Command line: [exonerate -m p2g --showtargetgff -q SELENOI.fa.txt -t SELENOI.subseq.txt] Hostname: [ws116044u] C4 Alignment: ------------ Query: SPP00000074_2.0 # Protein # Selenoprotein I (SELENOI) # Human Target: JSZB01006584.1:subseq(0,81917) Manis javanica isolate MP_PG03-UM SCAFFOLD7553, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1936 Query range: 0 -> 397 Target range: 72380 -> 33789 1 : MetAlaGlyTyrGluTyrValSerProGluGlnLeuAlaGlyPheAspLysTyrLys > : 20 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| MetAlaGlyTyrGluTyrValSerProGluGlnLeuAlaGlyPheAspLysTyrLys++ 72380 : ATGGCTGGTTACGAATACGTGAGCCCGGAGCAGCTGGCTGGTTTTGATAAGTACAAGgt. : 72321 21 : >>> Target Intron 1 >>>> TyrSerAlaValAspThrAsnProLeuSerLeuT : 31 17473 bp |||||||||:!!|||||||||||||||||||||| ++TyrSerAlaLeuAspThrAsnProLeuSerLeuT 72320 : ........................agTATAGTGCTCTGGACACTAATCCACTGTCTCTGT : 54817 32 : yrValMetHisProPheTrpAsnThrIleValLys >>>> Target Intron 2 >> : 43 |||||||||||||||||||||||!:!||||||||| 450 bp yrValMetHisProPheTrpAsnSerIleValLys++ 54816 : ATGTCATGCATCCATTTTGGAACAGTATAGTAAAGgt....................... : 54779 44 : >> ValPheProThrTrpLeuAlaProAsnLeuIleThrPheSerGlyPheLeuLeuVa : 61 |||||||||||||||||||||||||||||||||||||||||||||||||||||||| ++ValPheProThrTrpLeuAlaProAsnLeuIleThrPheSerGlyPheLeuLeuVa 54778 : ..aggtgtttcCTACTTGGCTGGCTCCAAATCTGATAACCTTTTCTGGCTTTCTGCTGGT : 54277 62 : lValPheAsnPheLeuLeuMetAlaTyrPheAspProAspPheTyrAlaSer{A} >>> : 79 ||||||||||||||||||||||||||||||||||||||||||||||||||||{|} lValPheAsnPheLeuLeuMetAlaTyrPheAspProAspPheTyrAlaSer{A}++ 54276 : TGTATTCAATTTCCTACTTATGGCATACTTTGATCCTGACTTTTATGCTTCA{G}gt... : 54220 80 : > Target Intron 3 >>>> {la}ProGlyHisLysHisValProAspTrpValTr : 90 2169 bp {||}|||||||||||||||||||||||||||||||| ++{la}ProGlyHisLysHisValProAspTrpValTr 54219 : ......................ag{CA}CCAGGTCACAAGCATGTACCTGATTGGGTTTG : 52021 91 : pIleValValGlyIleLeuAsnPheValAlaTyrThrLeu{A} >>>> Target Int : 104 ||||:!!||||||||||||||||||..!||||||||||||{|} 3014 b pIleIleValGlyIleLeuAsnPheThrAlaTyrThrLeu{A}++ 52020 : GATCATAGTGGGCATCCTCAACTTCACAGCCTATACTCTA{G}gt............... : 51976 105 : ron 4 >>>> {sp}GlyValAspGlyLysGlnAlaArgArgThrAsnSerSerThrPr : 119 p {||}|||||||||||||||||||||||||||||||||||||||||||| ++{sp}GlyValAspGlyLysGlnAlaArgArgThrAsnSerSerThrPr 51975 : ..........ag{AT}GGTGTGGATGGAAAGCAAGCCCGGAGAACCAATTCCAGCACCCC : 48920 120 : oLeuGlyGluLeuPheAspHisGlyLeuAspSerTrpSerCysValTyrPheValValTh : 139 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| oLeuGlyGluLeuPheAspHisGlyLeuAspSerTrpSerCysValTyrPheValValTh 48919 : CTTAGGGGAGCTTTTTGACCATGGCCTGGATAGTTGGTCATGTGTTTACTTTGTTGTAAC : 48860 140 : rValTyrSerIlePheGlyArgGlySerThrGlyValSerValPheValLeuTyrLeuLe : 159 ||||||||||||||||||||||||| !!:!!||||||||||||||||||||||||||||| rValTyrSerIlePheGlyArgGlyProSerGlyValSerValPheValLeuTyrLeuLe 48859 : TGTGTATTCCATCTTTGGACGAGGACCATCTGGTGTCAgtgtttttgttctttatctcCT : 48800 160 : uLeuTrpValValLeuPheSerPheIleLeuSerHisTrpGluLysTyrAsnThrGlyIl : 179 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| uLeuTrpValValLeuPheSerPheIleLeuSerHisTrpGluLysTyrAsnThrGlyIl 48799 : GCTATgggtagttttgttttctttcatcctgTCTCACTGGGAAAAGTATAACACAGGGAT : 48740 180 : eLeuPheLeuProTrpGlyTyrAspIleSerGlnVal >>>> Target Intron 5 : 192 ||||||||||||||||||||||||||||||||||||| 946 bp eLeuPheLeuProTrpGlyTyrAspIleSerGlnVal++ 48739 : TCTTTTCCTGCCATGGGGATATGACATTAGCCAAGTGgt..................... : 48699 193 : >>>> ThrIleSerPheValTyrIleValThrAlaValValGlyValGluAlaTrpTyr : 209 |||||||||.!!|||||||||||||||:!!:!!||||||||||||||||||||| ++ThrIleSerLeuValTyrIleValThrSerIleValGlyValGluAlaTrpTyr 48698 : ....agACTATTTCTCTTGTCTACATAGTGACTTCGATTGTGGGAGTTGAGGCCTGGTAT : 47704 210 : GluProPheLeuPheAsnPheLeuTyrArgAspLeuPheThrAlaMetIleIle{G} > : 228 ||||||||||||||||||||||||||||||||||||||||||||||||||||||{|} GluProPheLeuPheAsnPheLeuTyrArgAspLeuPheThrAlaMetIleIle{G}++ 47703 : GAACctttcctgtttaatttcttaTATAGAGACCTATTCACTGCAATGATTATT{G}gt. : 47644 229 : >>> Target Intron 6 >>>> {ly}CysAlaLeuCysValThrLeuProMetSer : 238 7437 bp {||}|||||||||||||||||||||||||||||| ++{ly}CysAlaLeuCysValThrLeuProMetSer 47643 : ........................ag{GT}TGTGCATTATGTGTGACTCTTCCAATGAGT : 40180 239 : LeuLeuAsnPhePhe{Ar} >>>> Target Intron 7 >>>> {g}SerTyrLys : 247 |||||||||||||||{||} 1530 bp {|}||||||||| LeuLeuAsnPhePhe{Ar}++ ++{g}SerTyrLys 40179 : TTATTAAACTTTTTC{Ag}gt.........................ag{a}agctaTAAA : 38623 248 : AsnAsnThrLeuLysLeuAsnSerValTyrGluAlaMetValProLeuPheSerProCys : 267 |||||||||||||||! !!:!||||||||||||||||||||||||!!!|||||||||||| AsnAsnThrLeuLysHisSerSerValTyrGluAlaMetValProPhePheSerProCys 38622 : AATAACACCTTGAAACACAGTTCAGTCTATGAAGCTATGGTTCCCTTCTTTTCTCCATGT : 38563 268 : LeuLeuPheIleLeuSerThrAlaTrpIleLeuTrpSerProSerAspIleLeuGluLeu : 287 ||||||||||||||||||||||||||||||||| !|||||||||:!!|||||||||:!! LeuLeuPheIleLeuSerThrAlaTrpIleLeuGlnSerProSerAsnIleLeuGluIle 38562 : TTGCTATTCATTTTGTCTACAGCATGGATCCTCCAGTCACCTTCAAATATTTTAGAGATA : 38503 288 : HisProArgValPheTyrPheMetValGlyThrAlaPheAlaAsnSerThr >>>> Ta : 305 ||||||||||||||||||||||||||||||||||||||||||||||||||| HisProArgValPheTyrPheMetValGlyThrAlaPheAlaAsnSerThr++ 38502 : CATCCTAGAGTATTCTACTTCATGGTTGGAACAGCTTTTGCCAACAGcacagt....... : 38447 306 : rget Intron 8 >>>> CysGlnLeuIleValCysGlnMetSerSerThrArgCysP : 318 1179 bp |||||||||||||||||||||||||||||||||||||||| ++CysGlnLeuIleValCysGlnMetSerSerThrArgCysP 38446 : ..................agTGTCAACTGATTGTTTGTCAAATGAGCAGTACCCGGTGCC : 37231 319 : roThrLeuAsnTrpLeuLeuValProLeuPheLeuValValLeuValValAsnLeuGlyV : 338 |||||||||||||||||||||||||||||||||||||||||:!!|||||||||||||||| roThrLeuAsnTrpLeuLeuValProLeuPheLeuValValValValValAsnLeuGlyV 37230 : CAACTTTGAACTGGTTGCTGGTTCCTCTCTTCTTGGTTGTCGTGGTGGTAAACTTAGGAG : 37171 339 : alAlaSerTyrValGluSerIleLeuLeuTyrThrLeuThrThrAlaPheThrLeuAlaH : 358 |||||||| !!:!!|||||||||||||||||||||||||||||||||||||||||||||| alAlaSerAsnLeuGluSerIleLeuLeuTyrThrLeuThrThrAlaPheThrLeuAlaH 37170 : TAGCCTCTAACCTTGAGAGCATTCTCCTCTATACGTTAACAACTGCTTTCACTCTGGCCC : 37111 359 : isIleHisTyrGlyValArgVal >>>> Target Intron 9 >>>> ValLysGl : 368 ||:!!|||||||||||||||||| 3202 bp |||||||| isValHisTyrGlyValArgVal++ ++ValLysGl 37110 : ATGTCCATTATGGAGTGCGAGTGgt.........................agGTAAAGCA : 33879 369 : nLeuSerSerHisPheGlnIleTyrProPheSerLeuArgLysProAsnSerAspUnkLe : 388 ||||||||||||||||||||||||||||||||||||||||||||||||||||||| || nLeuSerSerHisPheGlnIleTyrProPheSerLeuArgLysProAsnSerAsp***Le 33878 : GCTGAGCAGCCATTTTCAGATTTACCCCTTCTCATTGAGGAAACCAAACTCAGATTGAct : 33819 389 : uGlyMetGluGluLysAsnIleGlyLeu : 397 |||||||||||||||||||||||||||| uGlyMetGluGluLysAsnIleGlyLeu 33818 : aggaatggaagaaaagaatattGGCCTG : 33790 vulgar: SPP00000074_2.0 0 397 . JSZB01006584.1:subseq(0,81917) 72380 33789 - 1936 M 19 57 5 0 2 I 0 17469 3 0 2 M 23 69 5 0 2 I 0 446 3 0 2 M 36 108 S 0 1 5 0 2 I 0 2165 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 3010 3 0 2 S 1 2 M 87 261 5 0 2 I 0 942 3 0 2 M 36 108 S 0 1 5 0 2 I 0 7433 3 0 2 S 1 2 M 15 45 S 0 2 5 0 2 I 0 1526 3 0 2 S 1 1 M 60 180 5 0 2 I 0 1175 3 0 2 M 61 183 5 0 2 I 0 3198 3 0 2 M 32 96 # --- 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 # JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local gene 33790 72380 1936 - . gene_id 1 ; sequence SPP00000074_2.0 ; gene_orientation + JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 72324 72380 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 72324 72380 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 72322 72323 . - . intron_id 1 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 54851 72323 . - . intron_id 1 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 54851 54852 . - . intron_id 0 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 54782 54850 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 54782 54850 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 54780 54781 . - . intron_id 2 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 54332 54781 . - . intron_id 2 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 54332 54333 . - . intron_id 1 ; splice_site "ag" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 54223 54331 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 54223 54331 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 54221 54222 . - . intron_id 3 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 52054 54222 . - . intron_id 3 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 52054 52055 . - . intron_id 2 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 51979 52053 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 51979 52053 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 51977 51978 . - . intron_id 4 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 48965 51978 . - . intron_id 4 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 48965 48966 . - . intron_id 3 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 48702 48964 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 48702 48964 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 48700 48701 . - . intron_id 5 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 47756 48701 . - . intron_id 5 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 47756 47757 . - . intron_id 4 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 47647 47755 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 47647 47755 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 47645 47646 . - . intron_id 6 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 40210 47646 . - . intron_id 6 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 40210 40211 . - . intron_id 5 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 40161 40209 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 40161 40209 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 40159 40160 . - . intron_id 7 ; splice_site "gt" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 38631 40160 . - . intron_id 7 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 38631 38632 . - . intron_id 6 ; splice_site "ag" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 38450 38630 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 38450 38630 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 38448 38449 . - . intron_id 8 ; splice_site "gt" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 37271 38449 . - . intron_id 8 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 37271 37272 . - . intron_id 7 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 37088 37270 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 37088 37270 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice5 37086 37087 . - . intron_id 9 ; splice_site "GT" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local intron 33886 37087 . - . intron_id 9 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local splice3 33886 33887 . - . intron_id 8 ; splice_site "AG" JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local cds 33790 33885 . - . JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local exon 33790 33885 . - . insertions 0 ; deletions 0 JSZB01006584.1:subseq(0,81917) exonerate:protein2genome:local similarity 33790 72380 1936 - . alignment_id 1 ; Query SPP00000074_2.0 ; Align 72381 1 57 ; Align 54851 20 69 ; Align 54332 43 108 ; Align 52052 80 72 ; Align 48963 105 261 ; Align 47756 192 108 ; Align 40208 229 45 ; Align 38630 245 180 ; Align 37271 305 183 ; Align 33886 366 96 # --- END OF GFF DUMP --- # -- completed exonerate analysis