Command line: [exonerate -m p2g --showtargetgff -q GPx3.fa -t GPx3.subseq.fa] Hostname: [ws101066u] C4 Alignment: ------------ Query: SPP00000021_2.0 # Protein # Glutathione peroxidase 3 (GPx3) # Human Target: JSZB01000211.1:subseq(190000,80000) Manis javanica isolate MP_PG03-UM SCAFFOLD235, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1073 Query range: 0 -> 226 Target range: 63336 -> 56169 1 : MetAlaArgLeuLeuGlnAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheValSer : 20 |||||||||||||||!:!||||||||||||||||||||||||||||||||||||||| !! MetAlaArgLeuLeuArgAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheValPro 63336 : ATGGCCCGGCTGCTGCGGGcatcctgccttctctccctgcTGCTGGCGGGCTTCGTCCCG : 63279 21 : GlnSerArgGlyGlnGluLysSerLys >>>> Target Intron 1 >>>> MetA : 31 ! !|||||||||||||||||||||||| 4453 bp ! !| ProSerArgGlyGlnGluLysSerLys++ ++ThrA 63278 : CCGAGCCGGGGACAGGAGAAGTCGAAGgt.........................agACGG : 58793 32 : spCysHisGlyGlyIleSerGlyThrIleTyrGluTyrGlyAlaLeuThrIleAspGlyG : 51 ||||||||!.!|||:!!|||||||||||||||!!:||||||||||||||||||||||||: spCysHisAlaGlyValSerGlyThrIleTyrAspTyrGlyAlaLeuThrIleAspGlyG 58792 : ACTGCCATGCTGGTGTAAGTGGCACCATCTACGATTACGGCGCCCTCACCATTGATGGGC : 58733 52 : luGluTyrIleProPheLysGlnTyrAlaGlyLysTyrValLeuPheValAsnValAlaS : 71 !!||||||||||||||||||||||||||||||||||||:!!||||||||||||||||||| lnGluTyrIleProPheLysGlnTyrAlaGlyLysTyrIleLeuPheValAsnValAlaS 58732 : AGGAGTACATCCCCTTTAAGCAGTACGCTGGCAAATACATCCTTTTTGTCAACGTTGCCA : 58673 72 : erTyrUnkGlyLeuThrGlyGlnTyrIle{G} >>>> Target Intron 2 >>>> : 81 ||||| |||||||||||||||||||||{|} 1210 bp erTyr***GlyLeuThrGlyGlnTyrIle{G}++ + 58672 : GCTACTGAGGCTTAACAGGCCAGTACATT{G}gt.........................a : 57434 82 : {lu}LeuAsnAlaLeuGlnGluGluLeuAlaProPheGlyLeuValIleLeuGlyPheP : 100 {||}|||||||||||||||||||||!!!||||||||||||||||||||||||||||||| +{lu}LeuAsnAlaLeuGlnGluGluPheAlaProPheGlyLeuValIleLeuGlyPheP 57433 : g{AA}CTGAATGCACTACAGGAAGAGTTTGCACCATTTGGTCTCGTCATTCTGGGCTTCC : 57376 101 : roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuProThrLeu{ : 120 ||||||||||||||||||||||||||||||||||||||!!!||||||||||||!:!|||{ roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnTrpGluIleLeuProSerLeu{ 57375 : CCTGCAACCAGTTTGGAAAACAGGAACCAGGAGAGAACTGGGAAATCCTGCCGAGCCTC{ : 57316 121 : Ly} >>>> Target Intron 3 >>>> {s}TyrValArgProGlyGlyGlyPheV : 129 ||} 412 bp {|}||||||||||||||||||||||||: Ly}++ ++{s}TyrValArgProGlyGlyGlyPheI 57315 : AA}gt.........................ag{G}TATGTCCGGCCAGGTGGGGGCTTCA : 56877 130 : alProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT : 149 !!|||||||||:!!|||||||||||||||||||||||||||||||||||||||||||||| leProAsnPheLysLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT 56876 : TCCCTAATTTCAAACTCTTTGAGAAAGGAGATGTGAACGGGGAGAAAGAGCAGAAGTTCT : 56817 150 : yrThrPheLeuLys >>>> Target Intron 4 >>>> AsnSerCysProProTh : 159 |||||||||||||| 414 bp ||||||||||||||||| yrThrPheLeuLys++ ++AsnSerCysProProTh 56816 : ATACGTTCCTGAAGgt.........................agAACTCCTGTCCTCCTAC : 56373 160 : rSerGluLeuLeuGlyThrSerAspArgLeuPheTrpGluProMetLysValHisAspIl : 179 ||||||||||||||||:!! !!|||||||||||||||||||||||||||||||||||||| rSerGluLeuLeuGlySerProAspArgLeuPheTrpGluProMetLysValHisAspIl 56372 : CTCGGAACTCCTGGGCTCACCTGACCGCCTCTTCTGGGAACCCATGAAGGTCCACGACAT : 56313 180 : eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyIleProIleMetArgTrpHi : 199 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||:! eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyIleProIleMetArgTrpTy 56312 : CCGCTGGAACTTTGAGAAATTCCTGGTGGGGCCAGATGGCATACCCATCATGCGCTGGTA : 56253 200 : sHisArgThrThrValSerAsnValLysMetAspIleLeuSerTyrMetArgArgGlnAl : 219 !||||||||||||||||||!.!||||||||||||||||||||||||||||||!:!||||| rHisArgThrThrValSerThrValLysMetAspIleLeuSerTyrMetArgGlnGlnAl 56252 : CCACCGGACCACGGTCAGCACTGTCAAGATGGACATCCTTTCCTACATGAGGCAGCAGGC : 56193 220 : aAlaLeuGlyValLysArgLys : 226 |||||||!.!|||:!! !!||| aAlaLeuAlaValGluGlyLys 56192 : AGCCCTGGCGGTCGAGGGGAAG : 56170 vulgar: SPP00000021_2.0 0 226 . JSZB01000211.1:subseq(190000,80000) 63336 56169 - 1073 M 29 87 5 0 2 I 0 4449 3 0 2 M 51 153 S 0 1 5 0 2 I 0 1206 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 408 3 0 2 S 1 1 M 33 99 5 0 2 I 0 410 3 0 2 M 73 219 # --- 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 # JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local gene 56170 63336 1073 - . gene_id 1 ; sequence SPP00000021_2.0 ; gene_orientation + JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local cds 63250 63336 . - . JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local exon 63250 63336 . - . insertions 0 ; deletions 0 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice5 63248 63249 . - . intron_id 1 ; splice_site "GT" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local intron 58797 63249 . - . intron_id 1 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice3 58797 58798 . - . intron_id 0 ; splice_site "AG" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local cds 58643 58796 . - . JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local exon 58643 58796 . - . insertions 0 ; deletions 0 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice5 58641 58642 . - . intron_id 2 ; splice_site "GT" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local intron 57433 58642 . - . intron_id 2 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice3 57433 57434 . - . intron_id 1 ; splice_site "AG" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local cds 57315 57432 . - . JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local exon 57315 57432 . - . insertions 0 ; deletions 0 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice5 57313 57314 . - . intron_id 3 ; splice_site "GT" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local intron 56903 57314 . - . intron_id 3 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice3 56903 56904 . - . intron_id 2 ; splice_site "AG" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local cds 56803 56902 . - . JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local exon 56803 56902 . - . insertions 0 ; deletions 0 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice5 56801 56802 . - . intron_id 4 ; splice_site "GT" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local intron 56389 56802 . - . intron_id 4 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local splice3 56389 56390 . - . intron_id 3 ; splice_site "AG" JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local cds 56170 56388 . - . JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local exon 56170 56388 . - . insertions 0 ; deletions 0 JSZB01000211.1:subseq(190000,80000) exonerate:protein2genome:local similarity 56170 63336 1073 - . alignment_id 1 ; Query SPP00000021_2.0 ; Align 63337 1 87 ; Align 58797 30 153 ; Align 57431 82 114 ; Align 56902 121 99 ; Align 56389 154 219 # --- END OF GFF DUMP --- # -- completed exonerate analysis