Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q ../SelU2-human.fa -t SelU2-NIVO01069066.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000027_1.0 # Protein # Selenoprotein U2 (SelU2) # Homo sapiens # Complete Target: NIVO01069066.1 Ammotragus lervia isolate NAZ scaffold90_len315485_cov69, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1042 Query range: 2 -> 226 Target range: 35255 -> 23477 3 : AlaProAlaProValThrArgGlnValSerGlyAlaAlaAlaLeuValProAlaProSer : 22 :!! !||||||||||||||||||||||||||| !||||||! !!.!|||!.!|||||| SerGluAlaProValThrArgGlnValSerGlyHisAlaAlaProAlaProValProSer 35255 : TCCGAGGCCCCGGTCACGCGGCAGGTCAGCGGTCACGCCGCCCCAGCCCCAGTCCCAAGC : 35198 23 : GlyProAspSerGlyGlnProLeuAlaAlaAlaValAlaGluLeuProValLeuAspAla : 42 ||||||! ||| !!||||||||||||||||||||||||||||||||||||||||||||| GlyProAlaSerTrpGlnProLeuAlaAlaAlaValAlaGluLeuProValLeuAspAla 35197 : GGCCCCGCGAGCTGGCAGCCCCTGGCCGCCGCCGTGGCCGAGCTGCCTGTGCTGGACGCC : 35138 43 : ArgGlyGlnArgValProPheGlyAlaLeuPheArgGluArgArgAlaValValValPhe : 62 !|||::!! !||||||||||||! !|||||||||||||||||||||:!!||||||||| SerGlyArgProValProPheGlyGluLeuPheArgGluArgArgAlaIleValValPhe 35137 : TCCGGGAGGCCTGTGCCGTTTGGTGAGCTGTTCCGAGAGCGCCGGGCTATCGTGGTCTTC : 35078 63 : ValArg >>>> Target Intron 1 >>>> HisPheLeuCysTyrIleCysLysG : 73 |||||| 429 bp ||||||||||||||||||||||||| ValArg++ ++HisPheLeuCysTyrIleCysLysG 35077 : GTGCGGgt.........................agCATTTCCTGTGTTACATCTGCAAGG : 34616 74 : luTyrValGluAspLeuAlaLysIleProArgSerPheLeuGln >>>> Target In : 88 |||||||||||||||||||||||||||||!:!|||||||||||| 893 luTyrValGluAspLeuAlaLysIleProLysSerPheLeuGln++ 34615 : AATACGTAGAAGATCTGGCCAAAATCCCCAAGAGTTTCTTACAAgt.............. : 34569 89 : tron 2 >>>> GluAlaAsnValThrLeuIleValIleGlyGlnSerSerTyrHisHi : 103 bp ||||||||||||||||||||||||||||||||||||||||||||||| ++GluAlaAsnValThrLeuIleValIleGlyGlnSerSerTyrHisHi 34568 : ...........agGAAGCAAATGTCACTCTCATAGTGATTGGACAGTCATCCTACCATCA : 33633 104 : sIleGlu >>>> Target Intron 3 >>>> ProPheCysLysLeuThrGlyTyr : 113 ||||||| 321 bp |||||||||||||||||||||||| sIleGlu++ ++ProPheCysLysLeuThrGlyTyr 33632 : TATTGAGgt.........................agcctttctGTAAACTAACTGGGTAT : 33282 114 : SerHisGluIleTyrValAspProGluArgGluIleTyrLysArgLeuGlyMetLysArg : 133 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| SerHisGluIleTyrValAspProGluArgGluIleTyrLysArgLeuGlyMetLysArg 33281 : TCTCATGAAATCTATGTTGATCCTGAGAGAGAAATTTATAAAAGATTGGGAATGAAAAGA : 33222 134 : GlyGluGluIleAlaSerSer{G} >>>> Target Intron 4 >>>> {ly}Gln : 142 |||||||||||||||||||||{|} 3443 bp {||}||| GlyGluGluIleAlaSerSer{G}++ ++{ly}Gln 33221 : GGTGAAGAAATTGCCTCCTCA{G}gt.........................ag{GA}CAG : 29752 143 : SerProHisIleLysSerAsnLeuLeuSerGlySerLeuGlnSerLeuTrpArgAlaVal : 162 |||||||||:!!|||||||||:!!||||||||||||:!!!:!|||||||||||||||||| SerProHisValLysSerAsnIleLeuSerGlySerIleArgSerLeuTrpArgAlaVal 29751 : AGCCCCCATGTAAAATCAAATATACTCTCAGGAAGCATTCGGAGCCTGTGGAGAGCAGTA : 29692 163 : ThrGlyProLeuPheAspPheGlnGlyAspProAlaGlnGlnGlyGlyThrLeuIleLeu : 182 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ThrGlyProLeuPheAspPheGlnGlyAspProAlaGlnGlnGlyGlyThrLeuIleLeu 29691 : ACTGGCCCTCTTTTTGATTTTCAAGGAGACCCAGCTCAGCAAGGTGGAACACTCATTTTA : 29632 183 : GlyPro{G} >>>> Target Intron 5 >>>> {ly}AsnAsnIleHisPheIle : 191 ||||||{|} 6020 bp {||}|||||||||||||||||| GlyPro{G}++ ++{ly}AsnAsnIleHisPheIle 29631 : GGTCCA{G}gt.........................ag{GT}AACAACATCCATTTTATA : 23585 192 : HisArgAspArgAsnArgLeuAspHisLysProIleAsnSerValLeuGlnLeuValGly : 211 |||!.!|||||||||||||||||||||||||||||||||||||||||||||||||||||| HisHisAspArgAsnArgLeuAspHisLysProIleAsnSerValLeuGlnLeuValGly 23584 : CACCATGATAGGAATAGGTTGGATCATAAACCCATCAACTCTGTTTTACAGCTTGTAGGA : 23525 212 : ValGlnHisValAsnPheThrAsnArgProSerValIleHisVal : 226 ||||||||||||:!!||||||!:!||||||||||||||||||||| ValGlnHisValAspPheThrSerArgProSerValIleHisVal 23524 : GTTCAGCATGTGGACTTTACAAGCAGACCTTCAGTTATCCATGTG : 23478 vulgar: SPP00000027_1.0 2 226 . NIVO01069066.1 35255 23477 - 1042 M 62 186 5 0 2 I 0 425 3 0 2 M 23 69 5 0 2 I 0 889 3 0 2 M 18 54 5 0 2 I 0 317 3 0 2 M 35 105 S 0 1 5 0 2 I 0 3439 3 0 2 S 1 2 M 43 129 S 0 1 5 0 2 I 0 6016 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 2017-11-18 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01069066.1 exonerate:protein2genome:local gene 23478 35255 1042 - . gene_id 1 ; sequence SPP00000027_1.0 ; gene_orientation + NIVO01069066.1 exonerate:protein2genome:local cds 35070 35255 . - . NIVO01069066.1 exonerate:protein2genome:local exon 35070 35255 . - . insertions 0 ; deletions 0 NIVO01069066.1 exonerate:protein2genome:local splice5 35068 35069 . - . intron_id 1 ; splice_site "GT" NIVO01069066.1 exonerate:protein2genome:local intron 34641 35069 . - . intron_id 1 NIVO01069066.1 exonerate:protein2genome:local splice3 34641 34642 . - . intron_id 0 ; splice_site "AG" NIVO01069066.1 exonerate:protein2genome:local cds 34572 34640 . - . NIVO01069066.1 exonerate:protein2genome:local exon 34572 34640 . - . insertions 0 ; deletions 0 NIVO01069066.1 exonerate:protein2genome:local splice5 34570 34571 . - . intron_id 2 ; splice_site "GT" NIVO01069066.1 exonerate:protein2genome:local intron 33679 34571 . - . intron_id 2 NIVO01069066.1 exonerate:protein2genome:local splice3 33679 33680 . - . intron_id 1 ; splice_site "AG" NIVO01069066.1 exonerate:protein2genome:local cds 33625 33678 . - . NIVO01069066.1 exonerate:protein2genome:local exon 33625 33678 . - . insertions 0 ; deletions 0 NIVO01069066.1 exonerate:protein2genome:local splice5 33623 33624 . - . intron_id 3 ; splice_site "GT" NIVO01069066.1 exonerate:protein2genome:local intron 33304 33624 . - . intron_id 3 NIVO01069066.1 exonerate:protein2genome:local splice3 33304 33305 . - . intron_id 2 ; splice_site "ag" NIVO01069066.1 exonerate:protein2genome:local cds 33198 33303 . - . NIVO01069066.1 exonerate:protein2genome:local exon 33198 33303 . - . insertions 0 ; deletions 0 NIVO01069066.1 exonerate:protein2genome:local splice5 33196 33197 . - . intron_id 4 ; splice_site "GT" NIVO01069066.1 exonerate:protein2genome:local intron 29755 33197 . - . intron_id 4 NIVO01069066.1 exonerate:protein2genome:local splice3 29755 29756 . - . intron_id 3 ; splice_site "AG" NIVO01069066.1 exonerate:protein2genome:local cds 29623 29754 . - . NIVO01069066.1 exonerate:protein2genome:local exon 29623 29754 . - . insertions 0 ; deletions 0 NIVO01069066.1 exonerate:protein2genome:local splice5 29621 29622 . - . intron_id 5 ; splice_site "GT" NIVO01069066.1 exonerate:protein2genome:local intron 23603 29622 . - . intron_id 5 NIVO01069066.1 exonerate:protein2genome:local splice3 23603 23604 . - . intron_id 4 ; splice_site "AG" NIVO01069066.1 exonerate:protein2genome:local cds 23478 23602 . - . NIVO01069066.1 exonerate:protein2genome:local exon 23478 23602 . - . insertions 0 ; deletions 0 NIVO01069066.1 exonerate:protein2genome:local similarity 23478 35255 1042 - . alignment_id 1 ; Query SPP00000027_1.0 ; Align 35256 3 186 ; Align 34641 65 69 ; Align 33679 88 54 ; Align 33304 106 105 ; Align 29753 142 129 ; Align 23601 186 123 # --- END OF GFF DUMP --- # -- completed exonerate analysis