Command line: [exonerate -m p2g --showtargetgff -q SELENOT2/SELENOT2_x.fa -t SELENOT2/SUBSEQ/CM004421.1_0_subseq.txt --exhaustive] Hostname: [ws112615u] C4 Alignment: ------------ Query: SPP00000650_2.0 Protein Selenoprotein T2 (SELENOT2) Zebrafish Target: CM004421.1:subseq(1217926,50152) Ictalurus punctatus breed USDA103 chromosome 8, whole genome shotgun sequence Model: protein2genome:local Raw score: 837 Query range: 0 -> 209 Target range: 23028 -> 26363 1 : MetAlaGluTyrSerGlnThrGlyIleLeuThrAlaLeuLeuLeuPheThrValValThr : 20 |||||||||||||||!!.|||||||||||||||||||||||||||||||||!.!|||||| MetAlaGluTyrSerHisThrGlyIleLeuThrAlaLeuLeuLeuPheThrAlaValThr 23029 : ATGGCCGAATATAGCCACACGGGTATATTAACGGCTCTGTTGCTGTTTACGGCCGTGACG : 23086 21 : ValLysAspIleTyrValGlyArgAsnSerValThrGlnGlnGluAsnThrGly >>>> : 39 |||!:!|||||||||:!!||||||!.!:!!..! !|||! !|||.!. !!.! ValArgAspIleTyrLeuGlyArgThrAlaThrGluGlnLeuGluGlnGlnAla+- 23087 : GTGAGAGATATTTATCTTGGCCGGACTGCGACGGAGCAGCTGGAGCAGCAGGCCgc.... : 23145 40 : Target Intron 1 >>>> ProAspIleAsnThrGlnArgGlnAsnLysHisThrP : 51 36 bp |||!!:! !!:!:!!! ||||||||||||! !! !| ++ProGluSerSerSerProArgGlnAsnLysProLysP 23146 : .....................agCCGGAGAGCAGCTCACCCAGGCAGAACAAACCCAAAT : 23215 52 : heTyrThrGlyProValLeuLysPheGlnTyr{Cy} >>>> Target Intron 2 > : 62 ||||||||||||||||||||||||||||||||{||} 721 bp heTyrThrGlyProValLeuLysPheGlnTyr{Cy}++ 23216 : TCTACACAGGACCGGTGCTGAAGTTCCAGTAC{TG}gt...................... : 23252 63 : >>> {s}IleSerUnkGlyTyrSerLysValPheGlnGluTyrSerArgSerIleSerG : 80 {|}|||||| ||||||||||||||||||||||||||||||||||||||||||| ++{s}IleSer***GlyTyrSerLysValPheGlnGluTyrSerArgSerIleSerG 23253 : ...ag{t}atttccTGAGGGTACAGTAAGGTGTTCCAGGAGTACTCCCGGTCTATCAGCC : 24023 81 : lnLeuTyrProAspIleArgIleGluGlyAspAsnTyrProProLysProIleAsn{Ly} : 99 |||||||||||||||||||||||||||||! |||||||||||||||! !:!!|||{||} lnLeuTyrProAspIleArgIleGluGlyGlyAsnTyrProProLysLeuLeuAsn{Ly} 24024 : AGCTGTACCCGGACATCCGAATCGAGGGAGGAAATTACCCTCCCAAACTCCTCAAC{AA} : 24080 100 : >>>> Target Intron 3 >>>> {s}TyrLeuGlyAsnPheLeuSerTyrPheL : 109 941 bp {|}|||:!!!.!||||||:!!|||||||||| ++ ++{s}TyrIleAlaAsnPheIleSerTyrPheL 24081 : gt.........................ag{A}TACATTGCAAATTTCATCTCCTACTTTA : 25051 110 : ysLeuLeuAlaIleAlaLeuIleValThrGlyGlnAsnProPheGlnMetPheGlyMetA : 129 ||||||||||||||||||||||||||||||||||||||||||||||||||.!!|||! !: ysLeuLeuAlaIleAlaLeuIleValThrGlyGlnAsnProPheGlnMetLeuGlyThrA 25052 : AACTGCTCGCCATTGCCCTGATCGTCACGGGACAGAATCCTTTCCAAATGCTTGGAACGG : 25111 130 : snThrProArgIleTrpAlaTrpGlyGlnGluAsnLys >>>> Target Intron 4 : 142 !!|||||||||:!!|||:!!|||||||||||||||||| 281 bp spThrProArgValTrpSerTrpGlyGlnGluAsnLys++ 25112 : ACACGCCAAGAGTTTGGTCCTGGGGTCAAGAAAATAAGgt.................... : 25152 143 : >>>> IlePheSerCysLeuMetAlaPhePheIleSerAsnMetLeuGluThrHisPh : 159 ||||||||||||||||||!.!||||||:!!||||||||||||||||||!!.|| ++IlePheSerCysLeuMetValPhePheLeuSerAsnMetLeuGluThrGlnPh 25153 : .....agatATTCTCATGTCTCATGGTGTTTTTCCTCAGTAACATGTTGGAGACCCAGTT : 25482 160 : eLeuSerThrGlyAlaPheGluIleThrLeuAsn{A} >>>> Target Intron 5 : 171 ||||||||||||||||||||||||||||||||||{|} 729 bp eLeuSerThrGlyAlaPheGluIleThrLeuAsn{A}++ 25483 : CCTGTCTACAGGAGCATTTGAAATAACGTTAAat{g}gt..................... : 25521 172 : >>>> {sp}IleProIleTrpSerLysLeuGlnSerGlyTyrValProAsnIleGlnGl : 188 {||}:!!||||||||||||||||||||||||||||||||||||||||||||||| ++{sp}ValProIleTrpSerLysLeuGlnSerGlyTyrValProAsnIleGlnGl 25522 : ....ag{AC}GTTCCCATTTGGTCAAAGCTGCAGTCAGGGTATGTACCGAACATCCAGGA : 26298 189 : uLeuPheGlnIleLeuAspAsnHisLeuLysMetAsnGlnAlaAspLysMetAsnPhePr : 208 ||||||||||||||||||||||||||||||||||||||||!.!|||!!.:!:!!.||| ! uLeuPheGlnIleLeuAspAsnHisLeuLysMetAsnGlnValAspAsnLeuLysPheAl 26299 : GCTCTTCCAGATCCTGGACAACCACCTCAAGATGAATCAGGTCGACAACCTCAAATTCGC : 26358 209 : oSer : 209 !||| aSer 26359 : CTCG : 26363 vulgar: SPP00000650_2.0 0 209 . CM004421.1:subseq(1217926,50152) 23028 26363 + 837 M 38 114 5 0 2 I 0 32 3 0 2 M 23 69 S 0 2 5 0 2 I 0 717 3 0 2 S 1 1 M 36 108 S 0 2 5 0 2 I 0 937 3 0 2 S 1 1 M 42 126 5 0 2 I 0 277 3 0 2 M 29 87 S 0 1 5 0 2 I 0 725 3 0 2 S 1 2 M 38 114 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2016-11-15 ##type DNA # # # seqname source feature start end score strand frame attributes # CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local gene 23029 26363 837 + . gene_id 1 ; sequence SPP00000650_2.0 ; gene_orientation + CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local cds 23029 23142 . + . CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local exon 23029 23142 . + . insertions 0 ; deletions 0 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice5 23143 23144 . + . intron_id 1 ; splice_site "GC" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local intron 23143 23178 . + . intron_id 1 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice3 23177 23178 . + . intron_id 0 ; splice_site "AG" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local cds 23179 23249 . + . CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local exon 23179 23249 . + . insertions 0 ; deletions 0 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice5 23250 23251 . + . intron_id 2 ; splice_site "GT" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local intron 23250 23970 . + . intron_id 2 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice3 23969 23970 . + . intron_id 1 ; splice_site "ag" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local cds 23971 24081 . + . CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local exon 23971 24081 . + . insertions 0 ; deletions 0 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice5 24082 24083 . + . intron_id 3 ; splice_site "GT" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local intron 24082 25022 . + . intron_id 3 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice3 25021 25022 . + . intron_id 2 ; splice_site "AG" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local cds 25023 25149 . + . CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local exon 25023 25149 . + . insertions 0 ; deletions 0 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice5 25150 25151 . + . intron_id 4 ; splice_site "GT" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local intron 25150 25430 . + . intron_id 4 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice3 25429 25430 . + . intron_id 3 ; splice_site "ag" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local cds 25431 25518 . + . CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local exon 25431 25518 . + . insertions 0 ; deletions 0 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice5 25519 25520 . + . intron_id 5 ; splice_site "gt" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local intron 25519 26247 . + . intron_id 5 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local splice3 26246 26247 . + . intron_id 4 ; splice_site "AG" CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local cds 26248 26363 . + . CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local exon 26248 26363 . + . insertions 0 ; deletions 0 CM004421.1:subseq(1217926,50152) exonerate:protein2genome:local similarity 23029 26363 837 + . alignment_id 1 ; Query SPP00000650_2.0 ; Align 23029 1 114 ; Align 23179 39 69 ; Align 23972 63 108 ; Align 25024 100 126 ; Align 25431 142 87 ; Align 26250 172 114 # --- END OF GFF DUMP --- # -- completed exonerate analysis