Command line: [exonerate -m p2g --showtargetgff -q SELENOO.fa.txt -t SELENOO.subseq.txt] Hostname: [ws116044u] C4 Alignment: ------------ Query: SPP00000081_2.0 # Protein # Selenoprotein O (SELENOO) # Human Target: JSZB01004690.1:subseq(40000,113000) Manis javanica isolate MP_PG03-UM SCAFFOLD5341, whole genome shotgun sequence Model: protein2genome:local Raw score: 1994 Query range: 183 -> 669 Target range: 59172 -> 66964 184 : SerArgGlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSer : 203 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| SerArgGlnAlaAspGlyArgLysValLeuArgSerSerIleArgGluPheLeuCysSer 59173 : TCCAGACAGGCCGATGGTCGCAAAGTCCTGCGGTCAAGTATCCGGGAGTTCCTGTGCAGC : 59230 204 : GluAlaMetPheHisLeuGlyValProThrThrArgAlaGlyAlaCysValThrSerGlu : 223 |||||||||||||||||||||:!!|||||||||||||||||||||||||||||||||:!! GluAlaMetPheHisLeuGlyIleProThrThrArgAlaGlyAlaCysValThrSerGln 59231 : GAAGCCATGTTCCACTTGGGGATCCCCACCACACGGGCCGGGGCCTGCGTCACATCCCAG : 59290 224 : SerThrValValArgAspValPheTyrAspGlyAsnProLysTyrGluGlnCysThrVal : 243 |||||||||:!!||||||:!!|||||||||||||||||||||||||||! !||||||||| SerThrValMetArgAspMetPheTyrAspGlyAsnProLysTyrGluProCysThrVal 59291 : TCCACCGTCATGCGCGACATGTTCTATGATGGTAATCCAAAATACGAACCATGCACGGTT : 59350 244 : ValLeuArgValAlaSerThrPheIle{Ar} >>>> Target Intron 1 >>>> : 253 |||||||||:!!||||||||||||:!!{||} 1328 bp ValLeuArgIleAlaSerThrPheLeu{Ar}++ ++ 59351 : GTGTTGCGTATAGCTTCCACTTTCCTA{AG}gt.........................ag : 60708 254 : {g}PheGlySerPheGluIlePheLysSerAlaAspGluHisThrGlyArgAlaGlyPro : 272 {|}|||||||||||||||||||||||| !!|||||||||||||||||||||:!!|||||| {g}PheGlySerPheGluIlePheLysProAlaAspGluHisThrGlyArgSerGlyPro 60709 : {G}TTTGGGTCCTTTGAGATTTTTAAGCCTGCAGACGAGCACACAGGGCGCTCCGGCCCC : 60765 273 : SerValGlyArgAsnAspIleArgValGlnLeuLeuAspTyrValIleSerSerPheTyr : 292 ||||||||||||||||||||||||||||||:!!|||||||||||||||.!!!!!|||||| SerValGlyArgAsnAspIleArgValGlnIleLeuAspTyrValIleGlyThrPheTyr 60766 : AGTGTGGGGAGAAACGACATTCGAGTGCAGATACTGGACTATGTGATTGGCACCTTTTAC : 60825 293 : ProGluIleGlnAlaAlaHisAlaSerAspSerValGlnArgAsnAlaAlaPhePheArg : 312 |||||||||||||||||||||!.!.!! !!|||||||||||||||||||||||||||||| ProGluIleGlnAlaAlaHisGlyGlyHisSerValGlnArgAsnAlaAlaPhePheArg 60826 : CCGGAAATCCAGGCTGCTCACGGCGGCCACAGCGTGCAGAGGAATGCCGCCTTCTTTCGG : 60885 313 : Glu >>>> Target Intron 2 >>>> ValThrArgArgThrAlaArgMetValA : 323 ||| 1252 bp |||||||||||||||||||||||||||| Glu++ ++ValThrArgArgThrAlaArgMetValA 60886 : GAGgt.........................agGTGACGCGCCGCACGGCCCGGATGGTGG : 62170 324 : laGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnThrAspAsnMetSerIleL : 343 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||: laGluTrpGlnCysValGlyPheCysHisGlyValLeuAsnThrAspAsnMetSerIleV 62171 : CTGAGTGGCAGTGTGTTGGCTTCTGCCACGGCGTGCTCAACACGGACAACATGAGCATCG : 62230 344 : euGlyLeuThrIleAspTyrGlyProPheGlyPheLeuAsp{Ar} >>>> Target I : 357 !!|||||||||||||||||||||||||||||||||:!!|||{||} 399 alGlyLeuThrIleAspTyrGlyProPheGlyPheMetAsp{Ar}++ 62231 : TGGGGCTCACCATTGACTACGGGCCCTTCGGCTTCATGGAC{AG}gt............. : 62276 358 : ntron 3 >>>> {g}TyrAspProAspHisValCysAsnAlaSerAspAsnThrGlyA : 372 bp {|}||||||||||||||||||||||||||||||||||||||||||| ++{g}TyrAspProAspHisValCysAsnAlaSerAspAsnThrGlyA 62277 : ............ag{G}TACGACCCCGACCACGTGTGCAATGCATCTGACAACACTGGGC : 62716 373 : rgTyrAlaTyrSerLysGlnProGluValCysArgTrpAsnLeuArgLysLeuAlaGluA : 392 |||||:!!||||||||||||||||||||||||!:!|||||||||!:!||||||||||||| rgTyrSerTyrSerLysGlnProGluValCysLysTrpAsnLeuGlnLysLeuAlaGluA 62717 : GCTACTCGTACAGCAAGCAGCCTGAGGTGTGCAAATGGAACCTGCAGAAGCTGGCCGAGG : 62776 393 : laLeuGlnProGluLeuProLeuGluLeuGlyGluAlaIleLeuAlaGluGluPheAspA : 412 |||||:!!||||||||||||! !|||||||||:!!||||||||||||||||||||||||. laLeuGluProGluLeuProHisGluLeuGlyLysAlaIleLeuAlaGluGluPheAspT 62777 : CCCTAGAGCCCGAGCTGCCCCACGAGCTGGGCAAAGCCATCCTGGCCGAGGAGTTTGACA : 62836 413 : laGluPheGlnArgHisTyrLeuGlnLysMetArgArgLysLeuGlyLeuValGlnValG : 432 !! !|||!::||||||||||||||||||||||||||||||||||||||||||!:!!.!| hrThrPheArgArgHisTyrLeuGlnLysMetArgArgLysLeuGlyLeuValArgAlaG 62837 : CCACGTTCCGTAGGCACTACCTGCAGAAGATGCGCCGGAAGCTGGGCCTCGTGCGGGCCG : 62896 433 : luLeuGluGluAspGlyAlaLeuValSerLysLeuLeuGluThrMetHisLeuThr{G} : 451 ||! !|||||||||||||||||||||:!!|||||||||||||||||||||||||||{|} luArgGluGluAspGlyAlaLeuValAlaLysLeuLeuGluThrMetHisLeuThr{G}+ 62897 : AGCGGGAGGAGGATGGGGCCCTGGTGGCCAAGCTCCTGGAGACCATGCACCTGACC{G}g : 62954 452 : >>>> Target Intron 4 >>>> {ly}AlaAspPheThrAsnThrPheTyrLeuL : 461 2283 bp {||}|||||||||||||||||||||! !|||| + ++{ly}AlaAspPheThrAsnThrPheSerLeuL 62955 : t.........................ag{GC}GCTGACTTCACCAACACCTTCTCCCTGC : 65266 462 : euSerSerPheProValGluLeuGluSerProGlyLeuAlaGluPheLeuAlaArgLeuM : 481 ||||||||||||||!.!! !! !:!!|||! !||||||! !|||||||||.!! !|||! euSerSerPheProAlaGlyProGlnSerLeuGlyLeuAspGluPheLeuThrAlaLeuT 65267 : TGAGCTCCTTCCCAGCCGGGCCACAGTCTCTGGGCCTGGACGAGTTCCTGACCGCGCTGA : 65326 482 : etGluGlnCysAlaSerLeuGluGluLeuArgLeuAlaPheArgProGlnMetAspPro{ : 501 ! !||||||||||||||||||||||||||||||||||||||||||||||||||||||{ hrAlaGlnCysAlaSerLeuGluGluLeuArgLeuAlaPheArgProGlnMetAspPro{ 65327 : CCGCACAGTGTGCCTCCCTGGAAGAGCTGAGGCTGGCCTTCCGGCCCCAGATGGATCCT{ : 65386 502 : Ar} >>>> Target Intron 5 >>>> {g}GlnLeuSerMetMetLeuMetLeuA : 510 ||} 873 bp {|}||||||||||||||||||||||||| Ar}++ ++{g}GlnLeuSerMetMetLeuMetLeuA 65387 : CG}gt.........................ag{G}CAGCTCTCCATGATGCTGATGCTGG : 66286 511 : laGlnSerAsnProGlnLeuPheAlaLeuMetGlyThrArgAlaGlyIleAlaArgGluL : 530 ||||||||||||||||||||.!.||||||!!:||||||||||||..!:!!.!!!:!|||| laGlnSerAsnProGlnLeuLeuAlaLeuIleGlyThrArgAlaAsnLeuThrLysGluL 66287 : CGCAGTCGAACCCGCAGCTCCTGGCACTCATTGGCACCCGGGCCAACCTTACCAAGGAGC : 66346 531 : euGluArgValGluGlnGlnSerArgLeuGluGlnLeuSerAlaAlaGluLeuGlnSerA : 550 ||||||||||||||||||||||||||||||||||||||||| !!! !! !|||! !|||| euGluArgValGluGlnGlnSerArgLeuGluGlnLeuSerProAspAlaLeuLeuSerA 66347 : TGGAGCGTGTGGAGCAGCAGTCGCGACTGGAGCAGCTGAGTCCAGATGCGCTGCTGAGCA : 66406 551 : rgAsnGlnGlyHisTrpAlaAspTrpLeuGlnAlaTyr{Ar} >>>> Target Intr : 563 |||||::!!.!||||||! ! !|||||||||! !|||{||} 103 bp rgAsnArgAlaHisTrpAspLeuTrpLeuGlnGluTyr{Ar}++ 66407 : GGAACAGGGCCCACTGGGACCTCTGGCTCCAGGAGTAC{AG}gt................ : 66449 564 : on 6 >>>> {g}AlaArgLeuAspLysAspLeuGluGlyAlaGlyAspAlaAlaAlaT : 579 {|}|||||||||!!:||||||! !|||! !||||||! ! !||||||| ++{g}AlaArgLeuGluLysAspArgGluAspAlaGlyGlyAspAlaAlaT 66450 : .........ag{A}GCCCGGCTGGAGAAGGACCGAGAAGACGCAGGCGGGGATGCTGCCT : 66596 580 : rpGlnAlaGluHisValArgValMetHisAlaAsnAsnProLysTyrValLeuArgAsnT : 599 ||||||||||||||:!!!!!|||||||||||||||||||||||||||:!!|||||||||| rpGlnAlaGluHisMetSerValMetHisAlaAsnAsnProLysTyrIleLeuArgAsnT 66597 : GGCAGGCCGAGCACATGAGTGTCATGCACGCCAACAACCCCAAGTATATCCTGCGGAACT : 66656 600 : yrIleAlaGlnAsnAlaIleGluAlaAlaGluArgGlyAspPheSerGlu >>>> Tar : 616 ||!!:|||||||||||||||||||||||||||!.!||||||||||||||| yrMetAlaGlnAsnAlaIleGluAlaAlaGluAsnGlyAspPheSerGlu+- 66657 : ACATGGCCCAGAACGCCATTGAGGCTGCCGAGAATGGGGACTTCTCAGAGgc........ : 66709 617 : get Intron 7 >>>> ValArgArgValLeuLysLeuLeuGluThrProTyrHisCy : 629 87 bp |||!:!|||||||||||||||||||||.!!|||||| ! ! ++ValGlnArgValLeuLysLeuLeuGluAlaProTyrAlaAr 66710 : .................agGTACAGCGGGTGCTGAAGCTGCTGGAGGCCCCCTACGCCAG : 66833 630 : sGluAlaGlyAlaAlaThrAspAlaGluAlaThr<-><-><->GluAlaAspGlyAlaAs : 646 !!:!.!! !.!!||| !! !||||||||| ||||||..!||||||! gAspGlyAspThrAlaGlnValLeuGluAlaThrGluLeuGlyGluAlaSerGlyAlaAl 66834 : GGATGGGGACACAGCCCAGGTGCTGGAAGCCACAGAGCTTGGGGAGGCAAGTGGAGCAGC : 66893 647 : pGlyArgGlnArgSerTyrSerSerLysProProLeuTrpAlaAlaGluLeuCysValTh : 666 !||| !!|||!.! !!|||||||||||||||||||||||||||||||||||||||||||| aGlyGlyGlnHisProTyrSerSerLysProProLeuTrpAlaAlaGluLeuCysValTh 66894 : TGGTGGGCAGCACCCCTACAGCAGCAAGCCCCCACTCTGGGCTGCAGAGCTGTGTGTGAC : 66953 667 : rUnkSerSer : 669 | |||||| r***SerSer 66954 : ATGATCCTCG : 66964 vulgar: SPP00000081_2.0 183 669 . JSZB01004690.1:subseq(40000,113000) 59172 66964 + 1994 M 69 207 S 0 2 5 0 2 I 0 1324 3 0 2 S 1 1 M 60 180 5 0 2 I 0 1248 3 0 2 M 43 129 S 0 2 5 0 2 I 0 395 3 0 2 S 1 1 M 93 279 S 0 1 5 0 2 I 0 2279 3 0 2 S 1 2 M 49 147 S 0 2 5 0 2 I 0 869 3 0 2 S 1 1 M 61 183 S 0 2 5 0 2 I 0 99 3 0 2 S 1 1 M 52 156 5 0 2 I 0 83 3 0 2 M 25 75 G 0 9 M 29 87 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-22 ##type DNA # # # seqname source feature start end score strand frame attributes # JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local gene 59173 66964 1994 + . gene_id 1 ; sequence SPP00000081_2.0 ; gene_orientation + JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 59173 59381 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 59173 59381 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 59382 59383 . + . intron_id 1 ; splice_site "GT" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 59382 60709 . + . intron_id 1 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 60708 60709 . + . intron_id 0 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 60710 60890 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 60710 60890 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 60891 60892 . + . intron_id 2 ; splice_site "GT" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 60891 62142 . + . intron_id 2 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 62141 62142 . + . intron_id 1 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 62143 62273 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 62143 62273 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 62274 62275 . + . intron_id 3 ; splice_site "GT" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 62274 62672 . + . intron_id 3 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 62671 62672 . + . intron_id 2 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 62673 62953 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 62673 62953 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 62954 62955 . + . intron_id 4 ; splice_site "GT" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 62954 65236 . + . intron_id 4 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 65235 65236 . + . intron_id 3 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 65237 65387 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 65237 65387 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 65388 65389 . + . intron_id 5 ; splice_site "GT" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 65388 66260 . + . intron_id 5 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 66259 66260 . + . intron_id 4 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 66261 66446 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 66261 66446 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 66447 66448 . + . intron_id 6 ; splice_site "GT" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 66447 66549 . + . intron_id 6 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 66548 66549 . + . intron_id 5 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 66550 66706 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 66550 66706 . + . insertions 0 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice5 66707 66708 . + . intron_id 7 ; splice_site "GC" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local intron 66707 66793 . + . intron_id 7 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local splice3 66792 66793 . + . intron_id 6 ; splice_site "AG" JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local cds 66794 66964 . + . JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local exon 66794 66964 . + . insertions 9 ; deletions 0 JSZB01004690.1:subseq(40000,113000) exonerate:protein2genome:local similarity 59173 66964 1994 + . alignment_id 1 ; Query SPP00000081_2.0 ; Align 59173 184 207 ; Align 60711 254 180 ; Align 62143 314 129 ; Align 62674 358 279 ; Align 65239 452 147 ; Align 66262 502 183 ; Align 66551 564 156 ; Align 66794 616 75 ; Align 66878 641 87 # --- END OF GFF DUMP --- # -- completed exonerate analysis