Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q SEPHS.anole.fa -t SEPHS.extraccio.KQ751895.1.fa] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000064_2.0 # Protein # Selenophosphate synthetase 2 (SEPHS2) # Human Target: KQ751895.1:subseq(15,28678) Gekko japonicus isolate JY-2015 unplaced genomic scaffold scaffold5590, whole genome shotgun sequence Model: protein2genome:local Raw score: 1601 Query range: 33 -> 440 Target range: 4999 -> 18699 34 : AsnTyrArgProPheGluProGlnAlaLeuGlyLeuSerProSerTrpArgLeuThrGly : 53 ..!||||||||||||||||||:!!||||||||||||||||||.!!||||||||||||||| GlyTyrArgProPheGluProGluAlaLeuGlyLeuSerProGlyTrpArgLeuThrGly 5000 : GGCTACAGGCCCTTCGAGCCCGAGGCGCTGGGCCTGAGCCCGGGATGGAGGCTCACCGGC : 5057 54 : PheSerGlyMetLysGlyUnkGlyCysLysValProGlnGluAlaLeuLeuLysLeuLeu : 73 |||.!!! !:!!::!||| |||||||||||||||||||||.!!||||||!:!|||||| PheGlyGluLeuArgGly***GlyCysLysValProGlnGluThrLeuLeuArgLeuLeu 5058 : TTCGGGGAGCTGCGGGGCTGAGGCTGCAAAGTCCCCCAGGAGACGCTGCTCAGGCTCCTG : 5117 74 : AlaGlyLeuThrArgProAspValArgProProLeu{G} >>>> Target Intron : 86 ! !||||||||| !!||| !!.!..! ! ! !{|} 58 bp GluGlyLeuThrGlyProArgAlaGluMetValGly{G}-+ 5118 : GAGGGACTCACCGGGCCCCGCGCGGAGATGGTCGGC{G}at................... : 5159 87 : 1 >>>> {ly}ArgGlyLeuValGly{G} >>>> Target Intron 2 >>>> { : 92 {||}::: ...|||{|} 1164 bp { ++{ly}LysGluGlnAlaGly{G}++ ++{ 5160 : ......ag{ga}aaggaacaggcagga{g}gt.........................ag{ : 6397 93 : ly}GlnGluGluAlaSerGlnGluAlaGlyLeuProAlaGlyAlaGlyProSerProThr : 111 ||}... :::|||! ! !!|||! !! ! ! ! ! |||::: ly}AspProThrSerSerProProHisArgLeuArgAspPheTrpHisValArgProSer 6398 : gt}gacccaacctccAGTCCTCCCCATCGGCTACGTGACTTCTGGCATGtgaggcctagc : 6453 112 : PheProAlaLeu{G} >>>> Target Intron 3 >>>> {ly}IleGlyMetAsp : 120 ||| {.} 1737 bp {!!}|||||||||||| PheGlnHisGly{S}++ ++{er}IleGlyMetAsp 6454 : ttccagcatgga{a}gt.........................ag{GC}ATTGGAATGGAC : 8217 121 : SerCysValIleProLeuArgHisGlyGlyLeuSerLeuValGlnThrThrAspPhePhe : 140 ||||||:!!||||||||||||||||||||||||||||||||||||||||||||||||||| SerCysIleIleProLeuArgHisGlyGlyLeuSerLeuValGlnThrThrAspPhePhe 8218 : TCCTGTATCATCCCTCTGAGGCATGGGGGTCTCTCCCTCGTACAGACCACAGACTTCTTT : 8277 141 : TyrProLeuValGluAspProTyrMetMet >>>> Target Intron 4 >>>> G : 151 |||||||||||||||||||||||||||||| 163 bp | TyrProLeuValGluAspProTyrMetMet++ ++G 8278 : TACCCCCTGGTGGAGGATCCCTATATGATGgt.........................agG : 8473 152 : lyArgIleAlaCysAlaAsnValLeuSerAspLeuTyrAlaMetGlyIleThrGluCysA : 171 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| lyArgIleAlaCysAlaAsnValLeuSerAspLeuTyrAlaMetGlyIleThrGluCysA 8474 : GCCGCATCGCCTGCGCAAACGTGCTGAGCGACCTGTACGCCATGGGCATCACCGAGTGCG : 8533 172 : spAsnMetLeuMetLeuLeuSerValSerGlnSerMetSerGluGlu >>>> Target : 187 ||||||||||||||||||||||||||||||||!.!|||!!!|||||| 18 spAsnMetLeuMetLeuLeuSerValSerGlnLysMetThrGluGlu++ 8534 : ACAATATGCTGATGCTGCTGAGCGTGAGCCAGAAGATGACTGAGGAGgt........... : 8583 188 : Intron 5 >>>> GluArgGluLysValThrProLeuMetValLysGlyPheArgAs : 201 55 bp ||||||!!:|||:!!! !|||||||||:!!|||||||||||||| ++GluArgAspLysIleMetProLeuMetIleLysGlyPheArgAs 8584 : ..............agGAGCGGGACAAAATCATGCCGCTGATGATCAAGGGCTTCCGGGA : 10478 202 : pAlaAlaGluGluGlyGlyThrAlaValThrGlyGlyGlnThrValValAsnProTrpIl : 221 ||||||||||!!:|||||||||:!!|||||||||||||||||||||:!!||||||||||| pAlaAlaGluAspGlyGlyThrSerValThrGlyGlyGlnThrValLeuAsnProTrpIl 10479 : TGCAGCGGAAGATGGCGGCACCTCAGTTACCGGCGGGCAGACAGTCTTGAACCCTTGGAT : 10538 222 : eIleIleGlyGlyValAlaThrValValCysGlnProAsnGluPheIle{Me} >>>> : 238 ||||:!!||||||||||||||||||||||||||||||||||||||||||{:!} eIleValGlyGlyValAlaThrValValCysGlnProAsnGluPheIle{Le}++ 10539 : CATTGTCGGAGGAGTTGCGACCGTGGTGTGTCAACCCAACGAGTTTATC{TT}gt..... : 10593 239 : Target Intron 6 >>>> {t}ProAspSerAlaValValGlyAspValLeuValLe : 250 1698 bp {!}|||!!:||||||||| !||||||||||||||||| ++{u}ProGluSerAlaValProGlyAspValLeuValLe 10594 : ....................ag{G}CCAGAGAGTGCCGTTCCAGGGGATGTCCTTGTCCT : 12323 251 : uThrLysProLeuGlyThrGlnValAlaValAsnAlaHisGlnTrpLeuAspAsn >>> : 269 |||||||||||||||||||||||||||||||!:!||||||||||||||||||||| uThrLysProLeuGlyThrGlnValAlaValSerAlaHisGlnTrpLeuAspAsn++ 12324 : GACCAAGCCTCTGGGAACGCAGGTGGCCGTGAGCGCCCATCAGTGGTTAGACAACgt... : 12382 270 : > Target Intron 7 >>>> ProGluArgTrpAsnLysValLysMetValValSer : 280 1566 bp ||||||||||||||||||:!!|||:!!||||||||| ++ProGluArgTrpAsnLysIleLysLeuValValSer 12383 : ......................agCCGGAGAGGTGGAATAAGATTAAGCTGGTGGTCTCC : 13979 281 : ArgGluGluValGluLeuAlaTyrGlnGluAlaMetPheAsnMetAlaThrLeuAsnArg : 300 !:!|||!!:||||||||||||||||||||||||||||||!:!||||||! !||||||||| LysGluAspValGluLeuAlaTyrGlnGluAlaMetPheSerMetAlaMetLeuAsnArg 13980 : AAAGAAGATGTCGAACTGGCCTACCAGGAAGCCATGTTTAGTATGGCCATGCTGAATAGG : 14039 301 : Thr{A} >>>> Target Intron 8 >>>> {la}AlaGlyLeuMetHisThrPhe : 309 |||{|} 3291 bp {||}|||...||||||||||||||| Thr{A}++ ++{la}AlaSerLeuMetHisThrPhe 14040 : ACA{G}gt.........................ag{ct}gccagtctgatgCACACATTC : 17357 310 : AsnAlaHisAlaAlaThrAspIleThrGlyPheGlyIleLeuGlyHisSerGlnAsnLeu : 329 ||||||||||||||||||||||||||||||||||||||||||||||||:!!||||||||| AsnAlaHisAlaAlaThrAspIleThrGlyPheGlyIleLeuGlyHisAlaGlnAsnLeu 17358 : AATGCTCACGCCGCTACCGACATCACGGGCTTCGGCATCCTGGGCCACGCGCAGAACTTG : 17417 330 : AlaLysGlnGlnArgAsnGluValSerPheValIleHisAsnLeuProIleIleAlaLys : 349 |||||||||||||||!:!|||||||||||||||||||||||||||||||||||||||||| AlaLysGlnGlnArgSerGluValSerPheValIleHisAsnLeuProIleIleAlaLys 17418 : GCCAAGCAGCAACGCAGCGAAGTGTCCTTCGTGATCCACAACCTGCCCATCATTGCAAAG : 17477 350 : MetAlaAlaValSerLysAlaSerGly<->ArgPheGlyLeuLeuGlnGlyThrSerAla : 368 ||||||||||||||||||||||||||| |||! !!|||||||||||||||||| !! MetAlaAlaValSerLysAlaSerGlyThrArgSerArgLeuLeuGlnGlyThrSerPro 17478 : ATGGCGGCCGTCAGCAAAGCCAGCGGCACGCGGTCGAGGCTCCTGCAGGGGACGTCCCCG : 17537 369 : GluThrSer{G} >>>> Target Intron 9 >>>> {ly}GlyLeuLeuIleCys : 377 |||||||||{|} 944 bp {||}||||||||||||||| GluThrSer{G}++ ++{ly}GlyLeuLeuIleCys 17538 : GAGACGTCT{G}gt.........................ag{GG}GGGCTGCTGATCTGT : 18508 378 : LeuProArgGluGlnAlaAlaArgPheCysSerGluIleLysSerSerLysTyrGlyGlu : 397 ||||||||||||||||||||||||||||||:!!|||||||||||| !!|||||||||||| LeuProArgGluGlnAlaAlaArgPheCysAlaGluIleLysSerProLysTyrGlyGlu 18509 : CTTCCCCGGGAGCAGGCCGCCCGCTTCTGCGCCGAGATCAAATCCCCCAAGTACGGCGAG : 18568 398 : GlyHisGlnAlaTrpIleValGlyIleValGluLysGlyAsnArgThrAlaArgIleIle : 417 ||||||||||||||||||:!!|||||||||||||||||||||!:!||||||||||||||| GlyHisGlnAlaTrpIleIleGlyIleValGluLysGlyAsnGlnThrAlaArgIleIle 18569 : GGGCACCAGGCCTGGATCATTGGCATCGTGGAGAAAGGCAACCAGACCGCCCGCATCATC : 18628 418 : AspLysProArgValIleGluValLeuProArgGlyAlaThrAlaAlaValLeuAlaPro : 437 ||||||||||||:!!||||||||| !||||||||||||||||||:!! !! !! ! ! AspLysProArgIleIleGluValThrProArgGlyAlaThrAlaSerProGlnAspAsn 18629 : GACAAGCCCCGCATCATCGAAGTGACCCCCCGGGGGGCTACTGCCTCCCCCCAAGATAAC : 18688 438 : AspSerSer : 440 :!!|||||| AsnSerSer 18689 : AATTCCAGC : 18699 vulgar: SPP00000064_2.0 33 440 . KQ751895.1:subseq(15,28678) 4999 18699 + 1601 M 52 156 S 0 1 5 0 2 I 0 54 3 0 2 S 1 2 M 5 15 S 0 1 5 0 2 I 0 1160 3 0 2 S 1 2 M 23 69 S 0 1 5 0 2 I 0 1733 3 0 2 S 1 2 M 34 102 5 0 2 I 0 159 3 0 2 M 36 108 5 0 2 I 0 1851 3 0 2 M 51 153 S 0 2 5 0 2 I 0 1694 3 0 2 S 1 1 M 30 90 5 0 2 I 0 1562 3 0 2 M 33 99 S 0 1 5 0 2 I 0 3287 3 0 2 S 1 2 M 56 168 G 0 3 M 13 39 S 0 1 5 0 2 I 0 940 3 0 2 S 1 2 M 68 204 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-12-02 ##type DNA # # # seqname source feature start end score strand frame attributes # KQ751895.1:subseq(15,28678) exonerate:protein2genome:local gene 5000 18699 1601 + . gene_id 1 ; sequence SPP00000064_2.0 ; gene_orientation + KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 5000 5156 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 5000 5156 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 5157 5158 . + . intron_id 1 ; splice_site "AT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 5157 5214 . + . intron_id 1 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 5213 5214 . + . intron_id 0 ; splice_site "Ag" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 5215 5232 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 5215 5232 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 5233 5234 . + . intron_id 2 ; splice_site "gt" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 5233 6396 . + . intron_id 2 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 6395 6396 . + . intron_id 1 ; splice_site "ag" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 6397 6468 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 6397 6468 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 6469 6470 . + . intron_id 3 ; splice_site "gt" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 6469 8205 . + . intron_id 3 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 8204 8205 . + . intron_id 2 ; splice_site "AG" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 8206 8309 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 8206 8309 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 8310 8311 . + . intron_id 4 ; splice_site "GT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 8310 8472 . + . intron_id 4 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 8471 8472 . + . intron_id 3 ; splice_site "AG" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 8473 8580 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 8473 8580 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 8581 8582 . + . intron_id 5 ; splice_site "GT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 8581 10435 . + . intron_id 5 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 10434 10435 . + . intron_id 4 ; splice_site "AG" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 10436 10590 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 10436 10590 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 10591 10592 . + . intron_id 6 ; splice_site "GT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 10591 12288 . + . intron_id 6 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 12287 12288 . + . intron_id 5 ; splice_site "AG" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 12289 12379 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 12289 12379 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 12380 12381 . + . intron_id 7 ; splice_site "GT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 12380 13945 . + . intron_id 7 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 13944 13945 . + . intron_id 6 ; splice_site "AG" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 13946 14045 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 13946 14045 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 14046 14047 . + . intron_id 8 ; splice_site "GT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 14046 17336 . + . intron_id 8 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 17335 17336 . + . intron_id 7 ; splice_site "ag" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 17337 17549 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 17337 17549 . + . insertions 3 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice5 17550 17551 . + . intron_id 9 ; splice_site "GT" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local intron 17550 18493 . + . intron_id 9 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local splice3 18492 18493 . + . intron_id 8 ; splice_site "AG" KQ751895.1:subseq(15,28678) exonerate:protein2genome:local cds 18494 18699 . + . KQ751895.1:subseq(15,28678) exonerate:protein2genome:local exon 18494 18699 . + . insertions 0 ; deletions 0 KQ751895.1:subseq(15,28678) exonerate:protein2genome:local similarity 5000 18699 1601 + . alignment_id 1 ; Query SPP00000064_2.0 ; Align 5000 34 156 ; Align 5217 87 15 ; Align 6399 93 69 ; Align 8208 117 102 ; Align 8473 151 108 ; Align 10436 187 153 ; Align 12290 239 90 ; Align 13946 269 99 ; Align 17339 303 168 ; Align 17510 359 39 ; Align 18496 373 204 # --- END OF GFF DUMP --- # -- completed exonerate analysis