Command line: [exonerate -m p2g --showtargetgff -q ../PSTK-human.fa -t PSTK-NIVO01034609.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000283_2.0 # Protein # Phosphoseryl-tRNA kinase (PSTK) # Cow Target: NIVO01034609.1:subseq(2421749,113318) Ammotragus lervia isolate NAZ scaffold2588_len2780343_cov72, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1650 Query range: 0 -> 346 Target range: 63318 -> 49999 1 : MetLysMetGlyGluAspValArgGlyAlaHisSerGluArgProGlnLysLeuValLeu : 20 ||||||||||||||||||||||||||||||||||||||| !!|||||||||||||||||| MetLysMetGlyGluAspValArgGlyAlaHisSerGluGlyProGlnLysLeuValLeu 63318 : ATGAAGATGGGGGAGGACGTCAGAGGAGCGCACAGCGAAGGGCCACAAAAGCTAGTCCTC : 63261 21 : CysValLeuCysGlyLeuProAlaAlaGlyLysSerThrPheAlaArgAlaLeuArgHis : 40 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| CysValLeuCysGlyLeuProAlaAlaGlyLysSerThrPheAlaArgAlaLeuArgHis 63260 : TGTGTTCTCTGCGGCCTGCCCGCGGCAGGAAAGTCAACTTTCGCGCGCGCCCTCAGACAC : 63201 41 : TrpLeuGlnGlnGluLeuGlyTrpAlaValGlyValValAlaTyrAspAspValMetPro : 60 !||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlnLeuGlnGlnGluLeuGlyTrpAlaValGlyValValAlaTyrAspAspValMetPro 63200 : CAGCTACAGCAGGAACTGGGCTGGGCGGTGGGCGTCGTCGCCTATGATGACGTCATGCCG : 63141 61 : GluAlaValLeuGluLysAlaSerAlaSerProLeu >>>> Target Intron 1 > : 73 ||||||||||||||||||||||||||| !!|||||| 2317 bp GluAlaValLeuGluLysAlaSerAlaArgProLeu++ 63140 : GAAGCGGTCCTTGAGAAGGCAAGCGCACGCCCATTGgt...................... : 63100 74 : >>> ProSerGlnTrpLysLeuPheArgGlnGluLeuLeuLysPheLeuGluHisPheL : 91 ||||||||||||||||||.!!||||||||||||||||||!:!||||||||||||| ++ProSerGlnTrpLysLeuLeuArgGlnGluLeuLeuLysTyrLeuGluHisPheL 63099 : ...agCCATCCCAATGGAAATTGCTTCGCCAGGAACTGTTGAAGTACCTTGAACACTTCT : 60731 92 : euLeuAlaValIleAsnGlyCysGlnMetSerAlaProProSerLysThrGluAlaMetT : 111 |||||||||||||||||||||||||||||||||||||| !!|||!:!||||||||||||| euLeuAlaValIleAsnGlyCysGlnMetSerAlaProAlaSerArgThrGluAlaMetT 60730 : TGCTGGCTGTCATTAATGGGTGTCAGATGTCTGCCCCAGCCAGCAGGACTGAAGCCATGT : 60671 112 : rpLysAspPheIleThrCysLeuLysAspGlnAspLeuIleSerSerAlaAlaValGluA : 131 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| rpLysAspPheIleThrCysLeuLysAspGlnAspLeuIleSerSerAlaAlaValGluA 60670 : GGAAGGATTTTATAACCTGCTTGAAGGATCAAGATCTGATATCTTCTGCAGCTGTTGAGG : 60611 132 : laGlnAlaLeuTyrProLeuThrLysThrAlaValSerArgProLeuLeuLeuIleLeuA : 151 |||||:!!|||||||||||||||||||||||||||||||||||||||||||||||||||| laGlnSerLeuTyrProLeuThrLysThrAlaValSerArgProLeuLeuLeuIleLeuA 60610 : CCCAGTCTCTCTACCCCTTAACGAAGACTGCTGTGTCTAGACCTCTGCTTTTGATTTTAG : 60551 152 : spAspAsnPheTyrTyrGln{A} >>>> Target Intron 2 >>>> {sn}SerS : 160 ||||||||||||||||||||{|} 452 bp {||}|||! spAspAsnPheTyrTyrGln{A}++ ++{sn}SerL 60550 : ATGACAACTTTTACTATCAA{A}gt.........................ag{AT}TCAT : 60072 161 : erGlyPheCysGlnLeuPheLeuAspCysAlaLeuGluThrCysLeuGlnArgAsnAlaG : 180 !|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| euGlyPheCysGlnLeuPheLeuAspCysAlaLeuGluThrCysLeuGlnArgAsnAlaG 60071 : TAGGCTTTTGCCAGCTCTTTTTAGATTGTGCTCTCGAGACCTGTCTACAGAGGAATGCCC : 60012 181 : lnArgProArgProLeuProAlaGluThrIleHisGlnMetGlyAsnLysIleGluLysP : 200 ||||||||||||||||||||||||||||||||||||||||||||!:!||||||||||||| lnArgProArgProLeuProAlaGluThrIleHisGlnMetGlySerLysIleGluLysP 60011 : AGAGACCACGACCACTGCCTGCCGAGACCATCCACCAGATGGGAAGCAAAATAGAAAAGC : 59952 201 : roAsnProGluLysAsnAlaTrpGluHisHisSerLeuAlaValGlnSerProAlaCysA : 220 |||||||||||||||||||||||||||||||||||||||||:!!|||||||||||||||| roAsnProGluLysAsnAlaTrpGluHisHisSerLeuAlaIleGlnSerProAlaCysA 59951 : CCAACCCTGAGAAAAATGCTTGGGAACACCACAGCCTCGCAATTCAGAGTCCAGCATGTG : 59892 221 : laSerGluAla{Ar} >>>> Target Intron 3 >>>> {g}LeuLysLeuThrA : 229 |||||||||||{||} 3274 bp {|}||||||||||||| laSerGluAla{Ar}++ ++{g}LeuLysLeuThrA 59891 : CTTCAGAGGCC{AG}gt.........................ag{G}CTGAAGCTGACTG : 56591 230 : spLeuLeuIleThrAlaLeuGluAsnProIleLysHisValGluGluAsnLeuGluGlnL : 249 |||||||||||||||||||||||||||||:!!|||:!!||||||||||||||||||!:!| spLeuLeuIleThrAlaLeuGluAsnProValLysTyrValGluGluAsnLeuGluArgL 56590 : ATTTATTGATTACTGCTTTGGAAAATCCAGTAAAATACGTGGAGGAGAATTTGGAACGAA : 56531 250 : ys >>>> Target Intron 4 >>>> GluThrAspArgLeuIleGlySerThrAs : 259 || 2505 bp |||||||||||||||||| !!|||||||| ys++ ++GluThrAspArgLeuIleCysSerThrAs 56530 : AAgt.........................agGAAACAGACAGACTTATCTGTTCAACTAA : 53996 260 : nIleLeuHisGlnAlaAspGlnThrLeuArgArgIleValSerGlnThrMetLysGluAl : 279 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| nIleLeuHisGlnAlaAspGlnThrLeuArgArgIleValSerGlnThrMetLysGluAl 53995 : CATTCTTCATCAAGCTGATCAGACCCTCCGAAGAATTGTCTCTCAGACAATGAAGGAAGC : 53936 280 : aLys{A} >>>> Target Intron 5 >>>> {sp}GluGlnMetPheProTyrAs : 288 ||||{|} 3733 bp {||}|||||||||.!!|||||||| aLys{A}++ ++{sp}GluGlnMetLeuProTyrAs 53935 : CAAA{G}gt.........................ag{AT}GAACAGATGCTTCCATACAA : 50176 289 : nLeuLysLeuLeuAlaGluGluLeuAsnLysLeuLysAlaGluPheLeuGluAspLeuAr : 308 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| nLeuLysLeuLeuAlaGluGluLeuAsnLysLeuLysAlaGluPheLeuGluAspLeuAr 50175 : CTTGAAGCTTTTGGCAGAAGAACTTAACAAACTCAAAGCAGAGTTTTTGGAAGACCTAAG : 50116 309 : gGlnGlyAsnLysLysTyrLeuCysPheGlnGlnThrIleAspLeuAlaAspValIleSe : 328 |||||||:!!||||||||||||||||||||||||||||||||||||:::||||||||||| gGlnGlyAspLysLysTyrLeuCysPheGlnGlnThrIleAspLeuSerAspValIleSe 50115 : ACAAGGAGACAAAAAATACCTGTGCTTTCAACAAACCATTGACTTATcagatgttatttc : 50056 329 : rPhePheHisTyrGluLysAspAsnIleValArgLysTyrPheSerLysGlnHis : 346 ||||||||||||||||||||||||||||||||||||||||||||||||||||||| rPhePheHisTyrGluLysAspAsnIleValArgLysTyrPheSerLysGlnHis 50055 : ttttttccattatgaGAAAGATAACATTGTAAGGAAGTATTTTTCAAAGCAGCAT : 50000 vulgar: SPP00000283_2.0 0 346 . NIVO01034609.1:subseq(2421749,113318) 63318 49999 - 1650 M 72 216 5 0 2 I 0 2313 3 0 2 M 85 255 S 0 1 5 0 2 I 0 448 3 0 2 S 1 2 M 65 195 S 0 2 5 0 2 I 0 3270 3 0 2 S 1 1 M 25 75 5 0 2 I 0 2501 3 0 2 M 31 93 S 0 1 5 0 2 I 0 3729 3 0 2 S 1 2 M 65 195 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-24 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local gene 50000 63318 1650 - . gene_id 1 ; sequence SPP00000283_2.0 ; gene_orientation + NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local cds 63103 63318 . - . NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local exon 63103 63318 . - . insertions 0 ; deletions 0 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice5 63101 63102 . - . intron_id 1 ; splice_site "GT" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local intron 60786 63102 . - . intron_id 1 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice3 60786 60787 . - . intron_id 0 ; splice_site "AG" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local cds 60530 60785 . - . NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local exon 60530 60785 . - . insertions 0 ; deletions 0 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice5 60528 60529 . - . intron_id 2 ; splice_site "GT" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local intron 60078 60529 . - . intron_id 2 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice3 60078 60079 . - . intron_id 1 ; splice_site "AG" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local cds 59879 60077 . - . NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local exon 59879 60077 . - . insertions 0 ; deletions 0 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice5 59877 59878 . - . intron_id 3 ; splice_site "GT" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local intron 56605 59878 . - . intron_id 3 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice3 56605 56606 . - . intron_id 2 ; splice_site "AG" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local cds 56529 56604 . - . NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local exon 56529 56604 . - . insertions 0 ; deletions 0 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice5 56527 56528 . - . intron_id 4 ; splice_site "GT" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local intron 54024 56528 . - . intron_id 4 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice3 54024 54025 . - . intron_id 3 ; splice_site "AG" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local cds 53930 54023 . - . NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local exon 53930 54023 . - . insertions 0 ; deletions 0 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice5 53928 53929 . - . intron_id 5 ; splice_site "GT" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local intron 50197 53929 . - . intron_id 5 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local splice3 50197 50198 . - . intron_id 4 ; splice_site "AG" NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local cds 50000 50196 . - . NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local exon 50000 50196 . - . insertions 0 ; deletions 0 NIVO01034609.1:subseq(2421749,113318) exonerate:protein2genome:local similarity 50000 63318 1650 - . alignment_id 1 ; Query SPP00000283_2.0 ; Align 63319 1 216 ; Align 60786 73 255 ; Align 60076 159 195 ; Align 56604 225 75 ; Align 54024 250 93 ; Align 50195 282 195 # --- END OF GFF DUMP --- # -- completed exonerate analysis