Command line: [exonerate -m p2g --showtargetgff -q SELENBP1.fa -t SELENBP1.subseq] Hostname: [ws101069u] C4 Alignment: ------------ Query: SPP00002942_2.0 # Protein # selenium binding protein 1 (SELENBP1) # Human Target: JSZB01014514.1:subseq(35000,105000) Manis javanica isolate MP_PG03-UM SCAFFOLD17458, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 2368 Query range: 26 -> 514 Target range: 56990 -> 51862 27 : AlaPheThrLeuGlnSerValAlaGlnProMetArgProIleAlaSerThrAlaThrLys : 46 |||! !.!!|||||||||:!!!.!||||||! |||||||||!.!||||||||||||||| AlaSerAlaLeuGlnSerMetValGlnProThrArgProIleValSerThrAlaThrLys 56990 : GCTTCCGCCCTCCAGAGCATGGTCCAGCCAACACGTCCCATTGTTTCCACAGCTACGAAA : 56933 47 : CysGlyAsnCysGlyProGlyTyrSerThrProLeuGluAlaMetLys{G} >>>> Ta : 63 ||||||!!.|||||||||||||||:!!|||||||||||||||||||||{|} CysGlyLysCysGlyProGlyTyrAlaThrProLeuGluAlaMetLys{G}++ 56932 : TGTGGAAAGTGTGGACCTGGCTATGCTACCCCTCTGGAGGCCATGAAA{G}gt....... : 56879 64 : rget Intron 1 >>>> {ly}ProArgGluGluIleValTyrLeuProCysIleTyr : 75 204 bp {||}|||||||||||||||||||||||||||||||||||| ++{ly}ProArgGluGluIleValTyrLeuProCysIleTyr 56878 : ..................ag{gc}cccagggaggAGATTGTCTACCTGCCCTGTATCTAC : 56642 76 : ArgAsnThrGlyThrGluAlaProAspTyrLeuAlaThrValAspValAspProLysSer : 95 ||||||||||||! !||||||||||||||||||||||||||||||:!!|||||||||||| ArgAsnThrGlyIleGluAlaProAspTyrLeuAlaThrValAspIleAspProLysSer 56641 : CGGAACACAGGCATTGAGGCTCCAGATTACCTGGCCACTGTGGACATTGACCCCAAGTCT : 56582 96 : ProGlnTyrCysGln >>>> Target Intron 2 >>>> ValIleHisArgLeuP : 106 ||||||||||||||| 209 bp |||||||||||||||| ProGlnTyrCysGln++ ++ValIleHisArgLeuP 56581 : CCCCAGTATTGTCAGgt.........................agGTCATCCACCGGCTGC : 56340 107 : roMetProAsnLeuLysAspGluLeuHisHisSerGlyTrpAsnThrCysSerSerCysP : 126 ||||||||..!||||||||||||||||||||||||||||||||||||||||||||||||| roMetProGlyLeuLysAspGluLeuHisHisSerGlyTrpAsnThrCysSerSerCysP 56339 : CCATGCCTGGCCTGAAGGACGAGCTGCACCACTCGGGCTGGAACACCTGCAGCAGCTGCT : 56280 127 : heGlyAspSerThrLysSerArgThrLysLeuValLeuProSerLeuIleSerSerArgI : 146 |||||||||||||||||||||||!.!|||||||||||||||:!!|||||||||||| !!| heGlyAspSerThrLysSerArgAsnLysLeuValLeuProAlaLeuIleSerSerCysI 56279 : TCGGGGACAGCACCAAGTCGCGCAACAAGTTGGTGCTGCCGGCTCTCATCTCCTCCTGCA : 56220 147 : leTyrValValAspValGlySerGluProArgAlaProLysLeuHisLys >>>> Tar : 163 ||||||||||||||||||||||||||||||||||||||||||||:!!||| leTyrValValAspValGlySerGluProArgAlaProLysLeuTyrLys+- 56219 : TCTATGTGGTAGACGTGGGCTCTGAGCCTCGTGCCCCAAAGCTATACAAGgc........ : 56167 164 : get Intron 3 >>>> ValIleGluProLysAspIleHisAlaLysCysGluLeuAl : 176 680 bp |||:!!||| !!||||||||||||.!!||||||! |||!. ++ValValGluSerLysAspIleHisThrLysCysGlyLeuGl 56166 : .................agGTTGTTGAGTCCAAGGACATCCATACCAAGTGTGGCCTGGG : 55450 177 : aPheLeuHisThrSerHisCysLeuAlaSerGlyGluValMetIleSerSerLeuGlyAs : 196 !!:!|||||||||||||||||||||||||||||||||||||||:!!|||!!!|||||||| yTyrLeuHisThrSerHisCysLeuAlaSerGlyGluValMetValSerThrLeuGlyAs 55449 : CTACCTCCACACCAGCCACTGCCTGGCCAGTGGGGAGGTGATGGTCAGCACCCTGGGAGA : 55390 197 : pValLysGlyAsnGlyLys{G} >>>> Target Intron 4 >>>> {ly}GlyPh : 205 | ! ! ||||||||||||{|} 1165 bp {||}||||| pProAspGlyAsnGlyLys{G}++ ++{ly}GlyPh 55389 : CCCTGACGGCAATGGCAAA{G}gt.........................ag{GG}GGTTT : 54198 206 : eValLeuLeuAspGlyGluThrPheGluValLysGlyThrTrpGluArgProGlyGlyAl : 225 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||:! eValLeuLeuAspGlyGluThrPheGluValLysGlyThrTrpGluArgProGlyGlySe 54197 : CGTGCTGCTGGATGGAGAGACATTCGAGGTGAAGGGGACATGGGAACGGCCTGGGGGTTC : 54138 226 : aAlaProLeuGlyTyrAspPheTrpTyrGlnProArgHisAsnValMetIleSerThrGl : 245 !||||||:!!|||||||||||||||||||||||||||||||||||||||||||||||||| rAlaProMetGlyTyrAspPheTrpTyrGlnProArgHisAsnValMetIleSerThrGl 54137 : TGCACCTATGGGCTATGACTTCTGGTACCAGCCACGACACAATGTCATGATCAGCACCGA : 54078 246 : uTrpAlaAlaProAsnValLeuArgAspGlyPheAsnProAlaAspValGluAla{G} : 264 ||||||||||||||||:!!!!!!:!:!!|||||||||! !|||||||||||||||{|} uTrpAlaAlaProAsnIlePheGlnAsnGlyPheAsnLeuAlaAspValGluAla{G}++ 54077 : ATGGGCGGCTCCCAATATCTTTCAAAATGGCTTCAACCTTGCTGATGTAGAGGCT{G}gt : 54020 265 : >>>> Target Intron 5 >>>> {ly}LeuTyrGlySerHisLeuTyrValTrpAs : 274 268 bp {||}||||||||||||||||||:!!|||||||| ++{ly}LeuTyrGlySerHisLeuHisValTrpAs 54019 : .........................ag{GG}CTGTACGGAAGCCACTTACATGTCTGGGA : 53723 275 : pTrpGlnArgHisGluIleValGlnThrLeuSerLeuLysAspGlyLeuIleProLeuGl : 294 ||||||||||||||||!!:||||||||||||!!!|||:!!|||||||||||||||||||| pTrpGlnArgHisGluMetValGlnThrLeuThrLeuGlnAspGlyLeuIleProLeuGl 53722 : CTGGCAACGCCATGAGATGGTGCAGACCCTGACTCTACAGGATGGGCTCATCCCCCTGGA : 53663 295 : uIleArgPheLeuHisAsnProAspAlaAlaGlnGlyPheValGlyCysAlaLeuSerSe : 314 ||||||||||||||||||||||||||||.!!||||||||||||||||||||||||||||| uIleArgPheLeuHisAsnProAspAlaThrGlnGlyPheValGlyCysAlaLeuSerSe 53662 : GATCCGTTTCCTGCACAACCCAGACGCCACCCAGGGCTTCGTAGGCTGTGCCCTCAGCTC : 53603 315 : rThrIleGlnArgPheTyrLysAsnGlu >>>> Target Intron 6 >>>> Gly : 324 |!.!|||||||||||||||||||||||| 443 bp ||| rAsnIleGlnArgPheTyrLysAsnGlu++ ++Gly 53602 : CAACATCCAACGATTCTACAAGAATGAGgt.........................agGGA : 53130 325 : GlyThrTrpSerValGluLysValIleGlnValProProLysLysValLysGlyTrpLeu : 344 ||||||||||||!.!||||||||||||||||||||||||||||||||||||||||||:!! GlyThrTrpSerAlaGluLysValIleGlnValProProLysLysValLysGlyTrpMet 53129 : GGCACTTGGTCAGCGGAGAAAGTGATCCAGGTGCCCCCCAAGAAAGTGAAGGGCTGGATG : 53070 345 : LeuProGluMetPro{G} >>>> Target Intron 7 >>>> {ly}LeuIleThr : 353 |||||||||||||||{|} 91 bp {||}||||||||| LeuProGluMetPro{G}++ ++{ly}LeuIleThr 53069 : CTGCCAGAAATGCCA{G}gt.........................ag{GC}CTGATCACT : 52952 354 : AspIleLeuLeuSerLeuAspAspArgPheLeuTyrPheSerAsnTrpLeuHisGlyAsp : 373 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| AspIleLeuLeuSerLeuAspAspArgPheLeuTyrPheSerAsnTrpLeuHisGlyAsp 52951 : GACATCCTGCTGTCCCTGGATGACCGCTTCCTCTACTTCAGCAACTGGCTACACGGGGAC : 52892 374 : LeuArgGlnTyrAspIleSerAspProGlnArgProArgLeuThrGlyGln >>>> Ta : 391 |||||||||||||||||||||||||||||||||||| !!|||||||||||| LeuArgGlnTyrAspIleSerAspProGlnArgProCysLeuThrGlyGln++ 52891 : TTGCGGCAGTATGACATCTCTGACCCACAGCGGCCCTGCCTCACAGGACAGgt....... : 52836 392 : rget Intron 8 >>>> LeuPheLeuGlyGlySerIleValLysGlyGlyProValG : 404 266 bp |||||||||||||||||||||||||||||||||||||||| ++LeuPheLeuGlyGlySerIleValLysGlyGlyProValG 52835 : ..................agCTCTTCCTTGGGGGCAGCATTGTTAAGGGAGGCCCTGTGC : 52533 405 : lnValLeuGluAspGluGluLeuLysSerGlnProGluProLeuValValLys >>>> : 422 ||||||||||||||:!!|||||||||||||||||||||||||||||||||||| lnValLeuGluAspGlnGluLeuLysSerGlnProGluProLeuValValLys++ 52532 : AAGTGCTGGAGGACCAGGAGCTAAAATCCCAGCCAGAGCCCCTGGTGGTCAAGgt..... : 52477 423 : Target Intron 9 >>>> GlyLysArgValAlaGlyGlyProGlnMetIleGlnLe : 434 139 bp ||||||||||||!.!||||||||||||||||||||||| ++GlyLysArgValValGlyGlyProGlnMetIleGlnLe 52476 : ....................agGGGAAACGGGTGGTTGGAGGCCCGCAGATGATCCAGCT : 52304 435 : uSerLeuAspGlyLysArgLeuTyrIleThrThrSerLeuTyrSerAlaTrpAspLysGl : 454 |||||||||||||||||||||||||:!!|||||||||||||||||||||||||||||||| uSerLeuAspGlyLysArgLeuTyrValThrThrSerLeuTyrSerAlaTrpAspLysGl 52303 : TAGCCTAGACGGGAAACGTCTCTATGTCACCACATCGCTATACAGTGCCTGGGACAAGCA : 52244 455 : nPheTyrProAspLeuIle{Ar} >>>> Target Intron 10 >>>> {g}GluG : 463 |||||||||||||||||||{||} 199 bp {|}|||| nPheTyrProAspLeuIle{Ar}++ ++{g}GluG 52243 : GTTTTACCCTGATCTCATC{AG}gt..........................ag{G}GAAG : 52018 464 : lySerValMetLeuGlnValAspValAspThrValLysGlyGlyLeuLysLeuAsnProA : 483 |||||||||||||||||:!!:!!||||||||||||||||||||||||||||||||||||| lySerValMetLeuGlnIleAsnValAspThrValLysGlyGlyLeuLysLeuAsnProA 52017 : GCTCCGTGATGCTGCAGATCAATGTAGACACAGTAAAGGGAGGACTGAAGTTGAACCCTA : 51958 484 : snPheLeuValAspPheGlyLysGluProLeuGlyProAlaLeuAlaHisGluLeuArgT : 503 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| snPheLeuValAspPheGlyLysGluProLeuGlyProAlaLeuAlaHisGluLeuArgT 51957 : ACTTCCTGGTGGACTTTGGGAAGGAGCCCCTCGGCCCAGCCCTGGCCCATGAGCTCCGCT : 51898 504 : yrProGlyGlyAspCysSerSerAspIleTrpIle : 514 ||||||||||||||||||||||||||||||||:!! yrProGlyGlyAspCysSerSerAspIleTrpLeu 51897 : ACCCTGGGGGAGACTGCAGCTCCGACATCTGGCTC : 51863 vulgar: SPP00002942_2.0 26 514 . JSZB01014514.1:subseq(35000,105000) 56990 51862 - 2368 M 36 108 S 0 1 5 0 2 I 0 200 3 0 2 S 1 2 M 37 111 5 0 2 I 0 205 3 0 2 M 62 186 5 0 2 I 0 676 3 0 2 M 40 120 S 0 1 5 0 2 I 0 1161 3 0 2 S 1 2 M 60 180 S 0 1 5 0 2 I 0 264 3 0 2 S 1 2 M 59 177 5 0 2 I 0 439 3 0 2 M 26 78 S 0 1 5 0 2 I 0 87 3 0 2 S 1 2 M 40 120 5 0 2 I 0 262 3 0 2 M 31 93 5 0 2 I 0 135 3 0 2 M 39 117 S 0 2 5 0 2 I 0 195 3 0 2 S 1 1 M 53 159 # --- 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 # JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local gene 51863 56990 2368 - . gene_id 1 ; sequence SPP00002942_2.0 ; gene_orientation + JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 56882 56990 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 56882 56990 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 56880 56881 . - . intron_id 1 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 56678 56881 . - . intron_id 1 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 56678 56679 . - . intron_id 0 ; splice_site "ag" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 56565 56677 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 56565 56677 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 56563 56564 . - . intron_id 2 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 56356 56564 . - . intron_id 2 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 56356 56357 . - . intron_id 1 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 56170 56355 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 56170 56355 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 56168 56169 . - . intron_id 3 ; splice_site "GC" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 55490 56169 . - . intron_id 3 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 55490 55491 . - . intron_id 2 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 55369 55489 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 55369 55489 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 55367 55368 . - . intron_id 4 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 54204 55368 . - . intron_id 4 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 54204 54205 . - . intron_id 3 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 54021 54203 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 54021 54203 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 54019 54020 . - . intron_id 5 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 53753 54020 . - . intron_id 5 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 53753 53754 . - . intron_id 4 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 53574 53752 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 53574 53752 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 53572 53573 . - . intron_id 6 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 53131 53573 . - . intron_id 6 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 53131 53132 . - . intron_id 5 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 53052 53130 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 53052 53130 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 53050 53051 . - . intron_id 7 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 52961 53051 . - . intron_id 7 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 52961 52962 . - . intron_id 6 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 52839 52960 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 52839 52960 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 52837 52838 . - . intron_id 8 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 52573 52838 . - . intron_id 8 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 52573 52574 . - . intron_id 7 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 52480 52572 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 52480 52572 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 52478 52479 . - . intron_id 9 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 52341 52479 . - . intron_id 9 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 52341 52342 . - . intron_id 8 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 52222 52340 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 52222 52340 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice5 52220 52221 . - . intron_id 10 ; splice_site "GT" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local intron 52023 52221 . - . intron_id 10 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local splice3 52023 52024 . - . intron_id 9 ; splice_site "AG" JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local cds 51863 52022 . - . JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local exon 51863 52022 . - . insertions 0 ; deletions 0 JSZB01014514.1:subseq(35000,105000) exonerate:protein2genome:local similarity 51863 56990 2368 - . alignment_id 1 ; Query SPP00002942_2.0 ; Align 56991 27 108 ; Align 56676 64 111 ; Align 56356 101 186 ; Align 55490 163 120 ; Align 54202 204 180 ; Align 53751 265 177 ; Align 53131 324 78 ; Align 52959 351 120 ; Align 52573 391 93 ; Align 52341 422 117 ; Align 52022 462 159 # --- END OF GFF DUMP --- # -- completed exonerate analysis