Command line: [exonerate -m p2g --showtargetgff -q SCLY.fa -t SCLY.subseq] Hostname: [ws101069u] C4 Alignment: ------------ Query: SPP00002941_2.0 # Protein # selenocysteine lyase (SCLY) # Human Target: JSZB01032272.1:subseq(24000,126000) Manis javanica isolate MP_PG03-UM SCAFFOLD42801, whole genome shotgun sequence Model: protein2genome:local Raw score: 1799 Query range: 6 -> 453 Target range: 48473 -> 77511 7 : AlaGlyMetGluAlaAlaValAlaProGlyArgAspAlaProAlaProAlaAlaSerGln : 26 !.!|||||||||||||||! !||| !!.!!|||||||||! !!.!! !||||||.!!! ! ValGlyMetGluAlaAlaGlyAlaThrSerArgAspAlaLeuGlyArgAlaAlaGlyPro 48474 : GTCGGGATGGAAGCGGCTGGGGCGACGAGCAGGGACGCACTGGGGCGCGCGGCAGGTCCG : 48531 27 : ProSerGlyCysGlyLysHisAsnSerProGlu{Ar} >>>> Target Intron 1 : 38 ||||||||| !|||:!!.!.!:! !!||||||{||} 1934 bp ProSerGlyAsnGlyGluGluSerProProGlu{Ar}++ 48532 : CCCAGCGGCAATGGAGAGGAGAGCCCGCCTGAG{AG}gt..................... : 48571 39 : >>>> {g}LysValTyrMetAspTyrAsnAlaThrThrProLeuGluProGluValIle : 55 {|}||||||||||||||||||||||||||||||||||||||||||||||||||| ++{g}LysValTyrMetAspTyrAsnAlaThrThrProLeuGluProGluValIle 48572 : ....ag{G}AAAGTTTATATGGATTATAACGCTACCACCCCTCTGGAGCCAGAAGTTATC : 50552 56 : GlnAlaMetThrLysAlaMetTrpGluAlaTrpGlyAsnProSerSerProTyrSerAla : 75 ||||||||||||:!!||||||||||||||||||||||||||||||||||||||| !||| GlnAlaMetThrGluAlaMetTrpGluAlaTrpGlyAsnProSerSerProTyrLeuAla 50553 : CAGGCCATGACCGAGGCCATGTGGGAAGCTTGGGGAAATCCCAGCAGTCCTTACCTGGCA : 50612 76 : {G} >>>> Target Intron 2 >>>> {ly}ArgLysAlaLysAspIleIleAsn : 84 {|} 5474 bp {||}|||||||||!:!! !:!!|||.!. {G}++ ++{ly}ArgLysAlaArgGlyLeuIleGln 50613 : {G}gt.........................ag{GT}AGGAAGGCCAGGGGTCTCATCCAA : 56113 85 : AlaAlaArgGluSerLeuAlaLysMetIleGlyGlyLysProGlnAspIleIlePheThr : 104 ||||||||||||!:!|||||||||||||||||||||:!!||||||||||||||||||||| AlaAlaArgGluAsnLeuAlaLysMetIleGlyGlyGluProGlnAspIleIlePheThr 56114 : GCAGCTCGGGAAAACCTCGCGAAGATGATCGGTGGGGAACCTCAGGACATAATCTTCACT : 56173 105 : SerGlyGlyThrGlu >>>> Target Intron 3 >>>> SerAsnAsnLeuValI : 115 ||||||||||||||| 3691 bp :!!||||||||||||| SerGlyGlyThrGlu++ ++AlaAsnAsnLeuValI 56174 : TCTGGGGGCACTGAGgt.........................agGCAAATAATTTAGTGA : 59897 116 : leHisSerValValLysHisPheHisAlaAsnGlnThrSerLysGlyHisThrGlyGlyH : 135 ||||||||!.!|||||||||||||||! !!.!!!.:!! !|||||| !!.!!!.!! !! leHisSerAlaValLysHisPheHisGluThrHisSerLeuLysGlyAspAlaAlaGluA 59898 : TCCATTCTGCGGTGAAACATTTCCACGAAACCCACTCCCTGAAGGGAGATGCGGCTGAGC : 59957 136 : isHisSerProValLysGlyAlaLysProHisPheIleThrSerSerValGluHisAspS : 155 .!|||||||||!.! !|||||| !|||||||||||||||!!!!!!||||||||||||| rgHisSerProAlaAlaGlyAlaAlaProHisPheIleThrCysThrValGluHisAspS 59958 : GTCACAGCCCGGCGGCGGGGGCCGCACCTCACTTCATCACCTGCACCGTGGAGCACGACT : 60017 156 : erIleArgLeuProLeuGluHisLeuValGluGluGlnValAla{A} >>>> Target : 170 ||:!!||||||||||||||||||||||||||||||!!.||||||{!} 29 erValArgLeuProLeuGluHisLeuValGluGluHisValAla{G}++ 60018 : CCGTCCGGCTGCCCCTGGAGCACCTGGTGGAAGAACACGTCGCC{G}gt........... : 60065 171 : Intron 4 >>>> {la}ValThrPheValProValSerLysValSerGlyGlnAlaG : 184 08 bp { !}|||||||||||||||||||||||||||!:!|||!:!|||| ++{lu}ValThrPheValProValSerLysValAsnGlyArgAlaG 60066 : ..............ag{AG}GTCACCTTTGTCCCAGTGTCCAAGGTGAATGGGCGGGCGG : 63012 185 : luValAspAspIleLeuAlaAlaValArgProThrThrArgLeuValThrIleMetLeuA : 204 ||!.!!!:||||||||||||||||||||||||:!!||| !!|||||||||:!!||||||| luAlaGluAspIleLeuAlaAlaValArgProSerThrCysLeuValThrValMetLeuA 63013 : AGGCTGAGGACATCCTGGCGGCTGTCCGCCCATCCACGTGCCTCGTGACTGTCATGCTGG : 63072 205 : laAsnAsnGluThrGlyIleValMet >>>> Target Intron 5 >>>> ProVa : 214 |||||||||||||||||:!!:!!||| 204 bp |||:! laAsnAsnGluThrGlyValIleMet++ ++ProIl 63073 : CGAATAATGAGACCGGCGTCATCATGgt.........................agCCCAT : 63306 215 : lProGluIleSerGlnArgIleLysAlaLeuAsnGlnGluArgValAlaAlaGlyLeuPr : 234 ! !!|||||||||||||||||||||||| !|||!:!:!!|||!.!|||:!!|||||||| eAlaGluIleSerGlnArgIleLysAlaGluAsnArgLysArgAlaAlaSerGlyLeuPr 63307 : AGCTGAAATCAGTCAGCGAATTAAAGCCGAGAACCGGAAGCGGGCCGCTTCTGGGCTGCC : 63366 235 : oProIleLeuValHisThrAspAlaAlaGlnAlaLeuGlyLysGlnArgValAspValGl : 254 |! !:!!!!!:!!||||||||||||||||||||||||||||||::!|||||||||||||| oLeuValPheLeuHisThrAspAlaAlaGlnAlaLeuGlyLysArgArgValAspValGl 63367 : TCTCGTTTTCCTGCACACGGACGCTGCGCAGGCGTTGGGGAAAAGGCGTGTGGACGTGGA : 63426 255 : uAspLeuGlyValAspPheLeuThrIleValGlyHisLys >>>> Target Intron : 268 |||||||||||||||||||||||||||||||||||||||| 910 bp uAspLeuGlyValAspPheLeuThrIleValGlyHisLys++ 63427 : GGACCTGGGCGTGGACTTCCTGACAATCGTGGGGCACAAGgt.................. : 63470 269 : 6 >>>> PheTyrGlyProArgIleGlyAlaLeuTyrIleArgGlyLeuGlyGluPhe : 284 ||||||||||||||||||||||||||||||:!!|||||||||||||||.!! ++PheTyrGlyProArgIleGlyAlaLeuTyrValArgGlyLeuGlyGluLeu 63471 : .......agTTCTATGGTCCCAGGATTGGAGCACTCTACGTCCGAGGGCTTGGTGAGCTC : 64426 285 : ThrProLeuTyrProMetLeuPheGlyGlyGlyGlnGluArgAsnPheArgPro{Gl} : 303 ! !|||||||||||||||||||||||||||||||||||||||||||||||||||{||} IleProLeuTyrProMetLeuPheGlyGlyGlyGlnGluArgAsnPheArgPro{Gl}++ 64427 : ATCCCTCTGTACCCTATGCTGTTCGGAGGTGGACAGGAGCGGAATTTCAGGCCA{GG}gt : 64485 304 : >>>> Target Intron 7 >>>> {y}ThrGluAsnThrProMetIleAlaGlyLeu : 313 6284 bp {|}|||||||||||||||||||||||||||||| ++{y}ThrGluAsnThrProMetIleAlaGlyLeu 64486 : .........................ag{G}ACAGAGAACACCCCGATGATTGCCGGCCTT : 70797 314 : GlyLys >>>> Target Intron 8 >>>> AlaAlaGluLeuValThrGlnAsnC : 324 |||||| 2436 bp |||||||||||||||! !:!!|||| GlyLys++ ++AlaAlaGluLeuValMetGluAsnC 70798 : GGGAAGgt.........................agGCCGCTGAGCTGGTGATGGAGAACT : 73266 325 : ysGluAlaTyrGluAlaHisMetArgAspValArgAspTyrLeuGluGluArgLeuGlu : 344 ||||||||||||||||||||||||||! !:!!|||:!!||||||||||||||||||! ! ysGluAlaTyrGluAlaHisMetArgGlyIleArgAsnTyrLeuGluGluArgLeuVal+ 73267 : GTGAGGCCTACGAGGCGCACATGAGGGGCATCCGCAACTACCTGGAGGAGCGGCTGGTGg : 73326 345 : >>>> Target Intron 9 >>>> AlaGluPheGlyGlnLysArgIleHisLeuAs : 354 374 bp ||||||||| .!. !|||||||||||||| + ++AlaGluPhe---AspGlyArgIleHisLeuAs 73327 : t.........................agGCTGAATTT---GATGGAAGAATCCATCTGAA : 73727 355 : nSerGlnPheProGlyThrGlnArgLeuProAsnThrCysAsnPheSerIleArgGlyPr : 374 |||||||||||||||||||:!!|||||||||||||||||||||||||||||||||||||| nSerGlnPheProGlyThrGluArgLeuProAsnThrCysAsnPheSerIleArgGlyPr 73728 : CAGCCAGTTTCCAGGGACAGAGCGGCTGCCCAACACATGCAACTTTTCCATCCGGGGACC : 73787 375 : oArgLeuGln{G} >>>> Target Intron 10 >>>> {ly}HisValValLeuA : 383 |! !|||!:!{|} 1377 bp {||}|||:!!||||||| oLeuLeuArg{G}++ ++{ly}HisLeuValLeuA 73788 : CCTGCTCCGA{G}gt..........................ag{GC}CACTTGGTGCTGG : 75191 384 : laGlnCysArgValLeuMetAlaSerValGlyAlaAlaCysHisSerAspHisGlyAsp{ : 403 |||||||||||..!|||:!!|||||||||||||||||||||||||||||||||||||||{ laGlnCysArgThrLeuLeuAlaSerValGlyAlaAlaCysHisSerAspHisGlyAsp{ 75192 : CACAGTGCAGGACGCTGCTGGCCAGCGTGGGCGCTGCATGCCACTCGGACCATGGAGAC{ : 75251 404 : Gl} >>>> Target Intron 11 >>>> {n}ProSerProValLeuLeuSerTyr : 411 ||} 2108 bp {|}|||||||||||||||||||||! ! Gl}++ ++{n}ProSerProValLeuLeuSerSer 75252 : CA}gt..........................ag{G}CCATCCCCGGTGCTGCTGAGCTCT : 77383 412 : GlyValProPheAspValAlaArgAsnAlaLeuArgLeuSerValGlyArgSerThrThr : 431 |||:!!||||||! !||||||!:!||||||:!!||||||||||||||||||||||||||| GlyIleProPheGlyValAlaGlnAsnAlaIleArgLeuSerValGlyArgSerThrThr 77384 : GGCATCCCCTTTGGCGTGGCGCAGAATGCCATCCGGCTCAGCGTGGGCCGCAGCACCACC : 77443 432 : ArgAlaGluValAspLeuValValGlnAspLeuLysGlnAlaValAlaGlnLeuGluAsp : 451 |||||||||||||||||||||||||||||||||||||||||||||||| !||||||! ! ArgAlaGluValAspLeuValValGlnAspLeuLysGlnAlaValAlaTrpLeuGluGly 77444 : CGGGCCGAGGTGGACCTGGTCGTGCAGGACCTGAAGCAGGCCGTGGCCTGGCTGGAGGGC : 77503 452 : GlnAla : 453 |||||| GlnAla 77504 : CAGGCC : 77511 vulgar: SPP00002941_2.0 6 453 . JSZB01032272.1:subseq(24000,126000) 48473 77511 + 1799 M 31 93 S 0 2 5 0 2 I 0 1930 3 0 2 S 1 1 M 37 111 S 0 1 5 0 2 I 0 5470 3 0 2 S 1 2 M 33 99 5 0 2 I 0 3687 3 0 2 M 60 180 S 0 1 5 0 2 I 0 2904 3 0 2 S 1 2 M 42 126 5 0 2 I 0 200 3 0 2 M 55 165 5 0 2 I 0 906 3 0 2 M 35 105 S 0 2 5 0 2 I 0 6280 3 0 2 S 1 1 M 12 36 5 0 2 I 0 2432 3 0 2 M 28 84 5 0 2 I 0 370 3 0 2 M 3 9 G 1 0 M 30 90 S 0 1 5 0 2 I 0 1373 3 0 2 S 1 2 M 24 72 S 0 2 5 0 2 I 0 2104 3 0 2 S 1 1 M 50 150 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-11 ##type DNA # # # seqname source feature start end score strand frame attributes # JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local gene 48474 77511 1799 + . gene_id 1 ; sequence SPP00002941_2.0 ; gene_orientation + JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 48474 48568 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 48474 48568 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 48569 48570 . + . intron_id 1 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 48569 50502 . + . intron_id 1 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 50501 50502 . + . intron_id 0 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 50503 50615 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 50503 50615 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 50616 50617 . + . intron_id 2 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 50616 56089 . + . intron_id 2 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 56088 56089 . + . intron_id 1 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 56090 56190 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 56090 56190 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 56191 56192 . + . intron_id 3 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 56191 59881 . + . intron_id 3 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 59880 59881 . + . intron_id 2 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 59882 60062 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 59882 60062 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 60063 60064 . + . intron_id 4 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 60063 62970 . + . intron_id 4 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 62969 62970 . + . intron_id 3 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 62971 63098 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 62971 63098 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 63099 63100 . + . intron_id 5 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 63099 63302 . + . intron_id 5 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 63301 63302 . + . intron_id 4 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 63303 63467 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 63303 63467 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 63468 63469 . + . intron_id 6 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 63468 64377 . + . intron_id 6 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 64376 64377 . + . intron_id 5 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 64378 64484 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 64378 64484 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 64485 64486 . + . intron_id 7 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 64485 70768 . + . intron_id 7 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 70767 70768 . + . intron_id 6 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 70769 70805 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 70769 70805 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 70806 70807 . + . intron_id 8 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 70806 73241 . + . intron_id 8 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 73240 73241 . + . intron_id 7 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 73242 73325 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 73242 73325 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 73326 73327 . + . intron_id 9 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 73326 73699 . + . intron_id 9 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 73698 73699 . + . intron_id 8 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 73700 73799 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 73700 73799 . + . insertions 0 ; deletions 1 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 73800 73801 . + . intron_id 10 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 73800 75176 . + . intron_id 10 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 75175 75176 . + . intron_id 9 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 75177 75252 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 75177 75252 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice5 75253 75254 . + . intron_id 11 ; splice_site "GT" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local intron 75253 77360 . + . intron_id 11 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local splice3 77359 77360 . + . intron_id 10 ; splice_site "AG" JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local cds 77361 77511 . + . JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local exon 77361 77511 . + . insertions 0 ; deletions 0 JSZB01032272.1:subseq(24000,126000) exonerate:protein2genome:local similarity 48474 77511 1799 + . alignment_id 1 ; Query SPP00002941_2.0 ; Align 48474 7 93 ; Align 50504 39 111 ; Align 56092 77 99 ; Align 59882 110 180 ; Align 62973 171 126 ; Align 63303 213 165 ; Align 64378 268 105 ; Align 70770 304 36 ; Align 73242 316 84 ; Align 73700 344 9 ; Align 73709 348 90 ; Align 75179 379 72 ; Align 77362 404 150 # --- END OF GFF DUMP --- # -- completed exonerate analysis