showtargetgff -q selenon_zf.aa.fa.canviat -t genomeselenon_JXSJ01000021.1.fa] Hostname: [ws116071U] C4 Alignment: ------------ Query: SPP00000639_2.0 # Protein # Selenoprotein N (SELENON) # Zebrafish Target: JXSJ01000021.1:subseq(1465313,104006) Miichthys miiuy scaffold21, whole genome shotgun sequence Model: protein2genome:local Raw score: 2044 Query range: 63 -> 555 Target range: 50029 -> 54006 64 : GluAlaGlyLeuLysAlaLeuGlyAlaAspGlyLeuPhePhePheSerSerLeuAspThr : 83 |||! !.!!:!!::!.!!|||||||||!!:|||||||||...|||||||||||||||||| GluGluSerIleArgThrLeuGlyAlaGluGlyLeuPheLeuPheSerSerLeuAspThr 50030 : GAGGAGAGTATCCGAACTCTGGGTGCAGAGGggctttttctcttctcctccttggATACC : 50087 84 : AspHisAspLeuTyrLeuSerProGluGluPheLysProIleAlaGluLysLeuThr{G} : 103 ||||||||| !|||||||||||||||||||||||||||||||||||||||||||||{|} AspHisAspAsnTyrLeuSerProGluGluPheLysProIleAlaGluLysLeuThr{G} 50088 : GACCACGACAATTATCTCAGTCCGGAGGAGTTTAAACCCATTGCAGAGAAACTCACA{G} : 50147 104 : >>>> Target Intron 1 >>>> {ly}ValAlaProProProGluTyrGluGlu : 112 90 bp {||}:!!.!!|||||| !!!:!:!|||||| ++ ++{ly}IleThrProProValAspPheGluGlu 50148 : gt.........................ag{GA}ATTACACCCCCGGTGGACTTTGAGGAG : 50264 113 : GluIleProHisAspProAsnGlyGluThrLeuThrLeuHisAlaLysMetGlnProLeu : 132 |||:!: !!||||||||||||||||||||||||||||||.!.|||||||||||||||||| GluValThrHisAspProAsnGlyGluThrLeuThrLeuGluAlaLysMetGlnProLeu 50265 : GAAGTGACCCATGATCCCAATGGAGAGACTTTAACCTTGGAGGCCAAAATGCAGCCGCTG : 50324 133 : LeuLeuGluSerMetThrLysSerLysAspGlyPheLeuGly >>>> Target Intr : 147 ||||||!!:||||||||||||||||||||||||||||||||| 346 bp LeuLeuAspSerMetThrLysSerLysAspGlyPheLeuGly++ 50325 : CTGCTGGACTCCATGACAAAGAGCAAGGATGGTTTCCTTGGGgt................ : 50371 148 : on 2 >>>> ValSerHisSerSerLeuSerGlyLeuArgSerTrpLysArgProAlaI : 163 |||||||||||||||||||||||||||||||||||||||!!!||||||: ++ValSerHisSerSerLeuSerGlyLeuArgSerTrpLysSerProAlaV 50372 : .........agGTGTCTCACAGCTCTCTGAGTGGTCTGCGCTCCTGGAAGAGCCCAGCAG : 50763 164 : leSerSerSerThrPheTyrAlaSerGlnPheLysValPheLeuProProSerGlyLysS : 183 !: !!||||||:!!|||! !||||||||||||!:!!.!||||||||||||!.!..!||| alProSerSerSerPheSerAlaSerGlnPheArgAlaPheLeuProProLysAsnLysV 50764 : TGCCTTCATCTTCCTTCTCCGCCAGCCAGTTCAGGGCGTTCCTGCCCCCAAAGAACAAGG : 50823 184 : erAlaValGlyAspThrTrpTrpIleIleProSerGluLeuAsnIlePheThrGlyTyrL : 203 !! !||||||||||||||||||:!:|||||||||||||||||||||||||||||||||| alAspValGlyAspThrTrpTrpValIleProSerGluLeuAsnIlePheThrGlyTyrL 50824 : TCGATGTGGGAGACACGTGGTGGGTGATTCCCAGCGAGCTCAACATCTTCACCGGGTACC : 50883 204 : euProAsnAsnArgPheHisProProThrProArgGly<->LysGlu >>>> Target : 218 ||||||||||||||!:!|||||||||:!!|||!:!||| |||||| 9 euProAsnAsnArgTyrHisProProSerProLysGlyAsnLysGlu++ 50884 : TGCCCAACAATCGGTACCACCCGCCGTCACCAAAGGGCAACAAAGAGgt........... : 50933 219 : Intron 3 >>>> ValLeuIleHisSerLeuLeuSerMetPheHisProArgProPh : 232 0 bp |||||||||||||||||||||!:!|||||||||||||||||||| ++ValLeuIleHisSerLeuLeuAsnMetPheHisProArgProPh 50934 : ..............agGTTCTCATCCACTCCTTGTTGAATATGTTCCACCCTCGGCCCTT : 51063 233 : eValLysSerArgPheAlaProGlnGlyAlaValAlaCysIleArgAlaThrSerAspPh : 252 |:!!||||||||||||||||||||||||.!!||||||||||||||||||!:!!:!||||| eIleLysSerArgPheAlaProGlnGlyThrValAlaCysIleArgAlaSerAsnAspPh 51064 : CATCAAATCACGTTTTGCTCCTCAGGGCACAGTCGCCTGCATTCGTGCCAGCAACGACTT : 51123 253 : eTyrTyrAspIleValPhe{Ar} >>>> Target Intron 4 >>>> {g}IleHi : 261 |||||||||||||||||||{||} 649 bp {|}||||| eTyrTyrAspIleValPhe{Ar}++ ++{g}IleHi 51124 : TTATTATGACATCGTCTTC{AG}gt.........................ag{G}ATTCA : 51799 262 : sAlaGluPheGlnLeuAsnAspValProAspPheProPheTrpPheThrProGlyGlnPh : 281 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| sAlaGluPheGlnLeuAsnAspValProAspPheProPheTrpPheThrProGlyGlnPh 51800 : CGCAGAATTCCAGCTCAACGATGTTCCAGACTTTCCCTTCTGGTTCACCCCGGGCCAGTT : 51859 282 : eAlaGlyHisIleIleLeuSerLysAspAlaSerHisValArgAspPheHisIleTyrVa : 301 |.!!|||:!!||||||||||||||||||||||||||||||||| !!|||!!.:!!||||| eThrGlyAsnIleIleLeuSerLysAspAlaSerHisValArgHisPheGlnLeuTyrVa 51860 : CACTGGCAACATCATTCTGTCTAAAGATGCATCTCATGTCCGACATTTCCAACTCTACGT : 51919 302 : lProAsnAsp{Ly} >>>> Target Intron 5 >>>> {s}ThrLeuAsnValAs : 310 ||||||||||{!:} 80 bp {!}:!!||||||||||| lProAsnAsp{Ar}++ ++{g}SerLeuAsnValAs 51920 : CCCCAATGAC{AG}gt.........................ag{G}TCTCTGAATGTGGA : 52026 311 : pMetGluTrpLeuTyrGlyAlaSerGluThrSerAsnMetGluValAspIleGlyTyrLe : 330 ||||||||||||||||||||||||||||!:!||||||||||||||||||||||||||||| pMetGluTrpLeuTyrGlyAlaSerGluSerSerAsnMetGluValAspIleGlyTyrLe 52027 : CATGGAGTGGCTGTACGGGGCCAGTGAGAGCAGCAACATGGAGGTGGACATTGGTTACCT : 52086 331 : uProGln >>>> Target Intron 6 >>>> MetGluLeuGlyAlaGluGlyPro : 340 ||||||| 185 bp :!:|||||| !:!! !|||||| uProGln++ ++LeuGluLeuGlnSerThrGlyPro 52087 : GCCACAGgt.........................agTTAGAGCTGCAGTCCACAGGCCCA : 52301 341 : SerThrProSerValIleTyrAspGluGlnGlyAsnMetIleAspSerArgGlyGluGly : 360 |||||||||||||||||| ||||||:!!||||||!!:||||||||||||! !! .!! SerThrProSerValIleMetAspGluGluGlyAsnIleIleAspSerArgAspGlySer 52302 : TCCACTCCCTCCGTCATCATGGATGAGGAGGGCAACATCATCGACAGCCGAGACGGCAGC : 52361 361 : GlyGluProIleGlnPheValPheGluGluIleValTrpSerGluGluLeuLysArgGlu : 380 !!||||||||||||||||||||||||!!:||| !|||!!!..!||||||!..!:!:!! ArgGluProIleGlnPheValPheGluAspIleHisTrpThrSerGluLeuSerGlnGln 52362 : CGTGAGCCGATCCAGTTCGTCTTTGAGGACATCCACTGGACCTCAGAGCTCAGTCAGCAA : 52421 381 : GluAlaSerArgArgLeuGluValThrMetTyrProPheLysLys >>>> Target I : 396 ||||||!!!|||||||||!!:||||||.!.||||||||||||!:! 81 GluAlaThrArgArgLeuAspValThrPheTyrProPheLysArg++ 52422 : GAAGCCACTCGCCGGCTGGATGTCACTTTCTACCCCTTCAAGAGGgt............. : 52471 397 : ntron 7 >>>> ValProTyrLeuProPheSerGluAlaPheSerArgAlaSerAlaG : 411 bp ||| !!||||||||||||||||||||||||..!||||||..!|||| ++ValSerTyrLeuProPheSerGluAlaPheGluArgAlaGluAlaG 52472 : ............agGTGTCCTACCTGCCTTTTTCAGAGGCCTTTGAACGAGCCGAAGCAG : 52595 412 : luLysLysLeuValHisSerIleLeuLeuTrpGlyAlaLeuAspAspGlnSerCysUnk{ : 431 ||!!.||||||||||||||||||||||||||||||||||||||||||||||||||| { luAsnLysLeuValHisSerIleLeuLeuTrpGlyAlaLeuAspAspGlnSerCys***{ 52596 : AAAATAAACTGGTGCATTCCATTCTGCTTTGGGGAGCATTAGACGACCAGTCCTGCTGA{ : 52655 432 : G} >>>> Target Intron 8 >>>> {ly}SerGlyArgThrLeuArgGluThrV : 440 |} 611 bp {||}||||||||||||||||||||||||| G}++ ++{ly}SerGlyArgThrLeuArgGluThrV 52656 : G}gt.........................ag{GT}TCGGGGCGAACTCTCCGGGAGACAG : 53293 441 : alLeuGluSerSerProValLeuAlaLeuLeuAsnGlnSerPheIleSerSerTrpSerL : 460 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| alLeuGluSerSerProValLeuAlaLeuLeuAsnGlnSerPheIleSerSerTrpSerL 53294 : TCCTGGAAAGTTCGCCCGTCCTAGCTCTGCTCAACCAGAGCTTCATAAGCAGCTGGTCTC : 53353 461 : euValLysGluLeuGluAspLeuGln >>>> Target Intron 9 >>>> GlyAs : 470 |||||||||||||||||:!!:!!||| 92 bp !.!|| euValLysGluLeuGluAsnMetGln++ ++AlaAs 53354 : TGGTCAAAGAGCTGGAGAACATGCAGgt.........................agGCTGA : 53475 471 : pValLysAsnLeuGluLeuSerGluLysAlaArgLeuHisLeuGluLysTyrThrPhePr : 490 |! !:!!|||! !|||||||||||||||||||||||||||||||||!..|||!.!||||| pGluGlnAsnArgGluLeuSerGluLysAlaArgLeuHisLeuGluSerTyrAsnPhePr 53476 : TGAGCAGAACCGCGAGCTGAGCGAAAAGGCTCGATTACACCTGGAGAGTTACAACTTCCC : 53535 491 : oValGlnMetMetValValLeuProAsnGlyThrVal >>>> Target Intron 10 : 503 ||||:!!|||||||||!.!|||||||||||||||::: 274 bp oValGluMetMetValAlaLeuProAsnGlyThrIle++ 53536 : TGTGGAGATGATGGTGGCCCTGCCTAATGGAactattgt..................... : 53576 504 : >>>> ValHisHisIleAsnAlaAsnAsnPheLeuAspGlnThrSerMetLysProGl : 520 ||||||||||||||||||||| !!||||||||||||||||||||||||||||| ++ValHisHisIleAsnAlaAsnTyrPheLeuAspGlnThrSerMetLysProGl 53577 : .....agGTCCACCACATCAATGCCAACTATTTCCTGGACCAAACGTCCATGAAaccaga : 53899 521 : uAspGluGlyProGlyLeuSerPheSerAlaGlyPheGluAspProSerThrSerThrTy : 540 |:::|||||| !!!!|||||||||::!||||||||||||||||||||||||||||| uGluGluGlyAlaThrPheSerPheSerSerGlyPheGluAspProSerThrSerThrTy 53900 : ggaggaaggagcaaCTTTCAGCTTCTCCAGTGGCTTTGAGGACCCCTCCACATCCACTTA : 53959 541 : rIleArgPheLeuGlnGluGlyLeuGluLysAlaLysProTyrLeu : 555 ||||!!!||||||:!!||||||||||||||||||||| !|||||| rIleSerPheLeuLysGluGlyLeuGluLysAlaLysGluTyrLeu 53960 : TATCAGCTTCCTGAAGGAAGGGTTGGAAAAAGCCAAGGAGTATCTG : 54006 vulgar: SPP00000639_2.0 63 555 . JXSJ01000021.1:subseq(1465313,104006) 50029 54006 + 2044 M 39 117 S 0 1 5 0 2 I 0 86 3 0 2 S 1 2 M 43 129 5 0 2 I 0 342 3 0 2 M 69 207 G 0 3 M 2 6 5 0 2 I 0 86 3 0 2 M 41 123 S 0 2 5 0 2 I 0 645 3 0 2 S 1 1 M 45 135 S 0 2 5 0 2 I 0 76 3 0 2 S 1 1 M 27 81 5 0 2 I 0 181 3 0 2 M 63 189 5 0 2 I 0 77 3 0 2 M 35 105 S 0 1 5 0 2 I 0 607 3 0 2 S 1 2 M 37 111 5 0 2 I 0 88 3 0 2 M 34 102 5 0 2 I 0 270 3 0 2 M 53 159 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-18 ##type DNA # # # seqname source feature start end score strand frame attributes # JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local gene 50030 54006 2044 + . gene_id 1 ; sequence SPP00000639_2.0 ; gene_orientation + JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 50030 50147 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 50030 50147 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 50148 50149 . + . intron_id 1 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 50148 50237 . + . intron_id 1 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 50236 50237 . + . intron_id 0 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 50238 50368 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 50238 50368 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 50369 50370 . + . intron_id 2 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 50369 50714 . + . intron_id 2 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 50713 50714 . + . intron_id 1 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 50715 50930 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 50715 50930 . + . insertions 3 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 50931 50932 . + . intron_id 3 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 50931 51020 . + . intron_id 3 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 51019 51020 . + . intron_id 2 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 51021 51145 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 51021 51145 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 51146 51147 . + . intron_id 4 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 51146 51794 . + . intron_id 4 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 51793 51794 . + . intron_id 3 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 51795 51932 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 51795 51932 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 51933 51934 . + . intron_id 5 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 51933 52012 . + . intron_id 5 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 52011 52012 . + . intron_id 4 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 52013 52094 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 52013 52094 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 52095 52096 . + . intron_id 6 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 52095 52279 . + . intron_id 6 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 52278 52279 . + . intron_id 5 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 52280 52468 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 52280 52468 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 52469 52470 . + . intron_id 7 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 52469 52549 . + . intron_id 7 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 52548 52549 . + . intron_id 6 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 52550 52655 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 52550 52655 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 52656 52657 . + . intron_id 8 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 52656 53266 . + . intron_id 8 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 53265 53266 . + . intron_id 7 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 53267 53379 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 53267 53379 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 53380 53381 . + . intron_id 9 ; splice_site "GT" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 53380 53471 . + . intron_id 9 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 53470 53471 . + . intron_id 8 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 53472 53573 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 53472 53573 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice5 53574 53575 . + . intron_id 10 ; splice_site "gt" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local intron 53574 53847 . + . intron_id 10 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local splice3 53846 53847 . + . intron_id 9 ; splice_site "AG" JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local cds 53848 54006 . + . JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local exon 53848 54006 . + . insertions 0 ; deletions 0 JXSJ01000021.1:subseq(1465313,104006) exonerate:protein2genome:local similarity 50030 54006 2044 + . alignment_id 1 ; Query SPP00000639_2.0 ; Align 50030 64 117 ; Align 50240 104 129 ; Align 50715 147 207 ; Align 50925 216 6 ; Align 51021 218 123 ; Align 51796 260 135 ; Align 52014 306 81 ; Align 52280 333 189 ; Align 52550 396 105 ; Align 53269 432 111 ; Align 53472 469 102 ; Align 53848 503 159 # --- END OF GFF DUMP --- # -- completed exonerate analysis