Command line: [exonerate -m p2g --showtargetgff -q CELF1.fa.txt -t CELF1.subseq.txt] Hostname: [ws116044u] C4 Alignment: ------------ Query: SPP00002921_2.0 # Protein # Elav-like family member 1 (CELF1) # Human Target: JSZB01022723.1:subseq(90000,90000) Manis javanica isolate MP_PG03-UM SCAFFOLD28666, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 2331 Query range: 0 -> 485 Target range: 88212 -> 47323 1 : MetAsnGlyThrLeuAspHisProAspGlnProAspLeuAspAlaIleLysMetPheVal : 20 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| MetAsnGlyThrLeuAspHisProAspGlnProAspLeuAspAlaIleLysMetPheVal 88212 : atgaatggcACCCTGGACCACCCAGACCAACCAGATCTTGATGCCATCAAGATGTTTGTG : 88155 21 : GlyGlnValProArgThrTrpSerGluLysAspLeuArgGluLeuPheGluGlnTyrGly : 40 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlyGlnValProArgThrTrpSerGluLysAspLeuArgGluLeuPheGluGlnTyrGly 88154 : GGCCAGGTTCCGAGGACCTGGTCTGAGAAGGACTTGAGGGAACTCTTTGAACAGTATGGT : 88095 41 : AlaValTyrGluIleAsnValLeuArgAspArgSerGlnAsnProProGlnSerLys{G} : 60 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||{|} AlaValTyrGluIleAsnValLeuArgAspArgSerGlnAsnProProGlnSerLys{G} 88094 : GCTGTCTATGAAATCAATGTCCTAAGGGATAGGAGCCAAAACCCTCCTCAGAGCAAA{G} : 88035 61 : >>>> Target Intron 1 >>>> {ly}CysCysPheValThrPheTyrThrArg : 69 1422 bp {||}||||||||||||||||||||||||||| ++ ++{ly}CysCysPheValThrPheTyrThrArg 88034 : gt.........................ag{GG}TGCTGTTTTGTTACATTTTACACCCGC : 86586 70 : LysAlaAlaLeuGluAlaGlnAsnAlaLeuHisAsnMetLysValLeuProGly >>>> : 88 |||||||||||||||||||||||||||||||||||||||||||||||||||||| LysAlaAlaLeuGluAlaGlnAsnAlaLeuHisAsnMetLysValLeuProGly++ 86585 : AAAGCTGCATTAGAAGCGCAGAATGCTCTTCACAACATGAAGGTCCTCCCAGGGgt.... : 86527 89 : Target Intron 2 >>>> MetHisHisProIleGlnMetLysProAlaAspSerG : 100 349 bp ||||||||||||||||||||||||||||||||||||| ++MetHisHisProIleGlnMetLysProAlaAspSerG 86526 : .....................agATGCATCATCCTATACAGATGAAACCTGCCGACAGTG : 86144 101 : luLysAsnAsn{V} >>>> Target Intron 3 >>>> {al}GluAspArgLysL : 109 |||||!:!|||{|} 29409 bp {||}||||||||||||| luLysSerAsn{V}++ ++{al}GluAspArgLysL 86143 : AGAAGAGCAAT{G}gt.........................ag{TG}GAAGACAGGAAGC : 56708 110 : euPheIleGlyMetIleSerLysLysCysThrGluAsnAspIleArgValMetPheSerS : 129 |||||||||||||||||||||||||||||!:!|||||||||||||||||||||||||||| euPheIleGlyMetIleSerLysLysCysSerGluAsnAspIleArgValMetPheSerS 56707 : TGTTTATTGGTATGATTTCCAAGAAGTGCAGTGAAAATGACATCCGAGTCATGTTCTCTT : 56648 130 : erPheGlyGlnIleGluGluCysArgIleLeuArgGlyProAspGlyLeuSerArg{G} : 148 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||{|} erPheGlyGlnIleGluGluCysArgIleLeuArgGlyProAspGlyLeuSerArg{G}+ 56647 : CATTTGGACAGATTGAAGAATGCCGGATATTGCGGGGACCTGATGGCCTGAGCAGA{G}g : 56590 149 : >>>> Target Intron 4 >>>> {ly}CysAlaPheValThrPheThrThrArgA : 158 561 bp {||}|||||||||||||||||||||||||||| + ++{ly}CysAlaPheValThrPheThrThrArgA 56589 : t.........................ag{GC}TGTGCGTTCGTGACTTTTACAACAAGAG : 56000 159 : laMetAlaGlnThrAlaIleLysAlaMetHisGlnAlaGlnThrMetGlu >>>> Tar : 175 |||||||||||||||||||||||||||||||||||||||||||||||||| laMetAlaGlnThrAlaIleLysAlaMetHisGlnAlaGlnThrMetGlu++ 55999 : CCATGGCACAGACGGCTATCAAGGCAATGCACCAAGCACAGACCATGGAGgt........ : 55947 176 : get Intron 5 >>>> GlyCysSerSerProMetValValLysPheAlaAspThrGl : 188 332 bp ||||||||||||||||||||||||||||||||||||||||| ++GlyCysSerSerProMetValValLysPheAlaAspThrGl 55946 : .................agGGTTGCTCATCCCCCATGGTGGTAAAATTTGCTGatacaca : 55578 189 : nLysAspLysGluGlnLysArgMetAlaGlnGlnLeuGlnGlnGlnMetGlnGlnIleSe : 208 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| nLysAspLysGluGlnLysArgMetAlaGlnGlnLeuGlnGlnGlnMetGlnGlnIleSe 55577 : gaaagacaaagaacagAAGAGAATGGCCCAGCAGCTCCAGCAGCAGATGCAGCAGATCAG : 55518 209 : rAlaAlaSerValTrpGlyAsnLeuAlaGlyLeuAsnThrLeuGlyProGlnTyrLeuAl : 228 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| rAlaAlaSerValTrpGlyAsnLeuAlaGlyLeuAsnThrLeuGlyProGlnTyrLeuAl 55517 : TGCAGCATCCGTGTGGGGAAACCTTGCTGGTCTAAATACTCTTGGACCCCAGTATTTAGC : 55458 229 : a >>>> Target Intron 6 >>>> LeuTyrLeuGlnLeuLeuGlnGlnThrAla : 238 | 2471 bp |||||||||||||||||||||||||||||| a++ ++LeuTyrLeuGlnLeuLeuGlnGlnThrAla 55457 : Agt.........................agCTTTATTTGCAGCTCCTTCAGCAGACTGCC : 52957 239 : SerSerGlyAsnLeuAsnThrLeuSerSerLeuHisProMetGly{G} >>>> Targe : 254 |||||||||||||||||||||||||||||||||||||||||||||{|} 1 SerSerGlyAsnLeuAsnThrLeuSerSerLeuHisProMetGly{G}++ 52956 : TCCTCTGGGAACCTCAACACCCTGAGCAGCCTCCACCCAATGGGA{G}gt.......... : 52906 255 : t Intron 7 >>>> {ly}LeuAsnAlaMetGlnLeuGlnAsnLeuAlaAlaLeuAla : 267 453 bp {||}||||||||||||||||||||||||||||||||||||||| ++{ly}LeuAsnAlaMetGlnLeuGlnAsnLeuAlaAlaLeuAla 52905 : ...............ag{GG}TTAAATGCAATGCAGTTACAGAATTTGGCTGCACTAGCT : 51417 268 : AlaAlaAlaSerAlaAlaGlnAsnThrProSerGlyThrAsnAlaLeuThrThrSerSer : 287 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| AlaAlaAlaSerAlaAlaGlnAsnThrProSerGlyThrAsnAlaLeuThrThrSerSer 51416 : GCTGCAGCTAGTGCAGCTCAGAACACACCGAGTGGCACTAATGCTCTCACTACATCCAGT : 51357 288 : SerProLeuSerValLeuThrSerSer{G} >>>> Target Intron 8 >>>> { : 297 |||||||||||||||||||||||||||{|} 274 bp { SerProLeuSerValLeuThrSerSer{G}++ ++{ 51356 : AGTCCCCTCAGCGTACTCACCAGTTCA{G}gt.........................ag{ : 51052 298 : ly}SerSerProSerSerSerSerSerAsnSerValAsnProIleAlaSerLeuGlyAla : 316 ||}||||||||||||||||||||||||!.!|||||||||||||||||||||||||||||| ly}SerSerProSerSerSerSerSerThrSerValAsnProIleAlaSerLeuGlyAla 51051 : GG}TCTTCACCGAGCTCCAGCAGTAGCACCTCTGTCAACCCCATTGCCTCCTTGGGAGCC : 50996 317 : LeuGlnThrLeuAlaGlyAlaThrAlaGlyLeuAsnValGlySerLeuAla{G} >>>> : 334 |||||||||||||||||||||||||||||||||||||||.!!|||||||||{|} LeuGlnThrLeuAlaGlyAlaThrAlaGlyLeuAsnValSerSerLeuAla{G}++ 50995 : CTGCAGACATTAGCTGGAGCAACGGCAGGCCTCAACGTTAGCTCTTTGGCA{G}gt.... : 50939 335 : Target Intron 9 >>>> {ly}MetAlaAlaLeuAsnGlyGlyLeuGlySerSer : 345 816 bp {||}||||||||||||||||||||||||||||||||| ++{ly}MetAlaAlaLeuAsnGlyGlyLeuGlySerSer 50938 : .....................ag{GG}ATGGCTGCTTTAAATGGTGGCCTGGGCAGCAGT : 50093 346 : GlyLeuSerAsnGlyThrGlySerThrMetGluAlaLeuThrGlnAlaTyrSerGlyIle : 365 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlyLeuSerAsnGlyThrGlySerThrMetGluAlaLeuThrGlnAlaTyrSerGlyIle 50092 : GGCCTTTCCAATGGCACTGGGAGCACCATGGAGGCCCTCACACAGGCCTACTCGGGGATC : 50033 366 : GlnGlnTyrAlaAlaAlaAlaLeuProThrLeuTyrAsnGlnAsnLeuLeuThrGlnGln : 385 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| GlnGlnTyrAlaAlaAlaAlaLeuProThrLeuTyrAsnGlnAsnLeuLeuThrGlnGln 50032 : CAGCAATATGCTGCTGCGGCACTCCCTACCCTGTACAACCAGAATCTGTTGACACAGCAG : 49973 386 : SerIleGlyAlaAlaGlySerGlnLysGlu{G} >>>> Target Intron 10 >>> : 396 ||||||||||||||||||||||||||||||{|} 1900 bp SerIleGlyAlaAlaGlySerGlnLysGlu{G}++ 49972 : AGTATTGGTGCTGCTGGGAGCCAGAAGGAA{G}gt......................... : 49937 397 : > {ly}ProGluGlyAlaAsnLeuPheIleTyrHisLeuProGlnGluPheGlyAspGl : 414 {||}||||||||||||||||||||||||||||||||||||||||||||||||||||| ++{ly}ProGluGlyAlaAsnLeuPheIleTyrHisLeuProGlnGluPheGlyAspGl 49936 : .ag{GT}CCAGAGGGAGCCAATCTGTTCATCTACCACCTGCCCCAGGAGTTTGGAGATCA : 47986 415 : nAspLeuLeuGlnMetPheMetProPheGlyAsnValValSerAlaLysValPheIleAs : 434 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| nAspLeuLeuGlnMetPheMetProPheGlyAsnValValSerAlaLysValPheIleAs 47985 : GGACCTGCTACAGATGTTTATGCCCTTTGGGAATGTCGTGTCTGCCAAGGTTTTTATAGA : 47926 435 : pLysGlnThrAsnLeuSerLysCysPhe{G} >>>> Target Intron 11 >>>> : 444 ||||||||||||||||||||||||||||{|} 447 bp pLysGlnThrAsnLeuSerLysCysPhe{G}++ + 47925 : TAAGCAGACAAACCTGAGCAAGTGTTTT{G}gt..........................a : 47450 445 : {ly}PheValSerTyrAspAsnProValSerAlaGlnAlaAlaIleGlnSerMetAsnG : 463 {||}||||||||||||||||||||||||||||||||||||||||||||||||||||||| +{ly}PheValSerTyrAspAsnProValSerAlaGlnAlaAlaIleGlnSerMetAsnG 47449 : g{GT}TTTGTAAGTTACGACAATCCTGTTTCGGCTCAAGCTGCCATCCAGTCCATGAATG : 47392 464 : lyPheGlnIleGlyMetLysArgLeuLysValGlnLeuLysArgSerLysAsnAspSerL : 483 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| lyPheGlnIleGlyMetLysArgLeuLysValGlnLeuLysArgSerLysAsnAspSerL 47391 : GCTTTCAGATTGGCATGAAGCGGCTTAAAGTGCAGCTCAAACGTTCGAAGAATGACAGCA : 47332 484 : ysProTyr : 485 |||||||| ysProTyr 47331 : AGCCCTAC : 47324 vulgar: SPP00002921_2.0 0 485 . JSZB01022723.1:subseq(90000,90000) 88212 47323 - 2331 M 59 177 S 0 1 5 0 2 I 0 1418 3 0 2 S 1 2 M 27 81 5 0 2 I 0 345 3 0 2 M 16 48 S 0 1 5 0 2 I 0 29405 3 0 2 S 1 2 M 43 129 S 0 1 5 0 2 I 0 557 3 0 2 S 1 2 M 26 78 5 0 2 I 0 328 3 0 2 M 54 162 5 0 2 I 0 2467 3 0 2 M 25 75 S 0 1 5 0 2 I 0 1449 3 0 2 S 1 2 M 42 126 S 0 1 5 0 2 I 0 270 3 0 2 S 1 2 M 36 108 S 0 1 5 0 2 I 0 812 3 0 2 S 1 2 M 61 183 S 0 1 5 0 2 I 0 1896 3 0 2 S 1 2 M 47 141 S 0 1 5 0 2 I 0 443 3 0 2 S 1 2 M 41 123 # --- 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 # JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local gene 47324 88212 2331 - . gene_id 1 ; sequence SPP00002921_2.0 ; gene_orientation + JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 88035 88212 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 88035 88212 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 88033 88034 . - . intron_id 1 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 86613 88034 . - . intron_id 1 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 86613 86614 . - . intron_id 0 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 86530 86612 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 86530 86612 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 86528 86529 . - . intron_id 2 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 86181 86529 . - . intron_id 2 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 86181 86182 . - . intron_id 1 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 86132 86180 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 86132 86180 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 86130 86131 . - . intron_id 3 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 56723 86131 . - . intron_id 3 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 56723 56724 . - . intron_id 2 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 56591 56722 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 56591 56722 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 56589 56590 . - . intron_id 4 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 56030 56590 . - . intron_id 4 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 56030 56031 . - . intron_id 3 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 55950 56029 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 55950 56029 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 55948 55949 . - . intron_id 5 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 55618 55949 . - . intron_id 5 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 55618 55619 . - . intron_id 4 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 55456 55617 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 55456 55617 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 55454 55455 . - . intron_id 6 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 52985 55455 . - . intron_id 6 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 52985 52986 . - . intron_id 5 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 52909 52984 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 52909 52984 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 52907 52908 . - . intron_id 7 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 51456 52908 . - . intron_id 7 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 51456 51457 . - . intron_id 6 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 51327 51455 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 51327 51455 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 51325 51326 . - . intron_id 8 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 51053 51326 . - . intron_id 8 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 51053 51054 . - . intron_id 7 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 50942 51052 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 50942 51052 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 50940 50941 . - . intron_id 9 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 50126 50941 . - . intron_id 9 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 50126 50127 . - . intron_id 8 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 49940 50125 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 49940 50125 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 49938 49939 . - . intron_id 10 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 48040 49939 . - . intron_id 10 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 48040 48041 . - . intron_id 9 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 47896 48039 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 47896 48039 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice5 47894 47895 . - . intron_id 11 ; splice_site "GT" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local intron 47449 47895 . - . intron_id 11 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local splice3 47449 47450 . - . intron_id 10 ; splice_site "AG" JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local cds 47324 47448 . - . JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local exon 47324 47448 . - . insertions 0 ; deletions 0 JSZB01022723.1:subseq(90000,90000) exonerate:protein2genome:local similarity 47324 88212 2331 - . alignment_id 1 ; Query SPP00002921_2.0 ; Align 88213 1 177 ; Align 86611 61 81 ; Align 86181 88 48 ; Align 56721 105 129 ; Align 56028 149 78 ; Align 55618 175 162 ; Align 52985 229 75 ; Align 51454 255 126 ; Align 51051 298 108 ; Align 50124 335 183 ; Align 48038 397 141 ; Align 47447 445 123 # --- END OF GFF DUMP --- # -- completed exonerate analysis