Command line: [exonerate --exhaustive yes -m p2g --showtargetgff -q ../GPx3-human.fa -t GPx3-NIVO01038251.1.subseq] Hostname: [sitdoc] C4 Alignment: ------------ Query: SPP00000006_1.0 # Protein # Glutathione peroxidase 3 (GPx3) # Homo sapiens # Complete Target: NIVO01038251.1:subseq(1111464,102664) Ammotragus lervia isolate NAZ scaffold4054_len2014621_cov72, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 1047 Query range: 0 -> 226 Target range: 57255 -> 49999 1 : MetAlaArgLeuLeuGlnAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheValSer : 20 |||||||||||||||!:!||||||||||||||||||||||||||||||||||||:!! !! MetAlaArgLeuLeuArgAlaSerCysLeuLeuSerLeuLeuLeuAlaGlyPheIlePro 57255 : ATGGCCCGGCTCCTCCGGGCatcctgccttctctccctgctCCTGGCCGGCTTCATTCCC : 57198 21 : GlnSerArgGlyGlnGluLysSerLys >>>> Target Intron 1 >>>> MetA : 31 ! !|||!:!|||||||||||||||||| 4507 bp ! !| ProSerGlnGlyGlnGluLysSerLys++ ++ThrA 57197 : CCGAGCCAGGGACAGGAGAAGTCGAAGgt.........................agACGG : 52658 32 : spCysHisGlyGlyIleSerGlyThrIleTyrGluTyrGlyAlaLeuThrIleAspGlyG : 51 ||||||||!.!|||:!:.!!|||||||||||||||||||||||||||||||||||||||| spCysHisAlaGlyValGlyGlyThrIleTyrGluTyrGlyAlaLeuThrIleAspGlyG 52657 : ACTGCCATGCTGGTGTGGGCGGCACCATCTATGAGTACGGGGCCCTCACCATCGATGGGG : 52598 52 : luGluTyrIleProPheLysGlnTyrAlaGlyLysTyrValLeuPheValAsnValAlaS : 71 ||||||||||||||||||||!:!|||||||||||||||:!!||||||||||||||||||| luGluTyrIleProPheLysArgTyrAlaGlyLysTyrIleLeuPheValAsnValAlaS 52597 : AGGAGTACATTCCCTTTAAGCGGTATGCTGGCAAATACATCCTCTTCGTCAACGTGGCCA : 52538 72 : erTyrUnkGlyLeuThrGlyGlnTyrIle{G} >>>> Target Intron 2 >>>> : 81 ||||| ||||||||||||||||||:!!{|} 1209 bp erTyr***GlyLeuThrGlyGlnTyrVal{G}++ + 52537 : GCTACTGAGGCCTGACGGGCCAGTATGTT{G}gt.........................a : 51300 82 : {lu}LeuAsnAlaLeuGlnGluGluLeuAlaProPheGlyLeuValIleLeuGlyPheP : 100 {||}||||||||||||||||||||||||! !|||||||||||||||||||||||||||| +{lu}LeuAsnAlaLeuGlnGluGluLeuGluProPheGlyLeuValIleLeuGlyPheP 51299 : g{AA}CTGAATGCACTGCAGGAAGAGCTTGAACCATTCGGTCTGGTCATTCTGGGCTTCC : 51242 101 : roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuProThrLeu{ : 120 |||||||||||||||||||||||||||||||||||||||||||||||||| !!||||||{ roCysAsnGlnPheGlyLysGlnGluProGlyGluAsnSerGluIleLeuAlaThrLeu{ 51241 : CCTGCAACCAATTTGGAAAACAAGAACCAGGAGAGAACTCGGAGATCCTAGCCACCCTC{ : 51182 121 : Ly} >>>> Target Intron 3 >>>> {s}TyrValArgProGlyGlyGlyPheV : 129 ||} 440 bp {|}||||||||||||||||||||||||. Ly}++ ++{s}TyrValArgProGlyGlyGlyPheT 51181 : AA}gt.........................ag{G}TATGTTCGACCGGGTGGGGGCTTCA : 50715 130 : alProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT : 149 .!|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| hrProAsnPheGlnLeuPheGluLysGlyAspValAsnGlyGluLysGluGlnLysPheT 50714 : CCCCCAACTTCCAGCTGTTTGAGAAAGGCGATGTGAACGGGGAGAAAGAGCAGAAGTTCT : 50655 150 : yrThrPheLeuLys >>>> Target Intron 4 >>>> AsnSerCysProProTh : 159 |||||||||||||| 422 bp ||||||||||||||||| yrThrPheLeuLys++ ++AsnSerCysProProTh 50654 : ACACATTCCTGAAGgt.........................agAACTCCTGTCCTCCTAC : 50203 160 : rSerGluLeuLeuGlyThrSerAspArgLeuPheTrpGluProMetLysValHisAspIl : 179 ||||||||||||||||:!! !!! !||||||||||||||||||||||||||||||||||| rSerGluLeuLeuGlySerProGlyArgLeuPheTrpGluProMetLysValHisAspIl 50202 : CTCGGAGCTCCTAGGCTCACCCGGCCGCCTTTTCTGGGAACCCATGAAGGTCCATGACAT : 50143 180 : eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyIleProIleMetArgTrpHi : 199 ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||:! eArgTrpAsnPheGluLysPheLeuValGlyProAspGlyIleProIleMetArgTrpTy 50142 : CCGGTGGAACTTTGAGAAGTTCCTGGTGGGGCCAGACGGCATCCCCATCATGCGCTGGTA : 50083 200 : sHisArgThrThrValSerAsnValLysMetAspIleLeuSerTyrMetArgArgGlnAl : 219 !|||||||||||||||!:!::!||||||||||||||||||!!!||||||||||||!:!|| rHisArgThrThrValAsnSerValLysMetAspIleLeuThrTyrMetArgArgArgAl 50082 : CCACCGCACCACGGTCAACTCTGTCAAGATGGATATCCTGACCTACATGCGGCGGCGGGC : 50023 220 : aAlaLeuGlyValLysArgLys : 226 |!.!|||! !!.!||| !!||| aValLeuGluAlaLysGlyLys 50022 : AGTCCTGGAGGCCAAGGGGAAG : 50000 vulgar: SPP00000006_1.0 0 226 . NIVO01038251.1:subseq(1111464,102664) 57255 49999 - 1047 M 29 87 5 0 2 I 0 4503 3 0 2 M 51 153 S 0 1 5 0 2 I 0 1205 3 0 2 S 1 2 M 38 114 S 0 2 5 0 2 I 0 436 3 0 2 S 1 1 M 33 99 5 0 2 I 0 418 3 0 2 M 73 219 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2017-11-17 ##type DNA # # # seqname source feature start end score strand frame attributes # NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local gene 50000 57255 1047 - . gene_id 1 ; sequence SPP00000006_1.0 ; gene_orientation + NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local cds 57169 57255 . - . NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local exon 57169 57255 . - . insertions 0 ; deletions 0 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice5 57167 57168 . - . intron_id 1 ; splice_site "GT" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local intron 52662 57168 . - . intron_id 1 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice3 52662 52663 . - . intron_id 0 ; splice_site "AG" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local cds 52508 52661 . - . NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local exon 52508 52661 . - . insertions 0 ; deletions 0 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice5 52506 52507 . - . intron_id 2 ; splice_site "GT" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local intron 51299 52507 . - . intron_id 2 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice3 51299 51300 . - . intron_id 1 ; splice_site "AG" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local cds 51181 51298 . - . NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local exon 51181 51298 . - . insertions 0 ; deletions 0 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice5 51179 51180 . - . intron_id 3 ; splice_site "GT" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local intron 50741 51180 . - . intron_id 3 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice3 50741 50742 . - . intron_id 2 ; splice_site "AG" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local cds 50641 50740 . - . NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local exon 50641 50740 . - . insertions 0 ; deletions 0 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice5 50639 50640 . - . intron_id 4 ; splice_site "GT" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local intron 50219 50640 . - . intron_id 4 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local splice3 50219 50220 . - . intron_id 3 ; splice_site "AG" NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local cds 50000 50218 . - . NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local exon 50000 50218 . - . insertions 0 ; deletions 0 NIVO01038251.1:subseq(1111464,102664) exonerate:protein2genome:local similarity 50000 57255 1047 - . alignment_id 1 ; Query SPP00000006_1.0 ; Align 57256 1 87 ; Align 52662 30 153 ; Align 51297 82 114 ; Align 50740 121 99 ; Align 50219 154 219 # --- END OF GFF DUMP --- # -- completed exonerate analysis