Command line: [exonerate -m p2g --showtargetgff -q scly_hs.aa.fa.canviat -t genomescly_JXSJ01000121.1.fa] Hostname: [ws101183u] C4 Alignment: ------------ Query: SPP00002941_2.0 # Protein # selenocysteine lyase (SCLY) # Human Target: JXSJ01000121.1:subseq(146657,103348) Miichthys miiuy scaffold121, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1178 Query range: 38 -> 451 Target range: 53348 -> 49999 39 : LysValTyrMetAspTyrAsnAlaThrThrProLeuGluProGluValIleGlnAlaMet : 58 !:!:!!|||||||||||||||||||||||||||||||||||||||||||||:!!.!!!!: ArgIleTyrMetAspTyrAsnAlaThrThrProLeuGluProGluValIleLysThrIle 53348 : AGGATCTACATGGACTACAATGCCACGACGCCACTGGAACCAGAAGTGATCAAGACCATC : 53291 59 : ThrLysAlaMetTrpGluAlaTrpGlyAsnProSerSerProTyrSerAla{G} >>>> : 76 :!!:!!|||:!! !!:||||||||||||||||||||| !|||!!!|||{|} SerGluAlaLeuGlnAspAlaTrpGlyAsnProSerSerAsnTyrThrAla{G}++ 53290 : TCTGAAGCCCTGCAAGATGCCTGGGGAAACCCGAGTAGCAATTATACAGCA{G}gt.... : 53234 77 : Target Intron 1 >>>> {ly}ArgLysAlaLysAspIleIleAsnAlaAlaArg : 87 175 bp {||} !|||||||||! :!:|||:!! !:!!||| ++{ly}ValLysAlaLysAlaLeuIleHisGlnSerArg 53233 : .....................ag{gT}GTGAAAGCCAAAGCACTGATTCATCAGTCCAGA : 53029 88 : GluSerLeuAlaLysMetIleGlyGlyLysProGlnAspIleIlePheThrSerGlyGly : 107 |||!:!:!!|||!:!|||:!!||||||||| !!:!!|||||||||||||||||||||||| GluAsnValAlaArgMetValGlyGlyLysAlaGluAspIleIlePheThrSerGlyGly 53028 : GAGAACGTGGCGAGAATGGTTGGAGGTAAAGCAGAAGACATCATTTTCACATCTGGTGGA : 52969 108 : ThrGlu >>>> Target Intron 2 >>>> SerAsnAsnLeuValIleHisSerV : 118 |||||| 96 bp :!!||||||||||||:!!|||!!!! ThrGlu++ ++AlaAsnAsnLeuValLeuHisThrA 52968 : ACAGAGgt.........................agGCCAATAACCTGGTGCTCCACACTG : 52840 119 : alValLysHisPheHisAlaAsnGlnThrSerLysGlyHisThrGlyGlyHisHisSerP : 138 .!|||:!!||||||... !||| ! !:!! !! !!!. !! !||||||!!.!:! laValGluHisPheArgArgAsnCysArgAlaAlaGluGlnGlyGluGlyHisGlnAsnG 52839 : CCGTAGAGCACTTCAGGAGGAACTGCAGGGCTGCAGAGCAAGGTGAAGGGCACCAGAATG : 52780 139 : roValLysGlyAlaLysProHisPheIleThrSerSerValGluHisAspSerIleArgL : 158 ! !..! !::! ||||||.!!||||||!!!!:!|||||||||||||||:!!!:!| ly---SerAspSerLeuProHisIleIleThrCysAsnValGluHisAspSerValLysL 52779 : GA---AGCGACAGCCTTCCTCACATTATCACCTGTAATGTGGAACATGACTCGGTCAAAC : 52723 159 : euProLeuGluHisLeuValGluGluGlnValAla{A} >>>> Target Intron 3 : 170 || ! !|||!!.||| !:!!!!: !|||{!} 87 bp euValAlaGluGlnLeuGlnLysAspGlyLysAla{A}++ 52722 : TAGTAGCTGAGCAGCTACAGAAAGATGGCAAAGCA{G}gt.................... : 52684 171 : >>>> {la}ValThrPheValProValSerLysValSerGlyGlnAlaGluValAspA : 187 { !}|||||||||||| !!||||||||||||!!!!.!:::...||||||:::| ++{sp}ValThrPheValSerValSerLysValThrAlaArgValGluValGluA 52683 : .....ag{AT}GTGACATTTGTGTCCGTGTCTAAGGTGACGGCTcgtgtggaggtggagg : 52549 188 : spIleLeuAlaAlaValArgProThrThrArgLeuValThrIleMetLeuAlaAsnAsnG : 207 ||::!:!!|||||||||||||||!.!||| !!|||:!!:!!||||||||||||||||||| spValIleAlaAlaValArgProAsnThrCysLeuIleSerIleMetLeuAlaAsnAsnG 52548 : acgtCATTGCTGCGGTGCGTCCCAACACTTGTCTCATCTCTATCATGCTGGCCAACAATG : 52489 208 : luThrGlyIleValMet >>>> Target Intron 4 >>>> ProValProGluIl : 217 ||||||||:!!:!!||| 965 bp ||||||! !||||| luThrGlyValIleMet++ ++ProValGlnGluIl 52488 : AGACAGGAGTCATCATGgt.........................agCCGGTCCAAGAGAT : 51494 218 : eSerGlnArgIleLysAlaLeuAsnGlnGluArgValAlaAlaGlyLeuProProIleLe : 237 |!!!||||||||||||:!!||||||:!!:!!|||! ! ! ! !||||| eCysGlnArgIleLysSerLeuAsnLysGlnArgGluGlnLeu---------ArgIleLe 51493 : CTGTCAGAGGATAAAATCTCTCAACAAGCAGCGCGAGCAGCTC---------AGGATCCT : 51443 238 : uValHisThrAspAlaAlaGlnAlaLeuGlyLysGlnArgValAspValGluAspLeuGl : 257 |:!!|||||||||||||||||||||||||||||| |||||||||!.! !!:||||| uLeuHisThrAspAlaAlaGlnAlaLeuGlyLysIleArgValAspAlaCysGluLeuGl 51442 : GCTCCACACTGATGCTGCCCAGGCTCTGGGGAAAATCCGCGTAGATGCCTGTGAGCTGGG : 51383 258 : yValAspPheLeuThrIleValGlyHisLys >>>> Target Intron 5 >>>> : 268 |||||||!:!||||||||||||||||||||| 89 bp yValAspTyrLeuThrIleValGlyHisLys++ ++ 51382 : AGTGGATTACCTCACCATAGTGGGGCACAAGgt.........................ag : 51263 269 : PheTyrGlyProArgIleGlyAlaLeuTyrIleArgGlyLeuGlyGluPheThrProLeu : 287 ||||||!.!||||||||||||:!!||||||:!:!.!|||! !||| ! ||||||||| PheTyrAlaProArgIleGlySerLeuTyrValAsnGlyProGlyThrGlyThrProLeu 51262 : TTCTATGCCCCTCGCATTGGTTCTTTGTATGTGAACGGCCCTGGGACGGGAACACCATTG : 51204 288 : TyrProMetLeuPheGlyGlyGlyGlnGluArgAsnPheArgPro{Gl} >>>> Targ : 303 |||||||||||||||||||||||||||||||||||||||||||||{||} TyrProMetLeuPheGlyGlyGlyGlnGluArgAsnPheArgPro{Gl}++ 51203 : TATCCAATGCTGTttggaggaggacaggagagaaACTTCAGGCCG{GG}gt......... : 51152 304 : et Intron 6 >>>> {y}ThrGluAsnThrProMetIleAlaGlyLeuGlyLys > : 316 119 bp {|}|||||||||||||||||||||||||||||||||||| ++{y}ThrGluAsnThrProMetIleAlaGlyLeuGlyLys++ 51151 : ................ag{c}acagaaaacacaccaaTGATTGCTGGTTTAGGAAAGgt. : 50996 317 : >>> Target Intron 7 >>>> AlaAlaGluLeuValThrGlnAsnCysGluAlaT : 327 216 bp ||||||||||||||||||...|||! ..!! !| ++AlaAlaGluLeuValThrSerAsnLeuSerAspT 50995 : ........................agGCTGCAGAGCTGGTGACCTCTAACTTGTCAGATT : 50749 328 : yrGluAlaHisMetArgAspValArgAspTyrLeuGluGluArgLeuGlu >>>> Tar : 344 |||||::!|||||||||..!..!!:! !||||||||||||||||||:!! yrGluSerHisMetArgSerThrLysLeuTyrLeuGluGluArgLeuLys++ 50748 : ATGAGAGTCACATGCGAAGCACCAAACTTTACTTGGAAGAACGACTGAAGgt........ : 50696 345 : get Intron 8 >>>> AlaGluPheGlyGlnLysArgIleHisLeuAsnSerGlnPh : 357 137 bp !.!! ||| !.!.||| ||||||!!!||||||!!.!: ++ValValPheLysAspLys---IleHisPheAsnSerHisTy 50695 : .................agGTCGTCTTTAAAGACAAG---ATTCACTTCAACAGCCATTA : 50525 358 : eProGlyThrGlnArgLeuProAsnThrCysAsnPheSerIleArgGlyProArgLeuGl : 377 !||||||:!!.!.! !|||||||||||||||||| ! ||||||! !||||||! !||||| rProGlySerAspMetLeuProAsnThrCysAsnValSerIleLeuGlyProThrLeuGl 50524 : CCCAGGCTCCGATATGCTCCCTAACACATGTAATGTGTCCATCCTGGGCCCAACATTACA : 50465 378 : n{G} >>>> Target Intron 9 >>>> {ly}HisValValLeuAlaGlnCysAr : 386 |{|} 171 bp {||} !||||||:!!.!.|||! n{G}++ ++{ly}TrpArgValLeuSerAsnCysTh 50464 : A{G}gt.........................ag{GC}TGGAGGGTATTGTCCAACTGTAC : 50267 387 : gValLeuMetAlaSerValGlyAlaAlaCysHisSerAspHisGlyAsp{Gl} >>>> : 403 ! !|||:!!||||||||||||||||||||||||||| |||:!!{::} rArgLeuLeuAlaSerValGlyAlaAlaCysHisSer------GlyAsn{Ar}++ 50266 : AAGGCTGCTGGCCAGTGTTGGCGCCGCTTGCCACAGT------GGAAAC{AG}gt..... : 50218 404 : Target Intron 10 >>>> {n}ProSerProValLeuLeuSerTyrGlyValProP : 415 76 bp {!}||||||! !:!!|||||||||! !|||||||||! ++{g}ProSerHisIleLeuLeuSerCysGlyValProS 50217 : .....................ag{G}CCTTCCCATATCCTCCTGAGCTGCGGCGTTCCCT : 50110 416 : heAspValAlaArgAsnAlaLeuArgLeuSerValGlyArgSerThrThrArgAlaGluV : 435 ! ! |||||| !|||||||||||||||||||||||||||.!!||||||!:!|||!!:| erLysValAlaAlaAsnAlaLeuArgLeuSerValGlyArgGlyThrThrLysAlaAspV 50109 : CCAAGGTGGCAGCTAATGCCTTGAGGCTGAGCGTGGGCAGAGGGACGACCAAAGCAGATG : 50050 436 : alAspLeuValValGlnAspLeuLysGlnAlaValAlaGlnLeuGluAsp : 451 ||||| !||||||:!!||||||!:!:!!|||||| !!:!||||||!!: alAspAlaValValGluAspLeuArgGluAlaValLysArgLeuGluGlu 50049 : TGGACGCAGTCGTGGAGGACCTGAGGGAAGCTGTGAAACGGTTGGAAGAA : 50000 vulgar: SPP00002941_2.0 38 451 . JXSJ01000121.1:subseq(146657,103348) 53348 49999 - 1178 M 37 111 S 0 1 5 0 2 I 0 171 3 0 2 S 1 2 M 33 99 5 0 2 I 0 92 3 0 2 M 29 87 G 1 0 M 30 90 S 0 1 5 0 2 I 0 83 3 0 2 S 1 2 M 42 126 5 0 2 I 0 961 3 0 2 M 19 57 G 3 0 M 33 99 5 0 2 I 0 85 3 0 2 M 35 105 S 0 2 5 0 2 I 0 115 3 0 2 S 1 1 M 12 36 5 0 2 I 0 212 3 0 2 M 28 84 5 0 2 I 0 133 3 0 2 M 6 18 G 1 0 M 27 81 S 0 1 5 0 2 I 0 167 3 0 2 S 1 2 M 20 60 G 2 0 M 2 6 S 0 2 5 0 2 I 0 72 3 0 2 S 1 1 M 48 144 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-29 ##type DNA # # # seqname source feature start end score strand frame attributes # JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local gene 50000 53348 1178 - . gene_id 1 ; sequence SPP00002941_2.0 ; gene_orientation + JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 53237 53348 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 53237 53348 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 53235 53236 . - . intron_id 1 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 53062 53236 . - . intron_id 1 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 53062 53063 . - . intron_id 0 ; splice_site "ag" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 52961 53061 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 52961 53061 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 52959 52960 . - . intron_id 2 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 52865 52960 . - . intron_id 2 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 52865 52866 . - . intron_id 1 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 52687 52864 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 52687 52864 . - . insertions 0 ; deletions 1 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 52685 52686 . - . intron_id 3 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 52600 52686 . - . intron_id 3 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 52600 52601 . - . intron_id 2 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 52472 52599 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 52472 52599 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 52470 52471 . - . intron_id 4 ; splice_site "gt" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 51507 52471 . - . intron_id 4 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 51507 51508 . - . intron_id 3 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 51351 51506 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 51351 51506 . - . insertions 0 ; deletions 3 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 51349 51350 . - . intron_id 5 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 51262 51350 . - . intron_id 5 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 51262 51263 . - . intron_id 4 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 51155 51261 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 51155 51261 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 51153 51154 . - . intron_id 6 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 51036 51154 . - . intron_id 6 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 51036 51037 . - . intron_id 5 ; splice_site "ag" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 50999 51035 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 50999 51035 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 50997 50998 . - . intron_id 7 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 50783 50998 . - . intron_id 7 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 50783 50784 . - . intron_id 6 ; splice_site "ag" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 50699 50782 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 50699 50782 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 50697 50698 . - . intron_id 8 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 50562 50698 . - . intron_id 8 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 50562 50563 . - . intron_id 7 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 50462 50561 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 50462 50561 . - . insertions 0 ; deletions 1 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 50460 50461 . - . intron_id 9 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 50291 50461 . - . intron_id 9 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 50291 50292 . - . intron_id 8 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 50221 50290 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 50221 50290 . - . insertions 0 ; deletions 2 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice5 50219 50220 . - . intron_id 10 ; splice_site "GT" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local intron 50145 50220 . - . intron_id 10 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local splice3 50145 50146 . - . intron_id 9 ; splice_site "AG" JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local cds 50000 50144 . - . JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local exon 50000 50144 . - . insertions 0 ; deletions 0 JXSJ01000121.1:subseq(146657,103348) exonerate:protein2genome:local similarity 50000 53348 1178 - . alignment_id 1 ; Query SPP00002941_2.0 ; Align 53349 39 111 ; Align 53060 77 99 ; Align 52865 110 87 ; Align 52778 140 90 ; Align 52598 171 126 ; Align 51507 213 57 ; Align 51450 235 99 ; Align 51262 268 105 ; Align 51035 304 36 ; Align 50783 316 84 ; Align 50562 344 18 ; Align 50544 351 81 ; Align 50289 379 60 ; Align 50229 401 6 ; Align 50144 404 144 # --- END OF GFF DUMP --- # -- completed exonerate analysis