Command line: [exonerate -m p2g --showtargetgff -q PSTK.fa -t PSTK.subseq] Hostname: [ws101069u] C4 Alignment: ------------ Query: SPP00000052_2.0 # Protein # Phosphoseryl-tRNA kinase (PSTK) # Human Target: JSZB01001613.1:subseq(460000,110000) Manis javanica isolate MP_PG03-UM SCAFFOLD1784, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1295 Query range: 0 -> 306 Target range: 52216 -> 45831 1 : MetLysThrAlaGluAsnIleArgGlyThrGlySerAspGlyProArgLysArgGlyLeu : 20 |||||||||::!|||:!!:!!||||||.!! !!|||!!:||||||||||||! !|||||| MetLysThrSerGluHisValArgGlyAlaArgSerGluGlyProArgLysLeuGlyLeu 52216 : ATGAAGACCAGCGAGCACGTCAGAGGAGCGCGCAGCGAGGGGCCGCGGAAGCTGGGACTC : 52159 21 : CysValLeuCysGlyLeuProAlaAlaGlyLysSerThrPheAlaArgAlaLeuAlaHis : 40 ||||||||||||||||||||||||||||||||||||||||||||||||!.!|||::!||| CysValLeuCysGlyLeuProAlaAlaGlyLysSerThrPheAlaArgValLeuSerHis 52158 : TGCGTTCTCTGCGGCTTACCCGCAGCAGGAAAGTCGACCTTCGCACGGGTTCTCAGCCAC : 52099 41 : ArgLeuGlnGlnGluGlnGlyTrpAlaIleGlyValValAlaTyrAspAspValMetPro : 60 ||||||!:!|||||| !!||||||:!!|||||||||||||||||||||||||||||| ArgLeuArgGlnGluGlyArgTrpAlaValGlyValValAlaTyrAspAspValMetPro 52098 : CGGCTGCGGCAGGAGGGCCGCTGGGCCGTCGGCGTGGTAGCCTACGATGACGTCATGCCT : 52039 61 : AspAlaPheLeuAlaGlyAlaArgAlaArgProAla >>>> Target Intron 1 > : 73 |||||||||:!! !! !|||!!!|||! !||| ! 1990 bp AspAlaPheIleLysGluAlaSerAlaProProLeu++ 52038 : GACGCATTCATCAAGGAGGCGAGCGCACCGCCATTGgt...................... : 51998 74 : >>> ProSerGlnTrpLysLeuLeuArgGlnGluLeuLeuLysTyrLeuGluTyrPheL : 91 |||||||||||||||||||||||||||||||||||||||||||||||| !|||| ++ProSerGlnTrpLysLeuLeuArgGlnGluLeuLeuLysTyrLeuGluGlyPheL 51997 : ...agCCATCCCAATGGAAATTGCTTCGACAGGAACTGCTGAAGTACCTAGAAGGCTTCT : 49956 92 : euMetAlaValIleAsnGlyCysGlnMetSerValProProAsnArgThrGluAlaMetT : 111 ||! !|||||||||||||||||||||||||||!.!||||||||||||||||||||||||| euThrAlaValIleAsnGlyCysGlnMetSerAlaProProAsnArgThrGluAlaMetT 49955 : TGACGGCTGTCATCAACGGGTGTCAGATGTCTGCCCCACCCAACAGGACTGAAGCCATGT : 49896 112 : rpGluAspPheIleThrCysLeuLysAspGlnAspLeuIlePheSerAlaAlaPheGluA : 131 ||||||||||||||||||||||||||||||||||||||:!!! !||||||||| !|||| rpGluAspPheIleThrCysLeuLysAspGlnAspLeuValSerSerAlaAlaHisGluA 49895 : GGGAAGATTTTATAACCTGCTTAAAGGATCAAGATCTGGTTTCTTCTGCAGCTCATGAGG : 49836 132 : laGlnSerCysTyrLeuLeuThrLysThrAlaValSerArgProLeuPheLeuValLeuA : 151 ||||||||||||||!!!||||||||||||||||||||||||||||||.!!|||||||||| laGlnSerCysTyrPheLeuThrLysThrAlaValSerArgProLeuLeuLeuValLeuA 49835 : CTCAGTCTTGCTACTTCCTGACGAAGACTGCTGTTTCTAGACCATTGCTTTTGGTTTTAG : 49776 152 : spAspAsnPheTyrTyrGlnSerMetArgTyrGluValTyrGlnLeuAlaArgLys{T} : 170 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||{|} spAspAsnPheTyrTyrGlnSerMetArgTyrGluValTyrGlnLeuAlaArgLys{T}+ 49775 : ATGACAATTTTTATTATCAAAGTATGAGATACGAAGTTTACCAACTGGCTCGGAaa{t}g : 49718 171 : >>>> Target Intron 2 >>>> {yr}SerLeuGlyPheCysGlnLeuPheLeuA : 180 238 bp {||}|||||||||||||||||||||||||||| + ++{yr}SerLeuGlyPheCysGlnLeuPheLeuA 49717 : t.........................ag{AT}TCATTAGGCTTTTGCCAGCTCTTTTTAG : 49451 181 : spCysProLeuGluThrCysLeuGlnArgAsnGlyGlnArgProGlnAlaLeuProProG : 200 ||||||||||||||||||||||||||||||||.!!!:!||||||!:!||||||||| !!: spCysProLeuGluThrCysLeuGlnArgAsnSerArgArgProArgAlaLeuProThrG 49450 : ACTGTCCTCTCGAGACCTGTTTACAGAGGAATAGCCGGAGACCACGGGCACTGCCTACCC : 49391 201 : luThrIleHisLeuMetGlyArgLysLeuGluLysProAsnProGluLysAsnAlaTrpG : 220 !!||||||||||||||||||!!!|||:!!||||||||||||||||||||||||||||||| lnThrIleHisLeuMetGlySerLysIleGluLysProAsnProGluLysAsnAlaTrpG 49390 : AGACCATCCACCTGATGGGAAGCAAGATAGAAAAGCCTAACCCTGAAAAAAATGCTTGGG : 49331 221 : luHisAsnSerLeuThrIleProSerProAlaCysAlaSerGluAla{Se} >>>> Ta : 236 ||||||||||||||||||||! !||| !! !|||:!!|||||||||{||} luHisAsnSerLeuThrIleGlnSerAlaMetCysSerSerGluAla{Se}++ 49330 : AACACAACAGCCTCACAATTCAGAGTGCGATGTGTTCTTCCGAGGCC{AG}gt....... : 49279 237 : rget Intron 3 >>>> {r}LeuGluValThrAspLeuLeuLeuThrAlaLeuGluA : 249 2354 bp {|}|||:!!:!!|||||||||||||||||||||||||||| ++{r}LeuLysLeuThrAspLeuLeuLeuThrAlaLeuGluA 49278 : ..................ag{c}TTGAAGTTGACTGATTTATTGCTTACTGCCTTGGAAA : 46890 250 : snProValLysTyrAlaGluAspAsnMetGluGlnLys >>>> Target Intron 4 : 262 ||||||||||||||!.!||||||||||||||||||||| 525 bp snProValLysTyrValGluAspAsnMetGluGlnLys++ 46889 : ATCCAGTAAAATATGTTGAGGACAACATGGAACAAAAGgt.................... : 46849 263 : >>>> AspThrAspArgIleIleCysSerThrAsnIleLeuHisLysThrAspGlnTh : 279 !!:|||||||||||||||||||||.!!!:!|||||||||:!!..!|||||||| ++GluThrAspArgIleIleCysSerAlaSerIleLeuHisGlnValAspGlnTh 46848 : .....agGAAACAGACCGCATTATTTGTTCAGCTAGCATTCTCCATCAAGTTGATCAGAC : 46275 280 : rLeuArgArgIleValSerGlnThrMetLysGluAlaLys{G} >>>> Target Int : 293 ||||||||||||||||||||||||||||||||||||||||{|} 360 b rLeuArgArgIleValSerGlnThrMetLysGluAlaLys{G}++ 46274 : CCTCCGAAGAATTGTCTCTCAGACAATGAAGGAAGCAAAA{G}gt............... : 46230 294 : ron 5 >>>> {ly}AsnGlnGluAlaPheSerGluMetThrPheLysGlnArg : 306 p {||}|||||||||...||||||||||||||||||||||||||| -+{ly}AsnGlnGluGlyPheSerGluMetThrPheLysGlnArg 46229 : ..........gg{GT}AAtcaggaaggcttctcagagaTGACATTTAAGCAGAGA : 45832 vulgar: SPP00000052_2.0 0 306 . JSZB01001613.1:subseq(460000,110000) 52216 45831 - 1295 M 72 216 5 0 2 I 0 1986 3 0 2 M 97 291 S 0 1 5 0 2 I 0 234 3 0 2 S 1 2 M 65 195 S 0 2 5 0 2 I 0 2350 3 0 2 S 1 1 M 25 75 5 0 2 I 0 521 3 0 2 M 31 93 S 0 1 5 0 2 I 0 356 3 0 2 S 1 2 M 13 39 # --- 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 # JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local gene 45832 52216 1295 - . gene_id 1 ; sequence SPP00000052_2.0 ; gene_orientation + JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local cds 52001 52216 . - . JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local exon 52001 52216 . - . insertions 0 ; deletions 0 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice5 51999 52000 . - . intron_id 1 ; splice_site "GT" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local intron 50011 52000 . - . intron_id 1 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice3 50011 50012 . - . intron_id 0 ; splice_site "AG" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local cds 49719 50010 . - . JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local exon 49719 50010 . - . insertions 0 ; deletions 0 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice5 49717 49718 . - . intron_id 2 ; splice_site "gt" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local intron 49481 49718 . - . intron_id 2 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice3 49481 49482 . - . intron_id 1 ; splice_site "AG" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local cds 49282 49480 . - . JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local exon 49282 49480 . - . insertions 0 ; deletions 0 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice5 49280 49281 . - . intron_id 3 ; splice_site "GT" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local intron 46928 49281 . - . intron_id 3 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice3 46928 46929 . - . intron_id 2 ; splice_site "ag" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local cds 46852 46927 . - . JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local exon 46852 46927 . - . insertions 0 ; deletions 0 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice5 46850 46851 . - . intron_id 4 ; splice_site "GT" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local intron 46327 46851 . - . intron_id 4 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice3 46327 46328 . - . intron_id 3 ; splice_site "AG" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local cds 46233 46326 . - . JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local exon 46233 46326 . - . insertions 0 ; deletions 0 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice5 46231 46232 . - . intron_id 5 ; splice_site "GT" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local intron 45873 46232 . - . intron_id 5 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local splice3 45873 45874 . - . intron_id 4 ; splice_site "GG" JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local cds 45832 45872 . - . JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local exon 45832 45872 . - . insertions 0 ; deletions 0 JSZB01001613.1:subseq(460000,110000) exonerate:protein2genome:local similarity 45832 52216 1295 - . alignment_id 1 ; Query SPP00000052_2.0 ; Align 52217 1 216 ; Align 50011 73 291 ; Align 49479 171 195 ; Align 46927 237 75 ; Align 46327 262 93 ; Align 45871 294 39 # --- END OF GFF DUMP --- # -- completed exonerate analysis