Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q PSTK.anole.fa -t PSTK.extraccio.KQ753020.1.fa] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000233_2.0 # Protein # Phosphoseryl-tRNA kinase (PSTK) # Anole lizard Target: KQ753020.1:subseq(53624,25854) Gekko japonicus isolate JY-2015 unplaced genomic scaffold scaffold2340, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 932 Query range: 48 -> 350 Target range: 21200 -> 9999 49 : GluGlyProGluGluGlnGlnSerLeu >>>> Target Intron 1 >>>> MetG : 59 :::||| :::...::::::... 5313 bp . GlnGlyLysGlnAsnLysLysGlyLys++ ++AlaS 21200 : caaggtaaacagaataagaagggaaaggt.........................agGCAT : 15857 60 : lySerTrpArgLeuTyrArgGlnGluLeuLeuLeuCysLeuGluHisPheLeuGlnAlaL : 79 .!!:!|||!:!!!!||||||!!.||||||||||||! !|||||||||||||||||||||| erAsnTrpLysPheTyrArgHisGluLeuLeuLeuTyrLeuGluHisPheLeuGlnAlaL 15856 : CTAACTGGAAATTCTACAGGCATGAATTATTGCTGTACCTTGAACACTTTCTGCAGGCTC : 15797 80 : euIleThrGlyCysHisTyr<->SerProGlnAsnIleThrGluThrThrTrpGluArgP : 98 |||||! !|||||||||||| !!|||! !!!. !||||||..!||||||:!!!.!| euIleLysGlyCysHisTyrLeuProProProLysGlyThrGluValThrTrpLysAsnP 15796 : TTATTAAAGGATGCCATTATTTGCCTCCTCCAAAAGGAACTGAAGTAACTTGGAAAAATT : 15737 99 : heValCysCysLeuLysGluGlnGlyLeuIleSerValArgArgGluAspSerAlaSerC : 118 ||:!!||||||||||||||||||||||||||||||::: ...||||||:!!|||||| heLeuCysCysLeuLysGluGlnGlyLeuIleSerLeuGlyGluGluAspThrAlaSerH 15736 : TTCTTTGCTGTTTGAAAGAGCAAGGCTTAAtatctttgggagaagaagacaCAGCATCTC : 15677 119 : ysGlnTyrLeuIleAspPheThrSerProSerProIleTyrPheValLeuAspAspAsnP : 138 !|||:!!||||||:!!.!!|||!!!! !!!!|||! !||||||:!!||||||||||||| isGlnHisLeuIleAsnIleThrThrLeuArgProThrTyrPheIleLeuAspAspAsnP 15676 : ATCAACATTTAATCAATATTACCACTCTCAGACCAACATACTTCATTTTAGATGACAACT : 15617 139 : heTyrTyrArgSerMetArgTyrGluValTyrGlnLeuAlaArgGln{T} >>>> Tar : 154 ||||||||||||||||||||||||||||||||||||||||||||:!!{|} heTyrTyrArgSerMetArgTyrGluValTyrGlnLeuAlaArgLys{T}++ 15616 : TTTATTATCGAAGTATGAGATACGAAGTGTACCAATTAGCTCGCAAA{T}gt........ : 15566 155 : get Intron 2 >>>> {yr}ThrLeuGlyPheCysGlnLeuPheLeuAspCysGlnV : 167 2869 bp {||}:!!|||||||||||||||||||||||||||||||||| ++{yr}SerLeuGlyPheCysGlnLeuPheLeuAspCysGlnV 15565 : .................ag{AT}TCACTGGGCTTCTGTCAGTTGTTTTTAGACTGTCAGG : 12661 168 : alGluValCysLeuGluArgAsnSerGlnArgLysGlnProLeuProGluGluThrIleT : 187 ||||||||||||||:!!||||||.!!||||||! ||||||||||||||||||||||||: alGluValCysLeuGlnArgAsnGlyGlnArgThrGlnProLeuProGluGluThrIleH 12660 : TTGAGGTCTGTCTACAGAGAAATGGTCAGAGAACTCAGCCATTACCTGAAGAAACAATAC : 12601 188 : yrAlaMetAlaGlnLysIleGluCysProAsnProGluLysTyrThrTrpGluHisHisS : 207 !!|||||||||||||||:!:||| !|||||| !!|||||||||||||||||| ! :!!| isAlaMetAlaGlnLysLeuGluValProAsnSerGluLysTyrThrTrpGluLysAsnS 12600 : ATGCAATGGCACAGAAGCTGGAAGTTCCAAATTCAGAGAAATACACATGGGAGAAGAACA : 12541 208 : erLeuIleLeuLysSerAlaGlySerAlaLeuGluAspLysTyr >>>> Target In : 222 |||||||||||||||||.!!! !! !.!!||||||||||||||| 791 erLeuIleLeuLysSerThrGluTyrThrLeuGluAspLysTyr++ 12540 : GCCTCATTTTGAAGAGTACAGAATATACTTTGGAAGATAAGTATgt.............. : 12494 223 : tron 3 >>>> ValIleTyrArgLeuLeuLeuLeuPheLeuGlnMetLeuAspLeuLe : 237 bp :::...::: |||...:::... !||||||:!!|||:!!||||| +-LeuPhePheIleLeuPheIlePheSerLeuGlnValLeuAsnLeuLe 12493 : ...........aactgttttttattttgtttatattcagTCTCCAGGTGCTCAATTTGTT : 11660 238 : uSerAlaAlaLeuGluAsnProValLysProLeuGluGluAsnThrGluLeuLys >>> : 256 |||| !.!!|||||||||||||||||||||||||||||||||||||||!!!||| uSerLeuThrLeuGluAsnProValLysProLeuGluGluAsnThrGluPheLys++ 11659 : GTCTCTTACTTTGGAAAATCCAGTGAAACCGCTGGAAGAAAACACAGAATTCAAGgt... : 11601 257 : > Target Intron 4 >>>> GluIleAspArgAlaIleCysAlaThrSerAlaLeu : 267 661 bp ||| !|||||||||:!!||||||.!!||| !||| ++GluAlaAspArgAlaLeuCysAlaAlaSerPheLeu 11600 : ......................agGAAGCTGATCGAGCTCTTTGCGCAGCCAGTTTCCTT : 10909 268 : HisGlnThrAspGlnAlaIleArgArgIleValSerGlnThrMetLysAsnAlaLys{A} : 287 ||||||.!!|||!:!|||:!!|||!:!||||||||||||||||||||||||||||||{|} HisGlnAlaAspArgAlaValArgGlnIleValSerGlnThrMetLysAsnAlaLys{A} 10908 : CATCAAGCTGACCGGGCTGTCAGGCAAATTGTCTCTCAAACAATGAAGAATGCAAAA{G} : 10849 288 : >>>> Target Intron 5 >>>> {sp}AsnAsnValAlaLeuCysGluLeuArg : 296 664 bp {||}|||..!:!!.!!! ! !!|||:!!!:! ++ ++{sp}AsnArgLeuThrProSerGluMetLys 10848 : gt.........................ag{AT}AATCGCCTTACCCCAAGTGAGATGAAG : 10158 297 : SerLeuAlaGluGluLeuAsnArgLeuLysLeuLysPheLeuGluGlyLeuArgHisLys : 316 |||||||||:!!|||||||||!:!||||||:!! |||||||||! !|||!:!|||:!! SerLeuAlaGlnGluLeuAsnLysLeuLysValGlyPheLeuGluAspLeuLysHisGln 10157 : AGCTTGGCACAGGAACTCAATAAACTGAAAGTGGGTTTCTTGGAAGATTTAAAACACCAG : 10098 317 : SerAsnGluGluAsnGlnCysCysLeuGlnAsnAsnThrPheAsnIleAsnValThrSer : 336 ! !||||||:!!!!.||| |||! !..! !:!|||.!! !|||||| |||:!! TyrAsnGluLysLysGln---CysTyrSerAlaSerThrLeuProIleAsn---ThrAla 10097 : TATAATGAAAAGAAACAG---TGTTATTCAGCAAGTACACTTCCTATAAAC---ACAGCT : 10044 337 : AlaPheSerGlnGluAlaAspAspIleValLysLysTyrLeu : 350 !||| !|||:!!|||:!!||||||!.!|||||||||||| LeuPheHisGlnGlnAlaAsnAspIleAlaLysLysTyrLeu 10043 : TTATTCCACCAACAGGCCAATGATATTGCTAAGAAATACTTG : 10000 vulgar: SPP00000233_2.0 48 350 . KQ753020.1:subseq(53624,25854) 21200 9999 - 932 M 9 27 5 0 2 I 0 5309 3 0 2 M 28 84 G 0 3 M 68 204 S 0 1 5 0 2 I 0 2865 3 0 2 S 1 2 M 67 201 5 0 2 I 0 787 3 0 2 M 34 102 5 0 2 I 0 657 3 0 2 M 31 93 S 0 1 5 0 2 I 0 660 3 0 2 S 1 2 M 35 105 G 1 0 M 10 30 G 1 0 M 16 48 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-09 ##type DNA # # # seqname source feature start end score strand frame attributes # KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local gene 10000 21200 932 - . gene_id 1 ; sequence SPP00000233_2.0 ; gene_orientation + KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local cds 21174 21200 . - . KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local exon 21174 21200 . - . insertions 0 ; deletions 0 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice5 21172 21173 . - . intron_id 1 ; splice_site "gt" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local intron 15861 21173 . - . intron_id 1 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice3 15861 15862 . - . intron_id 0 ; splice_site "AG" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local cds 15569 15860 . - . KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local exon 15569 15860 . - . insertions 3 ; deletions 0 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice5 15567 15568 . - . intron_id 2 ; splice_site "GT" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local intron 12700 15568 . - . intron_id 2 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice3 12700 12701 . - . intron_id 1 ; splice_site "AG" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local cds 12497 12699 . - . KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local exon 12497 12699 . - . insertions 0 ; deletions 0 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice5 12495 12496 . - . intron_id 3 ; splice_site "GT" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local intron 11706 12496 . - . intron_id 3 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice3 11706 11707 . - . intron_id 2 ; splice_site "aa" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local cds 11604 11705 . - . KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local exon 11604 11705 . - . insertions 0 ; deletions 0 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice5 11602 11603 . - . intron_id 4 ; splice_site "GT" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local intron 10943 11603 . - . intron_id 4 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice3 10943 10944 . - . intron_id 3 ; splice_site "AG" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local cds 10849 10942 . - . KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local exon 10849 10942 . - . insertions 0 ; deletions 0 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice5 10847 10848 . - . intron_id 5 ; splice_site "GT" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local intron 10185 10848 . - . intron_id 5 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local splice3 10185 10186 . - . intron_id 4 ; splice_site "AG" KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local cds 10000 10184 . - . KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local exon 10000 10184 . - . insertions 0 ; deletions 2 KQ753020.1:subseq(53624,25854) exonerate:protein2genome:local similarity 10000 21200 932 - . alignment_id 1 ; Query SPP00000233_2.0 ; Align 21201 49 27 ; Align 15861 58 84 ; Align 15774 86 204 ; Align 12698 155 201 ; Align 11706 222 102 ; Align 10943 256 93 ; Align 10183 288 105 ; Align 10078 324 30 ; Align 10048 335 48 # --- END OF GFF DUMP --- # -- completed exonerate analysis