Command line: [exonerate -m p2g --showtargetgff -q LRP8n/LRP8n_U.fa -t LRP8n/SUBSEQ/KB228992.1_0_subseq.txt --exhaustive yes] Hostname: [luke] C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 3904 Query range: 164 -> 962 Target range: 25389 -> 194 165 : ThrLeuCysAlaProHisGluPheGlnCysGlyAsnArgSerCysLeuAlaAlaValPhe : 184 .!!:!!||||||||||||||||||||||||.!!||||||||||||||||||||||||||| AlaValCysAlaProHisGluPheGlnCysSerAsnArgSerCysLeuAlaAlaValPhe 25389 : GCAGTGTGCGCCCCGCACGAGTTCCAGTGCAGCAACCGCTCCTGCCTGGCCGCCGTGTTC : 25332 185 : ValCysAspGlyAspAspAspCysGlyAspGlySerAspGluArgGlyCysAlaAspPro : 204 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ValCysAspGlyAspAspAspCysGlyAspGlySerAspGluArgGlyCysAlaAspPro 25331 : GTGTGCGACGGCGACGACGACTGCGGCGACGGCAGCGACGAGCGCGGCTGCGCCGACCCG : 25272 205 : AlaCysGlyProArgGluPheArgCysGlyGlyAspGlyGlyGlyAlaCysIleProGlu : 224 ||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| AlaCysGlyProArgGluPheArgCysGlyGlyGlyGlyGlyGlyAlaCysIleProGlu 25271 : GCCTGCGGGCCCCGCGAGTTccgctgcggcggcggcggcggcggcgcctgCATCCCCGAG : 25212 225 : ArgTrpValCysAspArgGlnPheAspCysGluAspArgSerAspGluAlaAlaGluLeu : 244 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ArgTrpValCysAspArgGlnPheAspCysGluAspArgSerAspGluAlaAlaGluLeu 25211 : CGCTGGGTCTGCGACCGCCAGTTCGACTGCGAGGACCGCTCGGACGAGGCGGCCGAGCTG : 25152 245 : CysGlyArgProGlyProGlyAlaThrSerAlaProAlaAlaCysAlaThrAlaSerGln : 264 ||||||||| !!|||||||||||||||:!!||||||||||||||||||...|||:::||| CysGlyArgAlaGlyProGlyAlaThrAlaAlaProAlaAlaCysAlaAlaAlaAlaGln 25151 : TGCGGCCGCGCGGGCCCCGGGGCCACCGCCGCGCCCGCCGCctgcgccgccgccgcccag : 25092 265 : PheAlaCysArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGlyAspArgAsp : 284 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| PheAlaCysArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGlyAspArgAsp 25091 : TTCGCCTGCCGCAGCGGCGAGTGCGTGCACCTGGGCTGGCGCTGCGACGGCGACCGCGAC : 25032 285 : CysLysAspLysSerAspGluAlaAspCys{P} >>>> Target Intron 1 >>>> : 295 ||||||||||||||||||||||||||||||{|} 856 bp CysLysAspLysSerAspGluAlaAspCys{P}++ 25031 : TGCAAGGACAAGTCGGACGAGGCCGACTGC{C}gt......................... : 24996 296 : {ro}LeuGlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyThrCysValLeu : 313 {||}|||||||||||||||||||||||||||||||||||||||||||||||||||! ! ++{ro}LeuGlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyThrCysValPro 24995 : ag{CT}CTGGGGACCTGCCGTGGGGACGAGTTCCAGTGTGGGGATGGGACTTGTGTCCCT : 24089 314 : AlaIleLysHisCysAsnGlnGluGlnAspCysProAspGlySerAspGluAlaGlyCys : 333 .!!||||||!.!|||||||||||||||||||||! !|||||||||||||||||||||||| ThrIleLysArgCysAsnGlnGluGlnAspCysLeuAspGlySerAspGluAlaGlyCys 24088 : ACGATCAAGCGTTGCAACCAGGAACAGGACTGTCTGGACGGAAGTGACGAAGCTGGCTGC : 24029 334 : LeuGln{G} >>>> Target Intron 2 >>>> {ly}LeuAsnGluCysLeuHis : 342 ||||||{|} 4145 bp {||}|||||||||||||||||| LeuGln{G}++ ++{ly}LeuAsnGluCysLeuHis 24028 : CTGCAG{G}gt.........................ag{GG}CTGAACGAGTGTCTGCAC : 19857 343 : AsnAsnGlyGlyCysSerHisIleCysThrAspLeuLysIleGlyPheGluCysThrCys : 362 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| AsnAsnGlyGlyCysSerHisIleCysThrAspLeuLysIleGlyPheGluCysThrCys 19856 : AACAATGGGGGCTGCTCCCACATCTGCACAGACCTCAAGATCGGCTTTGAGTGCACATGC : 19797 363 : ProAlaGlyPheGlnLeuLeuAspGlnLysThrCysGly{A} >>>> Target Intr : 376 |||||||||!:!|||||||||||||||||||||||||||{|} 85 bp ProAlaGlyTyrGlnLeuLeuAspGlnLysThrCysGly{A}++ 19796 : CCAGCAGGCTACCAGCTCCTAGACCAGAAGACCTGCGGC{G}gt................ : 19752 377 : on 3 >>>> {sp}IleAspGluCysLysAspProAspAlaCysSerGlnIleCysVal : 391 {||}||||||||||||:!!|||||||||||||||||||||||||||||| ++{sp}IleAspGluCysGluAspProAspAlaCysSerGlnIleCysVal 19751 : .........ag{AC}ATCGACGAGTGTGAGGACCCCGATGCCTGCAGCCAGATCTGTGTC : 19625 392 : AsnTyrLysGlyTyrPheLysCysGluCysTyrProGlyTyrGluMetAspLeuLeuThr : 411 ||||||||||||||||||||||||||||||:!!|||||||||||||||||| !|||||| AsnTyrLysGlyTyrPheLysCysGluCysHisProGlyTyrGluMetAspThrLeuThr 19624 : AACTACAAGGGCTACTTTAAGTGCGAGTGCCACCCCGGCTACGAGATGGACACTCTGACC : 19565 412 : LysAsnCysLysAlaAla{A} >>>> Target Intron 4 >>>> {la}GlyLys : 420 |||||||||||||||!.!{|} 2806 bp {||}|||!:! LysAsnCysLysAlaVal{A}++ ++{la}GlyArg 19564 : AAGAACTGCAAGGCTGTT{G}gt.........................ag{CT}GGCAGA : 16732 421 : SerProSerLeuIlePheThrAsnArgHisGluValArgArgIleAspLeuValLysArg : 440 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| SerProSerLeuIlePheThrAsnArgHisGluValArgArgIleAspLeuValLysArg 16731 : AGCCCGTCCCTGATCTTCACCAACCGGCATGAAGTGCGGAGGATAGACCTGGTGAAGCGG : 16672 441 : AsnTyrSerArgLeuIleProMetLeuLysAsnValValAlaLeuAspValGluValAla : 460 :!!||||||||||||||||||||||||||||||||||||||||||||||||||||||||| AspTyrSerArgLeuIleProMetLeuLysAsnValValAlaLeuAspValGluValAla 16671 : GACTACTCACGCCTCATCCCCATGCTCAAGAACGTCGTGGCACTGGATGTCGAAGTTGCC : 16612 461 : ThrAsnArgIleTyrTrpCysAspLeuSerTyrArgLysIleTyr{Se} >>>> Targ : 476 |||||||||||||||||||||||||||||||||||||||||||||{||} ThrAsnArgIleTyrTrpCysAspLeuSerTyrArgLysIleTyr{Se}++ 16611 : ACCAATCGCATCTACTGGTGTGACCTCTCCTACCGCAAGATCTAC{AG}gt......... : 16560 477 : et Intron 5 >>>> {r}AlaTyrMetAspLysAlaSerAspProLysGluGlnGlu : 489 2027 bp {|}||||||||||||||||||||||||||| !||||||||| ++{r}AlaTyrMetAspLysAlaSerAspProAlaGluGlnGlu 16559 : ................ag{T}GCCTACATGGACAAGGCCAGCGACCCGGCGGAGCAGGAG : 14498 490 : ValLeuIleAspGluGlnLeuHisSerProGluGlyLeuAlaValAspTrpValHisLys : 509 ||||||!!:||||||||||||||||||||||||||||||||||||||||||||||||||| ValLeuMetAspGluGlnLeuHisSerProGluGlyLeuAlaValAspTrpValHisLys 14497 : GTCCTCATGGATGAGCAGCTGCACTCTCCGGAGGGCCTGGCGGTAGACTGGGTCCACAAG : 14438 510 : HisIleTyrTrpThrAspSerGlyAsnLysThrIleSerValAlaThrValAspGlyGly : 529 ||||||||||||||||||||||||||||||||||||||||||||||||:!!||||||||| HisIleTyrTrpThrAspSerGlyAsnLysThrIleSerValAlaThrIleAspGlyGly 14437 : CACATCTACTGGACTGACTCAGGCAACAAGACGATCTCTGTGGCCACAATTGATGGCGGC : 14378 530 : ArgArgArgThrLeuPheSerArgAsnLeuSerGluProArgAlaIleAlaValAspPro : 549 |||||| !!|||||||||||||||:!!||||||||||||||||||||||||||||||||| ArgArgCysThrLeuPheSerArgAspLeuSerGluProArgAlaIleAlaValAspPro 14377 : CGCCGCTGCACTCTCTTCAGCCGTGACCTCAGTGAACCCCGGGCCATCGCGGTCGACCCC : 14318 550 : LeuArg{Gl} >>>> Target Intron 6 >>>> {y}PheMetTyrTrpSerAsp : 558 ||||||{||} 2707 bp {|}|||||||||||||||||| LeuArg{Gl}++ ++{y}PheMetTyrTrpSerAsp 14317 : CTGAGA{GG}gt.........................ag{G}TTCATGTATTGGTCTGAC : 11584 559 : TrpGlyAspGlnAlaLysIleGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeu : 578 |||||| !!||||||||||||||||||||||||||||||||||||||||||||||||||| TrpGlyTyrGlnAlaLysIleGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeu 11583 : TGGGGGTACCAGGCCAAGATCGAGAAGTCTGGGCTCAATGGTGTGGACCGGCAAACACTG : 11524 579 : ValSerAspAsnIleGluTrpProAsnGlyIleThrLeu{A} >>>> Target Intr : 592 |||||||||||||||||||||||||||||||||||||||{|} 254 bp ValSerAspAsnIleGluTrpProAsnGlyIleThrLeu{A}++ 11523 : GTATCAGACAACATTGAATGGCCCAATGGAATCACCCTG{G}gt................ : 11479 593 : on 7 >>>> {sp}LeuLeuSerGlnArgLeuTyrTrpValAspSerLysLeuHisGln : 607 {||}||||||!:!|||||||||||||||||||||||||||||||||||| ++{sp}LeuLeuAsnGlnArgLeuTyrTrpValAspSerLysLeuHisGln 11478 : .........ag{AT}TTGCTGAACCAGCGCTTGTACTGGGTGGACTCCAAGCTTCACCAA : 11183 608 : LeuSerSerIleAspPheSerGlyGlyAsnArgLysThrLeuIleSerSerThrAspPhe : 627 |||||||||||||||.!!||||||||||||||||||! !|||||||||||| !!|||||| LeuSerSerIleAspLeuSerGlyGlyAsnArgLysMetLeuIleSerSerProAspPhe 11182 : CTATCCAGCATTGACCTCAGTGGAGGCAACAGGAAGATGCTGATTTCCTCCCCTGACTTC : 11123 628 : LeuSerHisProPheGlyIleAlaValPheGlu >>>> Target Intron 8 >>>> : 639 ||||||||||||||||||||||||||||||||| 1435 bp LeuSerHisProPheGlyIleAlaValPheGlu++ 11122 : CTGAGCCACCCTTTCGGGATAGCTGTGTTTGAGgt......................... : 11085 640 : AspLysValPheTrpThrAspLeuGluAsnGluAlaIlePheSerAlaAsnArgLeuA : 658 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ++AspLysValPheTrpThrAspLeuGluAsnGluAlaIlePheSerAlaAsnArgLeuA 11084 : agGACAAGGTGTTCTGGACAGACCTGGAGAATGAGGCCATTTTCAGTGCAAATCGCCTCA : 9595 659 : snGlyLeuGluIleSerIleLeuAlaGluAsnLeuAsnAsnProHisAspIleValIleP : 678 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| snGlyLeuGluIleSerIleLeuAlaGluAsnLeuAsnAsnProHisAspIleValIleP 9594 : ATGGCCTGGAAATCTCCATCCTTGCTGAGAACCTCAATAACCCACATGACATTGTCATCT : 9535 679 : heHisGluLeuLysGlnProArg{A} >>>> Target Intron 9 >>>> {la}P : 687 |||||||||||||||||||||||{|} 979 bp {||} heHisGluLeuLysGlnProArg{A}++ ++{la}A 9534 : TCCATGAGCTAAAGCAGCCAAGA{G}gt.........................ag{CT}G : 8529 688 : roAspAlaCysGluLeuSerValGlnProAsnGlyGlyCysGluTyrLeuCysLeuProA : 707 !!||||||||||||||||||!.!||||||||||||||||||||||||||||||||||||| laAspAlaCysGluLeuSerAlaGlnProAsnGlyGlyCysGluTyrLeuCysLeuProA 8528 : CAGATGCCTGCGAGCTGAGTGCCCAGCCCAATGGCGGCTGTGAGTACCTGTGCCTTCCTG : 8469 708 : laProGlnIleSerSerHisSerProLysTyrThrCysAlaCysProAspThrMetTrpL : 727 ||||||||||||||||| |||||||||||||||||||||||||||||||||||||||| laProGlnIleSerSerProSerProLysTyrThrCysAlaCysProAspThrMetTrpL 8468 : CTCCTCagatctccagcccctctcccaagTACACATGTGCCTGTCCTGACACCATGTGGC : 8409 728 : euGlyProAspMetLysArgCysTyrArg{A} >>>> Target Intron 10 >>>> : 737 |||||||||||||||||||||||||||||{|} 1085 bp euGlyProAspMetLysArgCysTyrArg{A}++ 8408 : TGGGCCCAGACATGAAGAGGTGCTACCGA{G}gt.......................... : 8376 738 : {la}ProGlnSerThrSerThrThrThrLeuAlaSerThrMetThrArgThrValPro : 755 {||}|||||||||||||||||||||||||||||| !!|||! ||||||||| ! !! ++{la}ProGlnSerThrSerThrThrThrLeuAlaProThrThrThrArgThrArgAla 8375 : ag{CA}CCTCAATCTACCTCAACTACGACGTTAGCTCCTACCACAACGAGGACACGAGCC : 7240 756 : AlaThrThrArgAlaProGlyThrThrValHisArgSerThrTyrGlnAsnHisSerThr : 775 ! !|||||||||.!!||||||||||||||||||!!! !||||||||||||!.!|||||| AspThrThrArgThrProGlyThrThrValHisSerLeuThrTyrGlnAsnArgSerThr 7239 : GACACCACGAGAACCCCCGGGACCACTGTCCACAGCCTCACCTACCAGAACCGCAGCACA : 7180 776 : GluThrProSerLeuThrAlaAlaValProSerSerValSerValProArgAlaProSer : 795 |||||||||||||||.!!|||!.!||||||||| !!|||.!!|||||||||||||||||| GluThrProSerLeuAlaAlaValValProSerProValGlyValProArgAlaProSer 7179 : GAGACACCAAGCCTGGCAGCTGTGGTCCCAAGTCCGGTTGGTGTCCCCAGGGCTCCCAGC : 7120 796 : IleSerProSerThrLeuSerProAlaThrSerAsnHisSerGlnHis{T} >>>> Ta : 812 |||!.!|||||||||! !||||||||||||||||||||||||||||||{|} IleLysProSerThrProSerProAlaThrSerAsnHisSerGlnHis{T}++ 7119 : ATCAAGCCCTCTACCCCAAGCCCTGCGACCAGCAACCACTCCCAGCAC{T}gt....... : 7066 813 : rget Intron 11 >>>> {yr}AlaAsnGluAspSerLysMetGlySerThrValTh : 824 1607 bp {||}!.!||||||! !.!!|||||||||||||||||||| ++{yr}GlyAsnGluGlyGlyLysMetGlySerThrValTh 7065 : ...................ag{AT}GGGAATGAAGGTGGCAAGATGGGCTCAACAGTCAC : 5426 825 : rAlaAlaValIleGlyIleIleValProIle{V} >>>> Target Intron 12 >> : 835 |||||||||||||||||||:!!||||||!!:{!} 3732 bp rAlaAlaValIleGlyIleLeuValProMet{A}++ 5425 : TGCTGCGGTCATTGGGATCCTCGTGCCCATG{G}gt........................ : 5390 836 : >> {al}ValIleAlaLeuLeuCysMetSerGlyTyrLeuIleTrpArgAsnTrpLysA : 853 {.!}|||||||||||||||||||||||||||||||||||||||||||||||||||| ++{la}ValIleAlaLeuLeuCysMetSerGlyTyrLeuIleTrpArgAsnTrpLysA 5389 : ..ag{CG}GTAATAGCCCTGCTGTGCATGAGTGGCTACCTGATCTGGAGAAACTGGAAGC : 1607 854 : rgLysAsnThrLysSerMetAsnPheAspAsnProValTyrArgLysThrThrGluGluG : 873 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| rgLysAsnThrLysSerMetAsnPheAspAsnProValTyrArgLysThrThrGluGluG 1606 : GGAAGAACACTAAAAGCATGAATTTTGACAACCCGGTGTACAGGAAAACGACAGAAGAAG : 1547 874 : luAspGluAspGluLeuHisIleGlyArgThrAlaGlnIleGlyHisValTyrProAla : 893 ||||||||||||||||||||||||||||||||||||||! !|||||||||||||||||| luAspGluAspGluLeuHisIleGlyArgThrAlaGlnThrGlyHisValTyrProAla+ 1546 : AGGACGAAGATGAGCTGCACATAGGGAGGACCGCTCAGACTGGCCACGTCTACCCTGCAg : 1487 894 : >>>> Target Intron 13 >>>> AlaIleSerSerPheAspArgProLeuTrpA : 903 1083 bp ||||||||||||||||||!.!|||||||||| + ++AlaIleSerSerPheAspHisProLeuTrpA 1486 : t..........................agGCAATCAGCAGCTTTGATCACCCACTGTGGG : 374 904 : laGluProCysLeuGlyGluThrArgGluProGluAspProAlaProAlaLeuLysGluL : 923 |||||||||||||||||||||||||||||! !|||||||||||||||||||||||||||| laGluProCysLeuGlyGluThrArgGluLeuGluAspProAlaProAlaLeuLysGluL 373 : CAGAGCCCTGTCTTGGGGAGACCAGAGAACTGGAagacccagcccctgccctcaaggagc : 314 924 : euPheValLeuProGlyGluProArgSerGlnLeuHisGlnLeuProLysAsnProLeuS : 943 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| euPheValLeuProGlyGluProArgSerGlnLeuHisGlnLeuProLysAsnProLeuS 313 : ttttTGTCTTGCCGGGGGAACCAAGGTCACAGCTGCACCAACTCCCGAAGAACCCTCTTT : 254 944 : erGluLeuProValValLysSerLysArgValAlaLeuSerLeuGluAspAspGlyLeu : 962 ||||||||||||||||||||!!!||| !! ! !! ! !!!!|||..!!!:|||||| erGluLeuProValValLysCysLysValGlyGlnCysHisPheGluSerGluGlyLeu 253 : CCGAGCTGCCTGTCGTCAAGTGCAAGGTAGGGCAGTGCCACTTTGAGTCTGAGGGGCTG : 195 vulgar: SPP00002933_2.0 164 962 . KB228992.1:subseq(2664082,25452) 25389 194 - 3904 M 130 390 S 0 1 5 0 2 I 0 852 3 0 2 S 1 2 M 40 120 S 0 1 5 0 2 I 0 4141 3 0 2 S 1 2 M 39 117 S 0 1 5 0 2 I 0 81 3 0 2 S 1 2 M 41 123 S 0 1 5 0 2 I 0 2802 3 0 2 S 1 2 M 57 171 S 0 2 5 0 2 I 0 2023 3 0 2 S 1 1 M 75 225 S 0 2 5 0 2 I 0 2703 3 0 2 S 1 1 M 39 117 S 0 1 5 0 2 I 0 250 3 0 2 S 1 2 M 46 138 5 0 2 I 0 1431 3 0 2 M 47 141 S 0 1 5 0 2 I 0 975 3 0 2 S 1 2 M 50 150 S 0 1 5 0 2 I 0 1081 3 0 2 S 1 2 M 74 222 S 0 1 5 0 2 I 0 1603 3 0 2 S 1 2 M 22 66 S 0 1 5 0 2 I 0 3728 3 0 2 S 1 2 M 57 171 5 0 2 I 0 1079 3 0 2 M 70 210 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 195 25389 3904 - . gene_id 1 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24999 25389 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24999 25389 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24997 24998 . - . intron_id 1 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24998 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 0 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24142 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19875 24019 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19875 19876 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19755 19874 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19755 19874 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19753 19754 . - . intron_id 3 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19670 19754 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19670 19671 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19544 19669 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19544 19669 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19542 19543 . - . intron_id 4 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 16738 19543 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 16738 16739 . - . intron_id 3 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 16563 16737 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 16563 16737 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 16561 16562 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 14536 16562 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 14536 14537 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14308 14535 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14308 14535 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14306 14307 . - . intron_id 6 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11601 14307 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11601 11602 . - . intron_id 5 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11482 11600 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11482 11600 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11480 11481 . - . intron_id 7 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11228 11481 . - . intron_id 7 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11228 11229 . - . intron_id 6 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11088 11227 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11088 11227 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11086 11087 . - . intron_id 8 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 9653 11087 . - . intron_id 8 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 9653 9654 . - . intron_id 7 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 9511 9652 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 9511 9652 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 9509 9510 . - . intron_id 9 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 8532 9510 . - . intron_id 9 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 8532 8533 . - . intron_id 8 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 8379 8531 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 8379 8531 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 8377 8378 . - . intron_id 10 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 7294 8378 . - . intron_id 10 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 7294 7295 . - . intron_id 9 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 7069 7293 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 7069 7293 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 7067 7068 . - . intron_id 11 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 5462 7068 . - . intron_id 11 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 5462 5463 . - . intron_id 10 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 5393 5461 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 5393 5461 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 5391 5392 . - . intron_id 12 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 1661 5392 . - . intron_id 12 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 1661 1662 . - . intron_id 11 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 1488 1660 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 1488 1660 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 1486 1487 . - . intron_id 13 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 405 1487 . - . intron_id 13 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 405 406 . - . intron_id 12 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 195 404 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 195 404 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 195 25389 3904 - . alignment_id 1 ; Query SPP00002933_2.0 ; Align 25390 165 390 ; Align 24141 296 120 ; Align 19873 337 117 ; Align 19668 377 123 ; Align 16736 419 171 ; Align 14535 477 225 ; Align 11600 553 117 ; Align 11226 593 138 ; Align 9653 639 141 ; Align 8530 687 150 ; Align 7292 738 222 ; Align 5460 813 66 ; Align 1659 836 171 ; Align 405 893 210 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 387 Query range: 46 -> 602 Target range: 25383 -> 6773 47 : CysGluLysAspGlnPheGlnCysArgAsnGluArgCysIleProSerValTrpArgCys : 66 |||! ! !!:!!|||||||||!!!|||... !|||:!: !!:!!|||!:: !||| CysAlaProHisGluPheGlnCysSerAsnArgSerCysLeuAlaAlaValPheValCys 25383 : TGCGCCCCGCACGAGTTCCAGTGCAGCAACCGCTCCTGCCTGGCCGCCGTGTTCGTGTGC : 25326 67 : AspGluAspAspAspCysLeuAspHisSerAspGluAspAspCysProLysLysThrCys : 86 |||! |||||||||||| !||| !||||||||| !! !||| !! ! !.!!||| AspGlyAspAspAspCysGlyAspGlySerAspGluArgGlyCysAlaAspProAlaCys 25325 : GACGGCGACGACGACTGCGGCGACGGCAGCGACGAGCGCGGCTGCGCCGACCCGGCCTGC : 25266 87 : AlaAspSerAspPheThrCys<-><-><->AspAsnGlyHisCysIleHisGluArgTrp : 103 !.! ! !!!!:||| ||| ...||| ||||||! !||||||||| GlyProArgGluPheArgCysGlyGlyGlyGlyGlyGlyAlaCysIleProGluArgTrp 25265 : GGGCCCCGCGAGTTccgctgcggcggcggcggcggcggcgcctgCATCCCCGAGCGCTGG : 25206 104 : LysCysAspGlyGluGluGluCysProAspGlySerAspGluSerGluAlaThrCysThr : 123 |||||| !!:!! !!:||| !||| !!|||||||||:!!! ! ! !||| ! ValCysAspArgGlnPheAspCysGluAspArgSerAspGluAlaAlaGluLeuCysGly 25205 : GTCTGCGACCGCCAGTTCGACTGCGAGGACCGCTCGGACGAGGCGGCCGAGCTGTGCGGC : 25146 124 : LysGlnValCys{P} >>>> Target Intron 1 >>>> {ro}AlaGluLysLeu : 132 ::: !! ! !{ } 30 bp {!!}||| :::!!! ArgAlaGlyPro{A}+- -+{la}AlaAlaGlnPhe 25145 : CGCGCGGGCCCC{G}gg.........................cg{cc}gccgcccagTTC : 25089 133 : SerCysGlyProThrSerHisLysCysValProAlaSerTrpArgCysAspGlyGluLys : 152 :!!||| !||| !:!!||||||! ! !.!!|||||||||||||||!!:::: AlaCys------ArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGlyAspArg 25088 : GCCTGC------CGCAGCGGCGAGTGCGTGCACCTGGGCTGGCGCTGCGACGGCGACCGC : 25035 153 : AspCysGluGlyGlyAlaAspGluAlaGlyCys{A} >>>> Target Intron 2 > : 164 ||||||:!!! ! !:!!|||||||||! !|||{ } 856 bp AspCysLysAspLysSerAspGluAlaAspCys{P}++ 25034 : GACTGCAAGGACAAGTCGGACGAGGCCGACTGC{C}gt...................... : 24996 165 : >>> {la}Thr<->LeuCysAlaProHisGluPheGlnCysGlyAsnArgSerCysLeu : 180 {!!} ! !||| ! ! !!|||||||||||||||:!! !!!!!|||:!! ++{ro}LeuGlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyThrCysVal 24995 : ...ag{CT}CTGGGGACCTGCCGTGGGGACGAGTTCCAGTGTGGGGATGGGACTTGTGTC : 24092 181 : AlaAlaValPheValCysAspGlyAspAspAspCysGlyAspGlySerAspGluArgGly : 200 !!.!!:!! !|||:!! !!!:.!.|||||| !||||||||||||||| !||| ProThrIleLysArgCysAsnGlnGluGlnAspCysLeuAspGlySerAspGluAlaGly 24091 : CCTACGATCAAGCGTTGCAACCAGGAACAGGACTGTCTGGACGGAAGTGACGAAGCTGGC : 24032 201 : CysAlaAspProAlaCysGlyProArg >>>> Target Intron 3 >>>> GluP : 211 ||| !.!. !|||!! ||| !||| 333 bp !. CysLeuGlnGlyAlaTrpGlyTrpArg-- ++MetI 24031 : TGCCTGCAGGGTGCGTGGGGTTGGAGGca.........................agATGA : 23666 212 : heArgCysGlyGlyAspGlyGlyGlyAlaCysIleProGluArgTrpValCysAspArgG : 231 !!! !!! ..!..! ! ! ! !! ! !! ! ! !! ..! !!: leLeuTrpSerSerLeuProThrCysArgSerGlnAspProAspHisArgSerSerGlyG 23665 : TTCTCTGGTCATCACTTCCCACCTGCAGGAGCCAGGACCCTGACCATAGGTCATCTGGGG : 23606 232 : lnPheAspCysGluAspArgSerAspGluAlaAlaGluLeuCysGlyArgProGlyProG : 251 !!.!.||| ..! !!|||!!:! !|||:!! :!! |||! ! !||| !!| luMetAspLysArgLeuGlySerGluValAlaSerProMetGlnGlyLeu***GlyThrG 23605 : AAATGGATAAAAGGTTGGGCAGTGAGGTGGCCTCCCCTATGCAGGGCCTCTAGGGCACAG : 23546 252 : lyAlaThrSer >>>> Target Intron 4 >>>> AlaProAlaAlaCysAlaTh : 261 |||||:!!..! 319 bp .!! !:!!.!!|||! ! lyAlaSerGlu++ -+ThrGluSerThrCysGluGl 23545 : GTGCCTCTGAGgt.........................cgACAGAGTCAACATGTGAGGG : 23197 262 : rAlaSerGlnPheAlaCysArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGl : 281 ! !! !!::!||| !|||!:!||||||||||||||| !! !||| !||||||!. yProArgArgPheGlnCysLysSerGlyGluCysValAspGlyGlyLysValCysAspAl 23196 : TCCCCGCAGATTTCAGTGTAAGAGTGGCGAGTGCGTGGACGGCGGGAAAGTGTGTGACGC : 23137 282 : yAspArgAspCysLysAspLysSerAspGluAlaAspCys{Pr} >>>> Target In : 295 !.!.|||||||||::!||| !||||||||| !! { } 464 aGlnArgAspCysArgAspTrpSerAspGluProLeuLys{Gl}++ 23136 : TCAGAGAGACTGCCGGGACTGGTCAGATGAGCCTCTGAAA{GA}gt.............. : 23091 296 : tron 5 >>>> {o}LeuGlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyTh : 310 bp {!}! !||| ! !!..!|||.!.! ! !! ! !.!!!:||| ++{u}ProGlyLeuSerGluGlyGlnAlaAspProValAlaGluGlyGl 23090 : ...........ag{G}CCAGGCCTGAGTGAGGGTCAGGCAGACCCAGTAGCAGAAGGCGG : 22586 311 : rCysValLeuAlaIleLysHisCysAsnGlnGlu >>>> Target Intron 6 >>> : 322 ! !:!!|||::! !|||.!. !...! ... 449 bp yThrIleLeuSerProLysGluLeuGlyLeuSer+- 22585 : CACCATTCTGAGCCCCAAGGAGCTTGGACTTTCTgg........................ : 22548 323 : > GlnAspCysProAspGlySerAspGluAlaGlyCysLeuGlnGlyLeuAsn{Gl} : 339 ::! !|||! !!!: !||| ! ..!! !! ! ! !|||..!:!!...{:!} ++ArgProCysArgGluLysSer***ArgGluGluProGlyGlnAsnIleGly{Ly}++ 22547 : .agAGGCCCTGCCGCGAAAAGTCCTAGAGGGAGGAACCCGGGCAAAACATAGGG{AA}gt : 22048 340 : >>>> Target Intron 7 >>>> {u}CysLeuHisAsnAsnGlyGly<->CysSer : 348 265 bp {!}|||||||||!..::!!.!||| |||... -+{s}CysLeuHisThrSerAlaGlyValCysGlu 22047 : .........................cg{G}TGCCTCCACACGTCCGCTggtgtgtgtgag : 21755 349 : HisIleCysThrAspLeuLys >>>> Target Intron 8 >>>> IleGlyPheG : 359 ||| |||! !||| ! ! 247 bp ! !..!.!.. HisAlaCysArgAspAlaHis++ ++ArgAsnLeuS 21754 : catgcatgcAGGGACGCGCATgt.........................agAGAAACCTGA : 21475 360 : luCysThrCysProAlaGlyPheGlnLeuLeuAspGlnLysThrCysGly{A} >>>> : 376 .. ! ! ::: ||| ... ..!!!....||||||!.!{ } erHisPheValLeuSerLeuPheProPheGlnSerHisSerThrCysAla{A}++ 21474 : GCCACTTTGtgctctcccttttcccttttcagAGCCATTCTACATGTGCT{A}gt..... : 21421 377 : Target Intron 9 >>>> {sp}IleAspGluCys<->LysAspProAspAlaCysS : 387 1549 bp { }:!::!!|||||| ! :!! !! !.!|||| ++{rg}LeuAsnGluCysLeuHisAsnAsnGlyGlyCysS 21420 : ....................ag{GG}CTGAACGAGTGTCTGCACAACAATGGGGGCTGCT : 19839 388 : erGlnIleCysValAsnTyrLysGlyTyrPheLysCysGluCysTyrProGlyTyrGlu< : 407 ||!!.||||||..!:!! !||| ! !|||:!!||| !||| !!||||||:!! erHisIleCysThrAspLeuLysIleGlyPheGluCysThrCysProAlaGlyTyrGlnL 19838 : CCCACATCTGCACAGACCTCAAGATCGGCTTTGAGTGCACATGCCCAGCAGGCTACCAGC : 19779 408 : ->MetAspLeuLeuThrLysAsnCysLysAlaAlaAlaGlyLysSerProSerLeuIleP : 426 :!:|||! ! !||| ..! !!:!!.!! ! !!..! |||::: euLeuAspGlnLysThrCysGlyGlyGluThrLeuProSerProProProAlaProProA 19778 : TCCTAGACCAGAAGACCTGCGGCGGTGAGACCCTCCCCTCAccgccccccgcacccccca : 19719 427 : heThrAsnArgHisGluValArgArgIleAspLeuValLysArgAsnTyrSerArgLeu{ : 446 !!..||| !! :!!! ! !:!: !! !||| ! !:!! !|||! !{ rgGlnArgArgSerAlaLeuProValLeuThrCysValProProAspArgHisArgArg{ 19718 : ggCAGAGGCGGAGCGCCCTGCCGGTTCTGACCTGTGTCCCCCCCGACAGACATCGACGA{ : 19659 447 : Il} >>>> Target Intron 10 >>>> {e}ProMetLeuLysAsnValValAla : 454 :!} 5302 bp {!}! ! |||!...!. ! !||| Va}++ ++{l}ArgAspLeuSerGluProArgAla 19658 : GT}gt..........................ag{C}CGTGACCTCAGTGAACCCCGGGCC : 14333 455 : LeuAspValGluValAlaThr{As} >>>> Target Intron 11 >>>> {n}Ar : 463 :!!! |||!!: ! !! !{..} 2707 bp {.} IleAlaValAspProLeuArg{Gl}++ ++{y}Ph 14332 : ATCGCGGTCGACCCCCTGAGA{GG}gt..........................ag{G}TT : 11599 464 : gIleTyrTrpCysAspLeuSerTyrArgLysIleTyrSerAlaTyrMetAspLysAlaSe : 483 !!!:||||||! !|||! !.!!|||!:! :!! ! ! ! ! ...!.! eMetTyrTrpSerAspTrpGlyTyrGln---------AlaLysIleGluLysSerGlyLe 11598 : CATGTATTGGTCTGACTGGGGGTACCAG---------GCCAAGATCGAGAAGTCTGGGCT : 11548 484 : rAspProLysGluGlnGluValLeuIleAspGluGlnLeuHisSerProGluGlyLeuAl : 503 !:!! ! !!!:!:!:!!..!|||:!!...!!:.!.:!!.!.!!!|||.!.|||:!!.! uAsnGlyValAspArgGlnThrLeuValSerAspAsnIleGluTrpProAsnGlyIleTh 11547 : CAATGGTGTGGACCGGCAAACACTGGTATCAGACAACATTGAATGGCCCAATGGAATCAC : 11488 504 : aVal{A} >>>> Target Intron 12 >>>> {sp}TrpValHisLysHisIleT : 512 !:!!{|} 254 bp {||}! !:!!:!!:!!!.!:!:| rLeu{A}++ ++{sp}LeuLeuAsnGlnArgLeuT 11487 : CCTG{G}gt..........................ag{AT}TTGCTGAACCAGCGCTTGT : 11207 513 : yrTrpThrAspSerGlyAsnLysThrIleSerValAlaThrValAspGlyGlyArgArgA : 532 |||||..!|||||| ! ! ! !:!!||| ! ! !:!!..!||||||!.!|||! yrTrpValAspSerLysLeuHisGlnLeuSerSerIleAspLeuSerGlyGlyAsnArgL 11206 : ACTGGGTGGACTCCAAGCTTCACCAACTATCCAGCATTGACCTCAGTGGAGGCAACAGGA : 11147 533 : rgThrLeuPheSerArgAsnLeuSerGluProArgAlaIleAlaValAspProLeuArg : 552 :!! !|||.!!||| ! ! !! ! ! !!.! !!.!!!.!:!!! ! !!!!..! ysMetLeuIleSerSerProAspPheLeuSerHisProPheGlyIleAlaValPheGlu+ 11146 : AGATGCTGATTTCCTCCCCTGACTTCCTGAGCCACCCTTTCGGGATAGCTGTGTTTGAGg : 11087 553 : >>>> Target Intron 13 >>>> GlyPheMetTyrTrpSerAspTrpGlyAspG : 562 1435 bp ! ! :!!!:!|||!!!||| !! !:!!: + ++AspLysValPheTrpThrAspLeuGluAsnG 11086 : t..........................agGACAAGGTGTTCTGGACAGACCTGGAGAATG : 9622 563 : lnAlaLysIleGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeu{V} >>>> : 579 !!|||! .!!... !!:! !!|||||||||:!!!!:! !...! !|||{|} luAlaIlePheSerAlaAsnArgLeuAsnGlyLeuGluIleSerIleLeu{V}-+ 9621 : AGGCCATTTTCAGTGCAAATCGCCTCAATGGCCTGGAAATCTCCATCCTT{G}ct..... : 9568 580 : Target Intron 14 >>>> {al}SerAspAsnIleGluTrpProAsnGlyIleThr : 590 2726 bp {||}|||... |||:::||| ! !:!: ++{al}SerSerProIleLysTrpGlu******LeuPro 9567 : .....................ag{tt}tcttcacctataaagtGGGAATGATAATTaccc : 6812 591 : LeuAspLeuLeuSerGlnArgLeuTyrTrpValAsp : 602 ... ...||| .!...!:!! ||| ||| PheProPheLeuLeuHisGluIleAlaTrpArgAsp 6811 : ttccccttcctgcttcACGAGATTGcctggagagac : 6774 vulgar: SPP00002933_2.0 46 602 . KB228992.1:subseq(2664082,25452) 25383 6773 - 387 M 47 141 G 0 9 M 34 102 S 0 1 5 0 2 I 0 26 3 0 2 S 1 2 M 6 18 G 2 0 M 27 81 S 0 1 5 0 2 I 0 852 3 0 2 S 1 2 M 1 3 G 0 3 M 44 132 5 0 2 I 0 329 3 0 2 M 45 135 5 0 2 I 0 315 3 0 2 M 40 120 S 0 2 5 0 2 I 0 460 3 0 2 S 1 1 M 26 78 5 0 2 I 0 445 3 0 2 M 17 51 S 0 2 5 0 2 I 0 261 3 0 2 S 1 1 M 7 21 G 0 3 M 9 27 5 0 2 I 0 243 3 0 2 M 20 60 S 0 1 5 0 2 I 0 1545 3 0 2 S 1 2 M 4 12 G 0 3 M 26 78 G 0 3 M 39 117 S 0 2 5 0 2 I 0 5298 3 0 2 S 1 1 M 15 45 S 0 2 5 0 2 I 0 2703 3 0 2 S 1 1 M 10 30 G 3 0 M 29 87 S 0 1 5 0 2 I 0 250 3 0 2 S 1 2 M 46 138 5 0 2 I 0 1431 3 0 2 M 27 81 S 0 1 5 0 2 I 0 2722 3 0 2 S 1 2 M 23 69 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 6774 25383 387 - . gene_id 2 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 25131 25383 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 25131 25383 . - . insertions 9 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 25129 25130 . - . intron_id 1 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 25101 25130 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 25101 25102 . - . intron_id 0 ; splice_site "cg" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24999 25100 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24999 25100 . - . insertions 0 ; deletions 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24997 24998 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24998 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24003 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24003 24142 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24001 24002 . - . intron_id 3 ; splice_site "CA" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23670 24002 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23670 23671 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23535 23669 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23535 23669 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23533 23534 . - . intron_id 4 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23216 23534 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23216 23217 . - . intron_id 3 ; splice_site "CG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23094 23215 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23094 23215 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23092 23093 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 22630 23093 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 22630 22631 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 22551 22629 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 22551 22629 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 22549 22550 . - . intron_id 6 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 22102 22550 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 22102 22103 . - . intron_id 5 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 22049 22101 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 22049 22101 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 22047 22048 . - . intron_id 7 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21784 22048 . - . intron_id 7 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21784 21785 . - . intron_id 6 ; splice_site "CG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21732 21783 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21732 21783 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21730 21731 . - . intron_id 8 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21485 21731 . - . intron_id 8 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21485 21486 . - . intron_id 7 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21424 21484 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21424 21484 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21422 21423 . - . intron_id 9 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19875 21423 . - . intron_id 9 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19875 19876 . - . intron_id 8 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19658 19874 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19658 19874 . - . insertions 6 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19656 19657 . - . intron_id 10 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 14356 19657 . - . intron_id 10 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 14356 14357 . - . intron_id 9 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14308 14355 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14308 14355 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14306 14307 . - . intron_id 11 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11601 14307 . - . intron_id 11 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11601 11602 . - . intron_id 10 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11482 11600 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11482 11600 . - . insertions 0 ; deletions 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11480 11481 . - . intron_id 12 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11228 11481 . - . intron_id 12 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11228 11229 . - . intron_id 11 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11088 11227 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11088 11227 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11086 11087 . - . intron_id 13 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 9653 11087 . - . intron_id 13 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 9653 9654 . - . intron_id 12 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 9571 9652 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 9571 9652 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 9569 9570 . - . intron_id 14 ; splice_site "CT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 6845 9570 . - . intron_id 14 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 6845 6846 . - . intron_id 13 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 6774 6844 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 6774 6844 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 6774 25383 387 - . alignment_id 2 ; Query SPP00002933_2.0 ; Align 25384 47 141 ; Align 25234 94 102 ; Align 25099 129 18 ; Align 25081 137 81 ; Align 24141 165 3 ; Align 24135 166 132 ; Align 23670 210 135 ; Align 23216 255 120 ; Align 22629 296 78 ; Align 22102 322 51 ; Align 21783 340 21 ; Align 21759 347 27 ; Align 21485 356 60 ; Align 19873 377 12 ; Align 19858 381 78 ; Align 19777 407 117 ; Align 14355 447 45 ; Align 11600 463 30 ; Align 11570 476 87 ; Align 11226 506 138 ; Align 9653 552 81 ; Align 6843 580 69 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 278 Query range: 82 -> 602 Target range: 25392 -> 9631 83 : LysLysThrCysAlaAspSerAspPheThrCysAspAsnGlyHisCysIleHisGluArg : 102 ::: !..!|||||| !!!:||| !|||..!||| !! !|||:!: !! ! ArgAlaValCysAlaProHisGluPheGlnCysSerAsnArgSerCysLeuAlaAlaVal 25392 : CGCGCAGTGTGCGCCCCGCACGAGTTCCAGTGCAGCAACCGCTCCTGCCTGGCCGCCGTG : 25335 103 : TrpLysCysAspGlyGluGluGluCysProAspGlySerAspGluSerGluAlaThrCys : 122 !:: !|||||||||!!:!!:!!:||| !||||||||||||||| ...!.! !..! PheValCysAspGlyAspAspAspCysGlyAspGlySerAspGlu---ArgGlyCysAla 25334 : TTCGTGTGCGACGGCGACGACGACTGCGGCGACGGCAGCGACGAG---CGCGGCTGCGCC : 25278 123 : ThrLysGlnValCysProAlaGluLysLeuSerCysGlyProThrSerHisLysCysVal : 142 ! ! ! ! ||| !||| ||| ... |||:!! AspProAlaCysGlyProArgGluPheArgCysGlyGlyGlyGlyGlyGlyAlaCysIle 25277 : GACCCGGCCTGCGGGCCCCGCGAGTTccgctgcggcggcggcggcggcggcgcctgCATC : 25218 143 : ProAlaSerTrpArgCysAspGlyGluLysAspCysGluGlyGlyAlaAspGluAlaGly : 162 |||! ! !!||| !|||||| !!:!! |||||||||! ! !!:!!|||||||||!.! ProGluArgTrpValCysAspArgGlnPheAspCysGluAspArgSerAspGluAlaAla 25217 : CCCGAGCGCTGGGTCTGCGACCGCCAGTTCGACTGCGAGGACCGCTCGGACGAGGCGGCC : 25158 163 : Cys >>>> Target Intron 1 >>>> AlaThrLeuCysAlaProHisGluPheG : 173 39 bp |||.!. ...||| :::||| Glu-+ --AlaAlaCysAlaAlaAlaAlaGlnPheA 25157 : GAGct.........................ccGCCGCctgcgccgccgccgcccagTTCG : 25086 174 : lnCysGlyAsnArgSerCysLeuAlaAlaValPheValCysAspGlyAspAspAspCysG : 193 ||| !!!:! !!..!|||:!! ! !! !!:: !|||||||||||| !|||||| laCysArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGlyAspArgAspCysL 25085 : CCTGCCGCAGCGGCGAGTGCGTGCACCTGGGCTGGCGCTGCGACGGCGACCGCGACTGCA : 25026 194 : lyAspGlySerAspGluArgGlyCys{A} >>>> Target Intron 2 >>>> {l : 202 !||| !||||||||| !! !|||{ } 185 bp { ysAspLysSerAspGluAlaAspCys{A}++ ++{r 25025 : AGGACAAGTCGGACGAGGCCGACTGC{C}gt.........................ag{G : 24813 203 : a}AspProAlaCysGlyProArgGluPheArgCysGlyGlyAspGlyGlyGlyAlaCysI : 222 !} !! ! !! !.!||| ! ! ! !! !! ! !!...|||! !! ! !!..!. g}IleHisProLeuAlaProAlaProGluThrSerGluArgSerGlyValValProAlaP 24812 : C}ATTCACCCGCTAGCCCCCGCGCCAGAGACCTCCGAACGCTCAGGGGTTGTCCCTGCCT : 24754 223 : leProGluArgTrpValCys{As} >>>> Target Intron 3 >>>> {p}ArgG : 231 !!|||! !!|||!.!|||{ } 295 bp { } !!! heProAlaCysTrpAlaCys{Le}++ ++{u}TrpP 24753 : TTCCTGCCTGCTGGGCCTGC{TT}gt.........................ag{G}TGGC : 24432 232 : lnPheAspCysGluAspArgSerAspGluAlaAlaGluLeuCysGlyArgProGlyProG : 251 !::! |||! ...:::|||......:!:||| ! |||||| . roTrpGly---GluAlaValAspGluGluThrGlyAspLeuSerPheSerProGlySerA 24431 : CCTGGGGA---GAGGCGgtggatgaggaaacaggagATCTGAGtttcagtcctggctctg : 24375 252 : lyAlaThrSer{A} >>>> Target Intron 4 >>>> {la}ProAlaAlaCysA : 260 ....! !|||{|} 220 bp {||}! !!.!.!!||| laGlyGlnSer{A}-+ ++{la}LeuGlyThrCys- 24374 : ccgGCCAGAgt{g}ct.........................ag{CT}CTGGGGACCTGC- : 24128 261 : laThrAlaSerGlnPheAlaCysArgSerGlyGluCysValHisLeuGlyTrpArgCysA : 280 !!.!..!:!!||| !||| !!..!||| ||||||! ! ! ! !||||||: --ArgGlyAspGluPheGlnCysGlyAspGlyThrCysValProThrIleLysArgCysA 24127 : --CGTGGGGACGAGTTCCAGTGTGGGGATGGGACTTGTGTCCCTACGATCAAGCGTTGCA : 24071 281 : spGlyAspArgAspCysLysAspLysSerAspGluAlaAspCys<->Pro{L} >>>> : 296 !! !!!:!:!|||||| !||| !||||||||||||! !||| ! !{ } snGlnGluGlnAspCysLeuAspGlySerAspGluAlaGlyCysLeuGln{G}++ 24070 : ACCAGGAACAGGACTGTCTGGACGGAAGTGACGAAGCTGGCTGCCTGCAG{G}gt..... : 24017 297 : Target Intron 5 >>>> {eu}GlyThrCysArgGlyAsp<->GluPheGlnCysG : 307 808 bp { !}..!||||||..!||| ! ..!||||||||| ++{lu}SerThrCysGluGlyProArgArgPheGlnCysL 24016 : ....................ag{AG}TCAACATGTGAGGGTCCCCGCAGATTTCAGTGTA : 23176 308 : lyAspGlyThrCysValLeuAlaIleLysHisCysAsnGlnGluGlnAspCysProAspG : 327 !..!||| !|||||| !!.! ||| |||:!! :!!::!||||||! !||| ysSerGlyGluCysValAspGlyGlyLysValCysAspAlaGlnArgAspCysArgAspT 23175 : AGAGTGGCGAGTGCGTGGACGGCGGGAAAGTGTGTGACGCTCAGAGAGACTGCCGGGACT : 23116 328 : lySerAspGluAlaGlyCysLeuGln{G} >>>> Target Intron 6 >>>> {l : 336 !!||||||||| !! ! ! {!} 3419 bp { rpSerAspGluProLeuLysGluCys{A}++ ++{s 23115 : GGTCAGATGAGCCTCTGAAAGAGTGT{G}gt.........................ag{A : 19669 337 : y}LeuAsnGluCysLeuHisAsnAsnGlyGlyCysSerHisIleCysThrAspLeuLysI : 356 !}:!!:!!|||||| .!.:!! !! !!.!||||||!!.||||||..!:!!! !||| p}IleAspGluCys---GluAspProAspAlaCysSerGlnIleCysValAsnTyrLysG 19668 : C}ATCGACGAGTGT---GAGGACCCCGATGCCTGCAGCCAGATCTGTGTCAACTACAAGG : 19613 357 : leGlyPheGluCysThrCysProAlaGlyPheGlnLeu<->LeuAspGlnLysThrCysG : 375 ! !|||:!!||| !|||! ! !!|||!:!:!!:!! ! |||!.!||| lyTyrPheLysCysGluCysHisProGlyTyrGluMetAspThrLeuThrLysAsnCysL 19612 : GCTACTTTAAGTGCGAGTGCCACCCCGGCTACGAGATGGACACTCTGACCAAGAACTGCA : 19553 376 : lyAspIle{A} >>>> Target Intron 7 >>>> {sp}GluCysLysAspProA : 384 !! !:!!{|} 3089 bp {||}! ! ! ! !| ysAlaVal{A}++ ++{sp}GlyAspLeuArgLysA 19552 : AGGCTGTT{G}gt.........................ag{AC}GGGGACTTGCGAAAGG : 16437 385 : spAlaCysSerGlnIleCysValAsnTyrLysGlyTyrPheLys >>>> Target In : 399 ||||| ! |||||| ! !|||! ! !!.!!:!||| 1267 spAlaGlySerGlnGlyIleTrpAsnCysProAlaPhePhePro+- 16436 : ACGCAGGATCACAGGGCATATGGAACTGCCCGGCCTTCTTCCCCgg.............. : 16390 400 : tron 8 >>>> CysGluCysTyrProGlyTyrGluMetAspLeuLeuThrLysAsnCy : 414 bp ||| !! ! !!! ! !:!! ! !!!!||||||! !!.!|| ++CysIleSerAlaThrValIleGlnArgAlaPheLeuThrMetThrCy 16389 : ...........agTGCATCAGCGCCACAGTGATCCAACGTGCCTTTCTGACCATGACCTG : 15080 415 : sLysAlaAlaAlaGlyLysSerProSerLeuIlePheThrAsnArgHisGluValArgAr : 434 | ! ! !::! !... !! !!:! !|||.!.||| ! !!|||! :!!|||! sHisLeuLeuSerHisSerLeuGlnAsnLysIleLeuThrAlaTrpHisGlyLeuArgPr 15079 : TCACCTGCTCAGTCACTCCCTCCAGAATAAAATCCTGACTGCCTGGCATGGCCTGCGGCC : 15020 435 : gIleAspLeuValLysArg{A} >>>> Target Intron 9 >>>> {sn}TyrSe : 443 !:!: ! !:!!! !{!} 239 bp {:!}|||!. oLeuProThrLeuThrSer{S}++ -+{er}TyrLy 15019 : CCTGCCCACACTTACTTCC{A}gt.........................tg{GC}TATAA : 14754 444 : rArgLeuIleProMetLeuLysAsnValVal >>>> Target Intron 10 >>>> : 454 ! !||| !|||! !:!! !:!! ! 259 bp sSerLeuSerProThrLysGlnLeuLeuGln+- + 14753 : ATCCCTGTCCCCCACTAAACAGCTCCTCCAGgc..........................a : 14464 455 : AlaLeuAspValGluValAlaThrAsnArgIleTyrTrpCysAspLeuSerTyrArgLy : 473 !.!|||! |||!!: !!.! !!!.!.!||||||||| !|||! !.!! !!!:!! +GlyLeuAlaValAspTrpValHisLysHisIleTyrTrpThrAspSerGlyAsnLysTh 14463 : gGGCCTGGCGGTAGACTGGGTCCACAAGCACATCTACTGGACTGACTCAGGCAACAAGAC : 14405 474 : sIleTyrSerAlaTyrMetAspLysAlaSerAspProLysGluGlnGluValLeuIleAs : 493 !|||! ! !||| !!:||| !.! ...!:: ..!|||.!!.. rIleSerValAlaThrIleAspGlyGly------------ArgArgCysThrLeuPheSe 14404 : GATCTCTGTGGCCACAATTGATGGCGGC------------CGCCGCTGCACTCTCTTCAG : 14357 494 : pGluGlnLeuHisSerProGluGlyLeuAlaValAspTrpValHis{Ly} >>>> Tar : 509 !....!.||| !..!|||..!!.!:!!||||||||| :!!...{ } rArgAspLeuSerGluProArgAlaIleAlaValAspProLeuArg{Gl}++ 14356 : CCGTGACCTCAGTGAACCCCGGGCCATCGCGGTCGACCCCCTGAGA{GG}gt........ : 14305 510 : get Intron 11 >>>> {s}HisIleTyrTrpThrAspSerGlyAsnLysThr<->I : 521 2707 bp {!} !!!:||||||:!!|||!!!||| !!:!!.!! | ++{y}PheMetTyrTrpSerAspTrpGlyTyrGlnAlaLysI 14304 : ..................ag{G}TTCATGTATTGGTCTGACTGGGGGTACCAGGCCAAGA : 11563 522 : leSerValAlaThrValAspGlyGlyArgArgArgThrLeuPheSerArgAsnLeuSerG : 541 ||..! !:!! !:!!:!!|||! ! !|||!:!|||||| ! ||| !|||:!!..! leGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeuValSerAspAsnIleGluT 11562 : TCGAGAAGTCTGGGCTCAATGGTGTGGACCGGCAAACACTGGTATCAGACAACATTGAAT : 11503 542 : luProArgAlaIleAlaVal{A} >>>> Target Intron 12 >>>> {sp}Pro : 549 !|||!.!!.!|||.!!:!!{|} 254 bp {||} ! rpProAsnGlyIleThrLeu{A}++ ++{sp}Leu 11502 : GGCCCAATGGAATCACCCTG{G}gt..........................ag{AT}TTG : 11225 550 : LeuArgGlyPheMetTyrTrpSerAspTrpGlyAspGlnAlaLysIleGluLysSerGly : 569 |||!.! ! !:!!|||||| !||| ..! ! ! !:!!:!!...!..! !! ! LeuAsnGlnArgLeuTyrTrpValAsp---SerLysLeuHisGlnLeuSerSerIleAsp 11224 : CTGAACCAGCGCTTGTACTGGGTGGAC---TCCAAGCTTCACCAACTATCCAGCATTGAC : 11168 570 : LeuAsnGlyValAspArgGlnThrLeuValSerAspAsnIleGluTrpProAsnGlyIle : 589 |||!:!|||! !:!!|||:!!! !|||:!!|||..! ! ! ! !:!! !.!! LeuSerGlyGlyAsnArgLysMetLeuIleSerSerProAspPheLeuSerHisProPhe 11167 : CTCAGTGGAGGCAACAGGAAGATGCTGATTTCCTCCCCTGACTTCCTGAGCCACCCTTTC : 11108 590 : ThrLeuAspLeuLeuSer >>>> Target Intron 13 >>>> GlnArgLeuTyr : 599 !:!!! !:!!!!!..! 1435 bp .!.!:!:!!!:! GlyIleAlaValPheGlu++ ++AspLysValPhe 11107 : GGGATAGCTGTGTTTGAGgt..........................agGACAAGGTGTTC : 9643 600 : TrpValAsp : 602 |||..!||| TrpThrAsp 9642 : TGGACAGAC : 9632 vulgar: SPP00002933_2.0 82 602 . KB228992.1:subseq(2664082,25452) 25392 9631 - 278 M 35 105 G 1 0 M 45 135 5 0 2 I 0 35 3 0 2 M 38 114 S 0 1 5 0 2 I 0 181 3 0 2 S 1 2 M 26 78 S 0 2 5 0 2 I 0 291 3 0 2 S 1 1 M 4 12 G 1 0 M 20 60 S 0 1 5 0 2 I 0 216 3 0 2 S 1 2 M 4 12 G 1 0 M 34 102 G 0 3 M 1 3 S 0 1 5 0 2 I 0 804 3 0 2 S 1 2 M 6 18 G 0 3 M 33 99 S 0 1 5 0 2 I 0 3415 3 0 2 S 1 2 M 4 12 G 1 0 M 27 81 G 0 3 M 9 27 S 0 1 5 0 2 I 0 3085 3 0 2 S 1 2 M 20 60 5 0 2 I 0 1263 3 0 2 M 42 126 S 0 1 5 0 2 I 0 235 3 0 2 S 1 2 M 12 36 5 0 2 I 0 255 3 0 2 M 29 87 G 4 0 M 22 66 S 0 2 5 0 2 I 0 2703 3 0 2 S 1 1 M 11 33 G 0 3 M 27 81 S 0 1 5 0 2 I 0 250 3 0 2 S 1 2 M 10 30 G 1 0 M 36 108 5 0 2 I 0 1431 3 0 2 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 9632 25392 278 - . gene_id 3 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 25153 25392 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 25153 25392 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 25151 25152 . - . intron_id 1 ; splice_site "CT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 25114 25152 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 25114 25115 . - . intron_id 0 ; splice_site "CC" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24999 25113 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24999 25113 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24997 24998 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24814 24998 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24814 24815 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24732 24813 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24732 24813 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24730 24731 . - . intron_id 3 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24437 24731 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24437 24438 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24363 24436 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24363 24436 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24361 24362 . - . intron_id 4 ; splice_site "ct" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24362 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 3 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24142 . - . insertions 3 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23212 24019 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23212 23213 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23089 23211 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23089 23211 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23087 23088 . - . intron_id 6 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19670 23088 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19670 19671 . - . intron_id 5 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19544 19669 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19544 19669 . - . insertions 3 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19542 19543 . - . intron_id 7 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 16455 19543 . - . intron_id 7 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 16455 16456 . - . intron_id 6 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 16393 16454 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 16393 16454 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 16391 16392 . - . intron_id 8 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 15126 16392 . - . intron_id 8 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 15126 15127 . - . intron_id 7 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14999 15125 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14999 15125 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14997 14998 . - . intron_id 9 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 14760 14998 . - . intron_id 9 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 14760 14761 . - . intron_id 8 ; splice_site "TG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14722 14759 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14722 14759 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14720 14721 . - . intron_id 10 ; splice_site "GC" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 14463 14721 . - . intron_id 10 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 14463 14464 . - . intron_id 9 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14308 14462 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14308 14462 . - . insertions 0 ; deletions 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14306 14307 . - . intron_id 11 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11601 14307 . - . intron_id 11 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11601 11602 . - . intron_id 10 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11482 11600 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11482 11600 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11480 11481 . - . intron_id 12 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11228 11481 . - . intron_id 12 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11228 11229 . - . intron_id 11 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11088 11227 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11088 11227 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11086 11087 . - . intron_id 13 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 9653 11087 . - . intron_id 13 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 9653 9654 . - . intron_id 12 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 9632 9652 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 9632 9652 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 9632 25392 278 - . alignment_id 3 ; Query SPP00002933_2.0 ; Align 25393 83 105 ; Align 25288 119 135 ; Align 25114 164 114 ; Align 24812 203 78 ; Align 24436 230 12 ; Align 24424 235 60 ; Align 24141 256 12 ; Align 24129 261 102 ; Align 24024 295 3 ; Align 23210 297 18 ; Align 23189 303 99 ; Align 19668 337 12 ; Align 19656 342 81 ; Align 19572 369 27 ; Align 16453 379 60 ; Align 15126 399 126 ; Align 14758 442 36 ; Align 14463 454 87 ; Align 14376 487 66 ; Align 11600 510 33 ; Align 11564 521 81 ; Align 11226 549 30 ; Align 11196 560 108 ; Align 9653 596 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 237 Query range: 58 -> 351 Target range: 25221 -> 8475 59 : CysIleProSerValTrpArgCysAspGluAspAspAspCysLeuAspHisSerAspGlu : 78 |||||||||..! !||| !||||||....!. !|||||| !|||!.!||||||||| CysIleProGluArgTrpValCysAspArgGlnPheAspCysGluAspArgSerAspGlu 25221 : tgCATCCCCGAGCGCTGGGTCTGCGACCGCCAGTTCGACTGCGAGGACCGCTCGGACGAG : 25164 79 : Asp{A} >>>> Target Intron 1 >>>> {sp}CysProLysLysThrCysAla : 87 ! {!} 36 bp { !}...||| ...||| Ala{A}-- -+{la}AlaProAlaAlaCysAlaAla 25163 : GCG{G}cc.........................cg{CC}GCGCCCGCCGCctgcgccgcc : 25101 88 : AspSerAspPheThrCysAspAsnGlyHisCysIleHisGluArgTrpLysCysAspGly : 107 :::...|||.!!||| !!:!|||.!.|||:!:||| ! !!|||:::||||||||| AlaAlaGlnPheAlaCysArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGly 25100 : gccgcccagTTCGCCTGCCGCAGCGGCGAGTGCGTGCACCTGGGCTGGCGCTGCGACGGC : 25041 108 : GluGluGluCysProAspGlySerAspGluSerGluAla{T} >>>> Target Intr : 121 !!:...!!:||| !||| !|||||||||:!!!!:..!{ } 632 bp AspArgAspCysLysAspLysSerAspGluAlaAspCys{G}++ 25040 : GACCGCGACTGCAAGGACAAGTCGGACGAGGCCGACTGC{C}gt................ : 24996 122 : on 2 >>>> {hr}Cys{T} >>>> Target Intron 3 >>>> {hr}LysGln : 125 { !}|||{:} 218 bp {!!} ! ! ++{ln}Cys{S}++ ++{er}LeuGly 24995 : .........ag{Ag}tgc{t}gt.........................ag{CT}CTGGGG : 24137 126 : ValCysProAlaGluLysLeuSerCysGlyProThrSerHisLysCysValProAlaSer : 145 ..!|||! !!.!!!::!!!!!..!|||||| ! !!!! |||||||||.!!! ! ThrCysArgGlyAspGluPheGlnCysGlyAspGlyThr------CysValProThrIle 24136 : ACCTGCCGTGGGGACGAGTTCCAGTGTGGGGATGGGACT------TGTGTCCCTACGATC : 24083 146 : TrpArgCysAspGlyGluLysAspCysGluGlyGlyAlaAspGluAlaGlyCysAlaThr : 165 !||||||:!! !|||:!!|||||| !! !|||::!||||||||||||||| ! ! LysArgCysAsnGlnGluGlnAspCysLeuAspGlySerAspGluAlaGlyCysLeuGln 24082 : AAGCGTTGCAACCAGGAACAGGACTGTCTGGACGGAAGTGACGAAGCTGGCTGCCTGCAG : 24023 166 : {L} >>>> Target Intron 4 >>>> {eu}CysAlaProHis{Gl} >>>> T : 171 { } 458 bp { !} ! ! !|||{..} {G}++ ++{ly}ProLeuGlyHis{Ar}++ 24022 : {G}gt.........................ag{GG}CCTCTAGGGCAC{AG}gt...... : 23543 172 : arget Intron 5 >>>> {u}PheGlnCysGlyAsnArgSerCysLeuAlaAlaVal : 183 359 bp {!}||||||||| !!:! !!..!|||:!!! !!.!! ! ++{g}PheGlnCysLysSerGlyGluCysValAspGlyGly 23542 : ...................ag{A}TTTCAGTGTAAGAGTGGCGAGTGCGTGGACGGCGGG : 23152 184 : PheValCysAspGlyAspAspAspCysGlyAspGlySerAspGluArg >>>> Targe : 200 |||||||||!.!.!. |||||| !!||| !!|||||||||! ! LysValCysAspAlaGlnArgAspCysArgAspTrpSerAspGluPro-+ 23151 : AAAGTGTGTGACGCTCAGAGAGACTGCCGGGACTGGTCAGATGAGCCTct.......... : 23099 201 : t Intron 6 >>>> GlyCysAlaAspProAlaCysGlyProArgGluPheArgCysG : 214 375 bp !.!! ! ! !|||||| ! ||| ||| ... | ++AlaPheGlnProProAlaGlyIleProAlaGluGlyGluValG 23098 : ...............agGCCTTCCAGCCCCCTGCAGGAATccctgcagagggagaggtag : 22684 215 : lyGlyAspGlyGlyGlyAlaCys >>>> Target Intron 7 >>>> IleProGl : 224 |||||.!. !!.!|||::! 713 bp ! ! !|| lyGlyGlnGlnAlaGlySerGln++ +-Thr***Gl 22683 : ggggACAGCAGGCAGGGAGCCAAgt.........................acACCTAAGA : 21941 225 : uArgTrpValCysAspArgGlnPheAspCysGluAspArgSerAspGluAlaAlaGluLe : 244 |::::::|||||| ! !||||||! ..!!!! !:!!!.!...:! uGlnTyrValCysMetTyrLeuCysLeuCysGluGlyGluArgProMetSerValSerMe 21940 : GcagtatgtatgcatgtatttgtgTCTCTGTGAGGGGGAGAGGCCAATGTCTGTGTCCAT : 21881 245 : uCysGlyArgPro{G} >>>> Target Intron 8 >>>> {ly}ProGlyAlaTh : 253 !..! !! !|||{ } 423 bp { !}||| ! !! tAlaProProPro{L}++ ++{ys}ProPheTyrMe 21880 : GGCTCCTCCTCCG{A}gt.........................ag{AG}CCATTCTACAT : 21431 254 : rSerAlaProAlaAlaCysAla >>>> Target Intron 9 >>>> ThrAlaSer : 263 !!!! ! ! ... |||::: 265 bp ||| ! !! tCys***SerValLysCysSer++ ++ThrLeuArg 21430 : GTGCTAGTCtgtcaagtgctcagt.........................agactcTCCGG : 21136 264 : GlnPheAlaCys{A} >>>> Target Intron 10 >>>> {rg}SerGlyGluCy : 272 ..!!::!.!|||{ } 1246 bp {!!} !..!||||| SerTrpGlyCys{T}++ ++{rp}LeuAsnGluCy 21135 : TCATGGGGTTGC{T}gt..........................ag{GG}CTGAACGAGTG : 19863 273 : sValHisLeuGlyTrpArgCysAspGlyAspArgAspCysLysAspLysSerAspGluAl : 292 |:!!||| !..! !! !!|||..! ! ! !! ! ! ! .!! !|||.. sLeuHisAsnAsnGlyGlyCysSerHisIleCysThrAspLeuLysIleGlyPheGluCy 19862 : TCTGCACAACAATGGGGGCTGCTCCCACATCTGCACAGACCTCAAGATCGGCTTTGAGTG : 19803 293 : aAspCysProLeuGlyThrCysArgGlyAspGluPheGlnCysGly{A} >>>> Targ : 308 ! |||||| !||| ! ! ! !|||:!! ||||||{|} sThrCysProAlaGlyTyrGlnLeuLeuAspGlnLysThrCysGly{A}++ 19802 : CACATGCCCAGCAGGCTACCAGCTCCTAGACCAGAAGACCTGCGGC{G}gt......... : 19752 309 : et Intron 11 >>>> {sp}GlyThrCysValLeuAlaIleLysHisCysAsnGlnG : 321 7717 bp {||}... ::: ::::::... ...:::. +-{sp}SerArgTyrSerIleAsnValGlnGluArgArgGluA 19751 : .................ac{ac}agtaggtactcaataaacgttcaagaaagaagagaga : 11999 322 : luGlnAspCysProAspGlySerAspGluAlaGly{C} >>>> Target Intron 1 : 333 ..... ! |||..!..!||| !|||.!! !{.} 3431 bp rgAsnProGlyProSerSerSerCysGluThrPro{A}++ 11998 : gaaaccctGGGCCGAGTTCCAGCTGTGAGACCCCG{G}gt.................... : 11960 334 : 2 >>>> {ys}LeuGlnGlyLeuAsnGluCysLeuHisAsnAsnGlyGlyCysSerHis : 349 {.!} !.!.!.!! !.!. ! !! !!!. !||||||||||||..!:!! ++{la}AlaAspAlaCysGluLeuSerAlaGlnProAsnGlyGlyCysGluTyr 11959 : ......ag{CT}GCAGATGCCTGCGAGCTGAGTGCCCAGCCCAATGGCGGCTGTGAGTAC : 8484 350 : IleCys : 351 :!:||| LeuCys 8483 : CTGTGC : 8476 vulgar: SPP00002933_2.0 58 351 . KB228992.1:subseq(2664082,25452) 25221 8475 - 237 M 21 63 S 0 1 5 0 2 I 0 32 3 0 2 S 1 2 M 40 120 S 0 1 5 0 2 I 0 628 3 0 2 S 1 2 M 1 3 S 0 1 5 0 2 I 0 214 3 0 2 S 1 2 M 15 45 G 2 0 M 25 75 S 0 1 5 0 2 I 0 454 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 355 3 0 2 S 1 1 M 28 84 5 0 2 I 0 371 3 0 2 M 22 66 5 0 2 I 0 709 3 0 2 M 27 81 S 0 1 5 0 2 I 0 419 3 0 2 S 1 2 M 11 33 5 0 2 I 0 261 3 0 2 M 7 21 S 0 1 5 0 2 I 0 1242 3 0 2 S 1 2 M 39 117 S 0 1 5 0 2 I 0 7713 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 3427 3 0 2 S 1 2 M 18 54 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 8476 25221 237 - . gene_id 4 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 25158 25221 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 25158 25221 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 25156 25157 . - . intron_id 1 ; splice_site "CC" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 25122 25157 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 25122 25123 . - . intron_id 0 ; splice_site "CG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24999 25121 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24999 25121 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24997 24998 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24367 24998 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24367 24368 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24361 24366 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24361 24366 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24359 24360 . - . intron_id 3 ; splice_site "gt" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24360 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24142 . - . insertions 0 ; deletions 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 4 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23562 24019 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23562 23563 . - . intron_id 3 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23546 23561 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23546 23561 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23544 23545 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23187 23545 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23187 23188 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23102 23186 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23102 23186 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23100 23101 . - . intron_id 6 ; splice_site "CT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 22727 23101 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 22727 22728 . - . intron_id 5 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 22661 22726 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 22661 22726 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 22659 22660 . - . intron_id 7 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21948 22660 . - . intron_id 7 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21948 21949 . - . intron_id 6 ; splice_site "AC" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21866 21947 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21866 21947 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21864 21865 . - . intron_id 8 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21443 21865 . - . intron_id 8 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21443 21444 . - . intron_id 7 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21408 21442 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21408 21442 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21406 21407 . - . intron_id 9 ; splice_site "gt" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21143 21407 . - . intron_id 9 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21143 21144 . - . intron_id 8 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21121 21142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21121 21142 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21119 21120 . - . intron_id 10 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19875 21120 . - . intron_id 10 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19875 19876 . - . intron_id 9 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19755 19874 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19755 19874 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19753 19754 . - . intron_id 11 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 12038 19754 . - . intron_id 11 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 12038 12039 . - . intron_id 10 ; splice_site "ac" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11963 12037 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11963 12037 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11961 11962 . - . intron_id 12 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 8532 11962 . - . intron_id 12 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 8532 8533 . - . intron_id 11 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 8476 8531 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 8476 8531 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 8476 25221 237 - . alignment_id 4 ; Query SPP00002933_2.0 ; Align 25222 59 63 ; Align 25120 81 120 ; Align 24365 122 3 ; Align 24141 124 45 ; Align 24096 141 75 ; Align 23560 167 12 ; Align 23186 172 84 ; Align 22727 200 66 ; Align 21948 222 81 ; Align 21441 250 33 ; Align 21143 261 21 ; Align 19873 269 117 ; Align 12036 309 72 ; Align 8530 334 54 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 205 Query range: 41 -> 262 Target range: 25119 -> 22993 42 : GlyProAlaLysAspCysGluLysAspGlnPheGlnCysArgAsnGluArgCysIlePro : 61 !.!|||||| ... |||||| ||||||!:!! ..!|||:!:! ! AlaProAlaAlaCysAlaAlaAlaAlaGlnPheAlaCysArgSerGlyGluCysValHis 25119 : GCGCCCGCCGCctgcgccgccgccgcccagTTCGCCTGCCGCAGCGGCGAGTGCGTGCAC : 25062 62 : SerValTrpArgCysAspGluAspAspAspCysLeuAspHisSerAspGluAspAspCys : 81 !! !||||||||||||! ||| !|||||| !||| ! |||||||||! !|||||| LeuGlyTrpArgCysAspGlyAspArgAspCysLysAspLysSerAspGluAlaAspCys 25061 : CTGGGCTGGCGCTGCGACGGCGACCGCGACTGCAAGGACAAGTCGGACGAGGCCGACTGC : 25002 82 : {P} >>>> Target Intron 1 >>>> {ro}LysLysThrCysAlaAspSerAsp : 90 {|} 856 bp {||} ! !|||||| !! ..!!!: {P}++ ++{ro}LeuGlyThrCysArgGlyAspGlu 25001 : {C}gt.........................ag{CT}CTGGGGACCTGCCGTGGGGACGAG : 24119 91 : PheThrCysAspAsnGlyHisCysIleHisGluArgTrpLysCysAspGlyGluGluGlu : 110 ||| !|||! :!!||| !|||:!!! ! !! ! !:::|||:!! !|||:!!!!: PheGlnCysGlyAspGlyThrCysValProThrIleLysArgCysAsnGlnGluGlnAsp 24118 : TTCCAGTGTGGGGATGGGACTTGTGTCCCTACGATCAAGCGTTGCAACCAGGAACAGGAC : 24059 111 : CysProAspGlySerAspGluSerGluAlaThrCys{T} >>>> Target Intron : 123 |||! !|||||||||||||||:!!! ..! ! {.} 312 bp CysLeuAspGlySerAspGluAlaGlyCysLeuGln{A}++ 24058 : TGTCTGGACGGAAGTGACGAAGCTGGCTGCCTGCAG{G}gt................... : 24017 124 : 2 >>>> {hr}LysGlnValCysProAlaGluLysLeuSerCysGlyProThrSerHis : 139 {!!}:!!! !! !|||!.!.!. ||| !! ! ! !! ! ! ++{la}GluProProSerProGlyAsnProLeuHisSerGlnMetIleLeuTrp 24016 : ......ag{CT}GAGCCTCCGTCCCCAGGGAACCCCCTTCATTCTCAGATGATTCTCTGG : 23660 140 : LysCysValProAlaSerTrpArgCysAspGlyGluLysAspCysGluGlyGlyAlaAsp : 159 ..!! :!!|||.!!!!! !!!!! ||| !!!: ! ! ...|||! ! !||| SerSerLeuProThrCysArgSerGlnAspProAspHisArgSerSerGlyGluMetAsp 23659 : TCATCACTTCCCACCTGCAGGAGCCAGGACCCTGACCATAGGTCATCTGGGGAAATGGAT : 23600 160 : GluAlaGlyCysAlaThrLeuCysAlaProHisGluPheGlnCysGlyAsn{A} >>>> : 177 :!! ! ! !!::! !:!!..!:!!||| :!! !! ! |||!..{ } LysArgLeuGlySerGluValAlaSerProMetGlnGlyLeu***GlyThr{A}++ 23599 : AAAAGGTTGGGCAGTGAGGTGGCCTCCCCTATGCAGGGCCTCTAGGGCACA{G}gt.... : 23543 178 : Target Intron 3 >>>> {rg}SerCysLeuAlaAlaValPheValCysAspGly : 188 117 bp { !}!!!!! ! ! !!.!:!!.!.:!! ! !||| ++{la}Arg***CysLeuGlyIleLeuIleIleProGly 23542 : .....................ag{CT}AGATGATGCTTGGGTATCCTGATTATTCCTGGG : 23396 189 : AspAspAspCysGlyAspGlySerAspGluArgGlyCys{A} >>>> Target Intr : 202 ! ! !! ! !!!!: !|||..!.!.!:! !|||{!} 142 bp ValLeuProPhe***GluGlnSerSerHisGlnProCys{G}-+ 23395 : GTCCTGCCCTTCTGAGAGCAGAGCTCCCACCAGCCCTGT{G}tt................ : 23351 203 : on 4 >>>> {la}AspProAlaCysGlyProArgGluPheArgCysGlyGlyAspGly : 217 { !}... !!..! |||||||||..!|||!:!||| ! ++{lu}SerThrCysGluGlyProArgArgPheGlnCys---------Lys 23350 : .........ag{AG}TCAACATGTGAGGGTCCCCGCAGATTTCAGTGT---------AAG : 23176 218 : GlyGlyAlaCysIleProGluArgTrpValCysAspArgGlnPheAspCysGluAspArg : 237 .!!|||! !|||:!: !! !! ||||||||| !||| ||||||..!||| !! SerGlyGluCysValAspGlyGlyLysValCysAspAlaGlnArgAspCysArgAspTrp 23175 : AGTGGCGAGTGCGTGGACGGCGGGAAAGTGTGTGACGCTCAGAGAGACTGCCGGGACTGG : 23116 238 : SerAspGluAlaAlaGluLeuCysGlyArg >>>> Target Intron 5 >>>> P : 248 ||||||||| !! !:!! !||||||! ! 45 bp | SerAspGluProLeuLysGluCysGlyThr++ ++P 23115 : TCAGATGAGCCTCTGAAAGAGTGTGGTACAgt.........................agc : 23038 249 : roGlyProGlyAlaThrSerAlaProAlaAlaCysAlaThrAla : 262 ||...|||||| ! !|||! ! !! !|||||| !:!!||| roSerProGlyIleArgSerGluAlaHisAlaCysLeuSerAla 23037 : cctctcctggCATCCGGTCCGAGGCCCATGCCTGCCTCTCTGCA : 22994 vulgar: SPP00002933_2.0 41 262 . KB228992.1:subseq(2664082,25452) 25119 22993 - 205 M 40 120 S 0 1 5 0 2 I 0 852 3 0 2 S 1 2 M 40 120 S 0 1 5 0 2 I 0 308 3 0 2 S 1 2 M 53 159 S 0 1 5 0 2 I 0 113 3 0 2 S 1 2 M 24 72 S 0 1 5 0 2 I 0 138 3 0 2 S 1 2 M 11 33 G 3 0 M 31 93 5 0 2 I 0 41 3 0 2 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 22994 25119 205 - . gene_id 5 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24999 25119 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24999 25119 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24997 24998 . - . intron_id 1 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24998 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 0 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24142 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23708 24019 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23708 23709 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23546 23707 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23546 23707 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23544 23545 . - . intron_id 3 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23429 23545 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23429 23430 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23354 23428 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23354 23428 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23352 23353 . - . intron_id 4 ; splice_site "TT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23212 23353 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23212 23213 . - . intron_id 3 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23084 23211 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23084 23211 . - . insertions 0 ; deletions 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23082 23083 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23039 23083 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23039 23040 . - . intron_id 4 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 22994 23038 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 22994 23038 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 22994 25119 205 - . alignment_id 5 ; Query SPP00002933_2.0 ; Align 25120 42 120 ; Align 24141 83 120 ; Align 23706 124 159 ; Align 23427 178 72 ; Align 23210 203 33 ; Align 23177 217 93 ; Align 23039 248 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 172 Query range: 248 -> 826 Target range: 25413 -> 276 249 : GlyProGlyAlaThrSerAlaProAlaAlaCysAlaThrAlaSerGlnPheAlaCysArg : 268 |||||| !!.!:!! !:!!! !|||!.!|||||| !! !:!!||| !|||!!! GlyProThrGlySerLeuSerArgAlaValCysAla---ProHisGluPheGlnCysSer 25413 : GGGCCGACCGGCTCTCTGTCCCGCGCAGTGTGCGCC---CCGCACGAGTTCCAGTGCAGC : 25359 269 : SerGlyGluCysValHisLeuGlyTrpArgCysAspGlyAspArgAspCysLysAspLys : 288 !:! !!...|||:!! ! !! !!:: !|||||||||||| !|||||| ||| AsnArgSerCysLeuAlaAlaValPheValCysAspGlyAspAspAspCysGlyAspGly 25358 : AACCGCTCCTGCCTGGCCGCCGTGTTCGTGTGCGACGGCGACGACGACTGCGGCGACGGC : 25299 289 : SerAspGluAlaAspCysProLeuGlyThrCysArgGlyAspGluPheGlnCysGly{As : 308 ||||||||| !! !||| !! ! !.!!||| !! ! !||||||:::||||||{! SerAspGluArgGlyCysAlaAspProAlaCysGlyProArgGluPheArgCysGly{Gl 25298 : AGCGACGAGCGCGGCTGCGCCGACCCGGCCTGCGGGCCCCGCGAGTTccgctgcggc{gg : 25239 309 : } >>>> Target Intron 1 >>>> {p}GlyThrCysValLeuAlaIleLysHis : 317 } 162 bp {!}||| !||||||! ! ! ! !!.! }-- ++{y}GlyGluCysValHisLeuGlyTrpArg 25238 : }cg.........................ag{C}GGCGAGTGCGTGCACCTGGGCTGGCGC : 25050 318 : CysAsnGlnGluGlnAspCysProAspGlySerAspGluAlaGlyCysLeuGlnGlyLeu : 337 |||:!! !!:!::|||||| !||| !||||||||||||! !|||! !:!! !! ! CysAspGlyAspArgAspCysLysAspLysSerAspGluAlaAspCysArgLysProPro 25049 : TGCGACGGCGACCGCGACTGCAAGGACAAGTCGGACGAGGCCGACTGCCGTAAGCCCCCG : 24990 338 : AsnGluCysLeuHisAsnAsnGlyGlyCysSerHisIle{C} >>>> Target Intr : 351 !! |||! !... ! !! !! !:!! !:!:{.} 805 bp ProProTrpLeuProGlyPheArgTrpAspAlaGlyLeu{A}+- 24989 : CCGCCCTGGTTACCTGGGTTCCGGTGGGACGCGGGCTTG{G}gg................ : 24945 352 : on 2 >>>> {ys}ThrAspLeuLysIleGlyPheGluCysThrCysProAlaGlyPhe : 366 {.!} !! ! !||| !|||! ! !||| !! !||| ! ++{la}LeuGlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyThr 24944 : .........ag{CT}CTGGGGACCTGCCGTGGGGACGAGTTCCAGTGTGGGGATGGGACT : 24098 367 : GlnLeuLeuAspGlnLysThrCysGlyAspIleAspGluCysLysAspProAspAlaCys : 386 :!!! ! ||| !|||..!.!. !.!.!!:||| !||| ! ::! ! CysValProThrIleLysArgCysAsnGlnGluGlnAspCysLeuAsp---GlySerAsp 24097 : TGTGTCCCTACGATCAAGCGTTGCAACCAGGAACAGGACTGTCTGGAC---GGAAGTGAC : 24041 387 : SerGlnIleCysValAsnTyrLysGlyTyrPheLysCysGluCysTyrProGlyTyrGlu : 406 ..! !|||:!!.!. ! ! !! !!::!:! ..! !! !! !! !! !||| GluAlaGlyCysLeuGlnGlyAlaTrpGlyTrpArgGlnArgGlyAspThrLeuSerGlu 24040 : GAAGCTGGCTGCCTGCAGGGTGCGTGGGGTTGGAGGCAGAGGGGCGACACCCTCTCTGAG : 23981 407 : MetAspLeuLeuThrLysAsnCysLysAlaAlaAlaGlyLysSerProSerLeuIlePhe : 426 ! ! !||| !:!! ..!! !!:!! !::! !! !::!!!! ! !! !:!: !! ArgAlaLeuSerSerProGlySerArgGluSerArgValArgArgGlyLeuProLeuVal 23980 : AGAGCCCTGAGCTCTCCCGGCTCCAGAGAGAGCAGAGTTCGGAGAGGTCTCCCCTTGGTC : 23921 427 : ThrAsnArgHisGluValArgArgIleAspLeuValLysArgAsnTyrSerArgLeuIle : 446 !!!..! ! ! !!:!..! ! !!|||:!! ! !|||||| !! !|||:!! ProArgMetCysLeuProGlnGluHisHisLeuLeuProProAsnTyrProAspLeuLeu 23920 : CCTAGGATGTGTCTTCCCCAAGAGCATCACTTGTTGCCCCCAAATTACCCAGATTTACTC : 23861 447 : ProMet >>>> Target Intron 3 >>>> LeuLysAsnValValAlaLeuAspV : 457 ||| ! 1042 bp :!!... ||| !|||! !..!! ProAla++ ++IleSer***ValCysAlaProSerG 23860 : CCTGCGgt.........................agATCTCTTGAGTGTGTGCTCCCTCTG : 22786 458 : alGluValAlaThrAsnArgIleTyrTrpCysAspLeuSerTyrArgLysIleTyrSerA : 477 ! !! ! !||| !!.!!! ! ..!||||||!!! ! ! !! !..!| luThrPheLeuLeuAsnGlyPheCysLeuAlaAspLeuThrArgAlaLeuAlaSerGluA 22785 : AAACTTTCCTCCTCAATGGTTTCTGCCTTGCTGACCTCACCAGGGCCCTGGCCTCTGAGG : 22726 478 : laTyrMetAspLysAlaSerAspProLysGluGlnGluValLeuIleAspGluGlnLeuH : 497 ||!:!..! ! |||.!! ||| ||| |||||| !.!.:!! ! ! laPheGlnProProAlaGlyIleProAlaGluGlyGluValGlyGlyGlnGlnAlaGlyS 22725 : CCTTCCAGCCCCCTGCAGGAATccctgcagagggagaggtagggggACAGCAGGCAGGGA : 22666 498 : isSer >>>> Target Intron 4 >>>> ProGluGlyLeuAlaValAspTrpVa : 507 !..! 4998 bp ||| !||| !:!!:!!! !||| erGln++ ++ProProGlyAsnSerLeuAlaTrpHi 22665 : GCCAAgt.........................agCCCCCAGGGAACTCATTAGCCTGGCA : 17638 508 : lHisLysHisIleTyrTrpThr{As} >>>> Target Intron 5 >>>> {p}Se : 516 !... :!: !!|||{ } 1339 bp { } ! sArgCysThrValThrGlyThr{Ar}++ ++{g}Pr 17637 : TAGATGCACAGTGACAGGGACC{AG}gt.........................ag{G}CC : 16272 517 : rGlyAsnLysThrIleSerVal{Al} >>>> Target Intron 6 >>>> {a}Th : 525 !|||!..|||! !:!!!!!:!!{ } 1726 bp {!}.! oGlyArgLysLysLeuTrpLeu{Tr}++ +-{p}Al 16271 : AGGAAGGAAGAAGCTCTGGCTT{TG}gt.........................aa{G}GC : 14519 526 : rValAspGlyGlyArgArgArgThrLeuPheSerArgAsnLeuSerGluProArgAlaIl : 545 ! !||| !!.!..!!:!..!..!|||.!...!..!.!.||| !...|||..!!.!:! aSerAspProAlaGluGlnGluValLeuMetAspGluGlnLeuHisSerProGluGlyLe 14518 : CAGCGACCCGGCGGAGCAGGAGGTCCTCATGGATGAGCAGCTGCACTCTCCGGAGGGCCT : 14459 546 : eAlaValAspProLeuArgGlyPheMetTyrTrpSerAspTrpGlyAspGlnAlaLysIl : 565 :||||||||| !:!!!.! ! !!!:||||||!!!|||! |||:!!:!!.!! || uAlaValAspTrpValHisLysHisIleTyrTrpThrAspSerGlyAsnLysThr---Il 14458 : GGCGGTAGACTGGGTCCACAAGCACATCTACTGGACTGACTCAGGCAACAAGACG---AT : 14402 566 : eGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeuValSerAspAsnIleGluTr : 585 |... !:!! !:!!:!!|||! ! !||| |||||| !!||| !:!!:!!... eSerValAlaThrIleAspGlyGlyArgArgCysThrLeuPheSerArgAspLeuSerGl 14401 : CTCTGTGGCCACAATTGATGGCGGCCGCCGCTGCACTCTCTTCAGCCGTGACCTCAGTGA : 14342 586 : pProAsnGlyIleThrLeuAspLeuLeuSer{Gl} >>>> Target Intron 7 >> : 596 |||...!.!|||.!!:!!|||! !|||!!!{ } 2707 bp uProArgAlaIleAlaValAspProLeuArg{Gl}++ 14341 : ACCCCGGGCCATCGCGGTCGACCCCCTGAGA{GG}gt....................... : 14305 597 : >> {n}ArgLeuTyrTrpValAsp<->SerLysLeuHisGlnLeuSerSerIleAspPh : 613 {!} !:!!|||||| !||| .!! ! ! ! !:!!:!!..!!.! !! .! ++{y}PheMetTyrTrpSerAspTrpGlyTyrGlnAlaLysIleGluLysSerGlyLe 14304 : ..ag{G}TTCATGTATTGGTCTGACTGGGGGTACCAGGCCAAGATCGAGAAGTCTGGGCT : 11548 614 : eSerGlyGlyAsnArgLysThrLeuIleSerSerThrAspPheLeuSerHisProPheGl : 633 !!:!|||! !:!!|||:!!||||||:!!|||..!!.! ! ! ! !!:!! !.!! uAsnGlyValAspArgGlnThrLeuValSerAspAsnIleGluTrpProAsnGlyIleTh 11547 : CAATGGTGTGGACCGGCAAACACTGGTATCAGACAACATTGAATGGCCCAATGGAATCAC : 11488 634 : yIle{A} >>>> Target Intron 8 >>>> {la}ValPheGluAspLysValPh : 642 !:!:{!} 254 bp { !}:!!.!..!..!.::::!!!: rLeu{A}++ ++{sp}LeuLeuAsnGlnArgLeuTy 11487 : CCTG{G}gt.........................ag{AT}TTGCTGAACCAGCGCTTGTA : 11207 643 : eTrpThrAspLeuGluAsnGluAlaIlePheSerAlaAsnArgLeuAsnGlyLeuGluIl : 662 !|||..!|||! !:!! !.!. !:!!! !||| !:!!! ! !...||| !..!! rTrpValAspSerLysLeuHisGlnLeuSerSerIleAspLeuSerGlyGlyAsnArgLy 11206 : CTGGGTGGACTCCAAGCTTCACCAACTATCCAGCATTGACCTCAGTGGAGGCAACAGGAA : 11147 663 : eSerIleLeuAla<-><->GluAsnLeuAsnAsnProHisAspIleValIlePheHis : 680 ! !:!::!!:!! !!: !|||!:!:!!||| !! |||!.!:!:|||.!. sMetLeuIleSerSerProAspPheLeuSerHisProPheGlyIleAlaValPheGlu++ 11146 : GATGCTGATTTCCTCCCCTGACTTCCTGAGCCACCCTTTCGGGATAGCTGTGTTTGAGgt : 11087 681 : >>>> Target Intron 9 >>>> GluLeuLysGlnProArgAlaProAspAlaCys : 690 1302 bp |||!!! !.!. !||||||! ! !||| ++GluPheValAspArgArgAlaGlnArgArgCys 11086 : .........................aggaATTTGTGGACAGGAGAGCTCAGCGGAGATGT : 9755 691 : GluLeuSerValGlnProAsnGlyGlyCysGluTyrLeuCysLeuProAlaProGlnIle : 710 :!! !||| ! !!:!||| ! ! ! !! ! ! ! !!.! !! :!! LysGlySerSerCysAspSerGlyLeuGlyProSerProGlnSerGluValMetProLeu 9754 : AAGGGCAGTTCTTGTGACAGTGGTTTGGGGCCAAGCCCTCAGTCTGAGGTCATGCCTTTA : 9695 711 : SerSerHisSerProLysTyrThrCysAlaCysProAspThrMetTrp{L} >>>> Ta : 727 .!!|||...:!!||| ! !||| !||| !! !||| {:} GlySerArgAlaPro---IleLeuCysIleCysThrProThrGlyGln{V}++ 9694 : GGCTCTAGAGCTCCC---ATCCTCTGCATCTGTACCCCCACAGGACAA{G}gt....... : 9644 728 : rget Intron 10 >>>> {eu}GlyProAspMetLysArgCysTyrArgAlaProGl : 739 1106 bp {!!} !!! ! ! !||| ! ! !::! !!|| -+{al}ProSerAlaAlaAspAlaCysGluLeuSerAlaGl 9643 : ...................tg{tg}ccaTCAGCTGCAGATGCCTGCGAGCTGAGTGCCCA : 8505 740 : nSerThrSerThr{T} >>>> Target Intron 11 >>>> {hr}ThrLeuAlaS : 748 | !!!.!.!! !{:} 1196 bp {!!} !!! !:!!! nProAsnGlyGly{S}++ ++{er}ProGlnSerT 8504 : GCCCAATGGCGGC{T}gt..........................ag{CA}CCTCAATCTA : 7282 749 : erThrMetThrArgThrValProAlaThrThrArgAlaProGlyThrThrValHisArgS : 768 !!:!!! |||! ! !!.!|||.!!|||||||||.!!! !!.! !|||..!...! ! hrSerThrThrThrLeuAlaProThrThrThrArgThrArgAlaAspThrThrArgThrP 7281 : CCTCAACTACGACGTTAGCTCCTACCACAACGAGGACACGAGCCGACACCACGAGAACCC : 7222 769 : erThrTyrGlnAsnHisSerThrGluThrProSerLeuThrAlaAlaValProSerSerV : 788 !! ! ! !|||||| ! !! !!:!! !!:!.!!! !..!|||||| !! roGlyThrThrValHisSerLeuThrTyrGlnAsnArgSerThrGluThrProSerLeuA 7221 : CCGGGACCACTGTCCACAGCCTCACCTACCAGAACCGCAGCACAGAGACACCAAGCCTGG : 7162 789 : alSerValProArgAlaProSerIleSerProSerThrLeuSerProAlaThrSerAsnH : 808 .!:!!||| !! !::!||| ! ! !|||!!!.!!! !||| ! ! !!|||!.!! laAlaValValProSerProValGlyValProArgAlaProSerIleLysProSerThrP 7161 : CAGCTGTGGTCCCAAGTCCGGTTGGTGTCCCCAGGGCTCCCAGCATCAAGCCCTCTACCC : 7102 809 : isSerGlnHisTyrAlaAsnGluAspSerLys{M} >>>> Target Intron 12 > : 819 |||! !::!|||.!...!..! ! { } 6769 bp roSerProAlaThrSerAsnHisSerGlnHis{T}++ 7101 : CAAGCCCTGCGACCAGCAACCACTCCCAGCAC{T}gt....................... : 7066 820 : >>> {et}GlySerThrValThrAlaAla : 826 { !}|||!!!! !|||||||||||| -+{rp}GlyThrLysValThrAlaAla 7065 : ...cg{GG}GGAACCAAGGTCACAGCTGCA : 277 vulgar: SPP00002933_2.0 248 826 . KB228992.1:subseq(2664082,25452) 25413 276 - 172 M 12 36 G 1 0 M 46 138 S 0 2 5 0 2 I 0 158 3 0 2 S 1 1 M 42 126 S 0 1 5 0 2 I 0 801 3 0 2 S 1 2 M 31 93 G 1 0 M 65 195 5 0 2 I 0 1038 3 0 2 M 50 150 5 0 2 I 0 4994 3 0 2 M 16 48 S 0 2 5 0 2 I 0 1335 3 0 2 S 1 1 M 8 24 S 0 2 5 0 2 I 0 1722 3 0 2 S 1 1 M 39 117 G 1 0 M 31 93 S 0 2 5 0 2 I 0 2703 3 0 2 S 1 1 M 6 18 G 0 3 M 32 96 S 0 1 5 0 2 I 0 250 3 0 2 S 1 2 M 31 93 G 0 6 M 13 39 5 0 2 I 0 1298 3 0 2 M 36 108 G 1 0 M 10 30 S 0 1 5 0 2 I 0 1102 3 0 2 S 1 2 M 16 48 S 0 1 5 0 2 I 0 1192 3 0 2 S 1 2 M 74 222 S 0 1 5 0 2 I 0 6765 3 0 2 S 1 2 M 7 21 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 277 25413 172 - . gene_id 6 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 25238 25413 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 25238 25413 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 25236 25237 . - . intron_id 1 ; splice_site "cg" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 25076 25237 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 25076 25077 . - . intron_id 0 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24948 25075 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24948 25075 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24946 24947 . - . intron_id 2 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24947 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23853 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23853 24142 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23851 23852 . - . intron_id 3 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 22811 23852 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 22811 22812 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 22661 22810 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 22661 22810 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 22659 22660 . - . intron_id 4 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 17663 22660 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 17663 17664 . - . intron_id 3 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 17613 17662 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 17613 17662 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 17611 17612 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 16274 17612 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 16274 16275 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 16247 16273 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 16247 16273 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 16245 16246 . - . intron_id 6 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 14521 16246 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 14521 14522 . - . intron_id 5 ; splice_site "AA" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14308 14520 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14308 14520 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14306 14307 . - . intron_id 7 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11601 14307 . - . intron_id 7 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11601 11602 . - . intron_id 6 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11482 11600 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11482 11600 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11480 11481 . - . intron_id 8 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11228 11481 . - . intron_id 8 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11228 11229 . - . intron_id 7 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11088 11227 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11088 11227 . - . insertions 6 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11086 11087 . - . intron_id 9 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 9786 11087 . - . intron_id 9 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 9786 9787 . - . intron_id 8 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 9647 9785 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 9647 9785 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 9645 9646 . - . intron_id 10 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 8541 9646 . - . intron_id 10 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 8541 8542 . - . intron_id 9 ; splice_site "tg" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 8490 8540 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 8490 8540 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 8488 8489 . - . intron_id 11 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 7294 8489 . - . intron_id 11 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 7294 7295 . - . intron_id 10 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 7069 7293 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 7069 7293 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 7067 7068 . - . intron_id 12 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 300 7068 . - . intron_id 12 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 300 301 . - . intron_id 11 ; splice_site "CG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 277 299 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 277 299 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 277 25413 172 - . alignment_id 6 ; Query SPP00002933_2.0 ; Align 25414 249 36 ; Align 25378 262 138 ; Align 25075 309 126 ; Align 24141 352 93 ; Align 24048 384 195 ; Align 22811 449 150 ; Align 17663 499 48 ; Align 16273 516 24 ; Align 14520 525 117 ; Align 14403 565 93 ; Align 11600 597 18 ; Align 11579 603 96 ; Align 11226 636 93 ; Align 11127 667 39 ; Align 9786 680 108 ; Align 9678 717 30 ; Align 8539 728 48 ; Align 7292 745 222 ; Align 298 820 21 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 162 Query range: 136 -> 310 Target range: 25359 -> 7121 137 : ThrSerHisLysCysValProAlaSerTrpArgCysAspGlyGluLysAspCysGluGly : 156 !:!!:!!.!...|||:!! !!||| !!:: !|||||||||!!: ! ||||||! ! ! SerAsnArgSerCysLeuAlaAlaValPheValCysAspGlyAspAspAspCysGlyAsp 25359 : AGCAACCGCTCCTGCCTGGCCGCCGTGTTCGTGTGCGACGGCGACGACGACTGCGGCGAC : 25302 157 : GlyAlaAspGluAlaGlyCysAla<->ThrLeuCysAlaProHisGluPheGlnCys<-> : 175 |||::!|||||| !||||||||| !! !|||!.!|||!.!||||||:::||| GlySerAspGluArgGlyCysAlaAspProAlaCysGlyProArgGluPheArgCysGly 25301 : GGCAGCGACGAGCGCGGCTGCGCCGACCCGGCCTGCGGGCCCCGCGAGTTccgctgcggc : 25242 176 : <-><->GlyAsnArgSerCysLeuAlaAlaValPheValCysAspGlyAspAspAspCys : 192 |||... :::|||:!! !!! ! !!::||||||||| !!.!. !|||||| GlyGlyGlyGlyGlyAlaCysIleProGluArgTrpValCysAspArgGlnPheAspCys 25241 : ggcggcggcggcggcgcctgCATCCCCGAGCGCTGGGTCTGCGACCGCCAGTTCGACTGC : 25182 193 : GlyAspGlySerAspGluArgGly >>>> Target Intron 1 >>>> CysAlaA : 203 ! !||| !!||||||||| !!.! 1009 bp ...||| GluAspArgSerAspGluAlaAla+- -+AlaAlaL 25181 : GAGGACCGCTCGGACGAGGCGGCCga.........................tgGCAGCTC : 24140 204 : spProAlaCysGlyProArgGluPheArgCysGlyGlyAspGlyGlyGlyAlaCysIleP : 223 !.!!||| !! ! !||||||!:!||| |||! !|||.!!|||:!!| euGlyThrCysArgGlyAspGluPheGlnCys---------GlyAspGlyThrCysValP 24139 : TGGGGACCTGCCGTGGGGACGAGTTCCAGTGT---------GGGGATGGGACTTGTGTCC : 24089 224 : roGluArgTrpValCysAspArgGlnPheAspCysGluAspArgSerAspGluAlaAlaG : 243 || !! ! ! !|||:!!!:!:!! |||||| !||| !!||||||||||||!.! roThrIleLysArgCysAsnGlnGluGlnAspCysLeuAspGlySerAspGluAlaGlyC 24088 : CTACGATCAAGCGTTGCAACCAGGAACAGGACTGTCTGGACGGAAGTGACGAAGCTGGCT : 24029 244 : luLeuCys{G} >>>> Target Intron 2 >>>> {ly}ArgProGlyProGlyA : 252 ||| {|} 1312 bp {||}! |||... ||| ysLeuGln{G}++ ++{ly}IleProAlaGluGlyG 24028 : GCCTGCAG{G}gt.........................ag{GA}ATccctgcagagggag : 22690 253 : la >>>> Target Intron 3 >>>> ThrSerAlaProAlaAla >>>> Targ : 259 2915 bp |||!!! !||||||||| lu++ ++ThrArgArgProAlaAla++ 22689 : aggt.........................agACCAGAAGACCTGCGGCGgt......... : 19752 260 : et Intron 4 >>>> CysAlaThrAla >>>> Target Intron 5 >>>> S : 263 85 bp :!!|||::! 10871 bp : ++ThrSerThrSer++ ++A 19751 : ................agACATCGACGAGTgt.........................agG : 8786 264 : erGlnPheAlaCysArgSerGlyGluCysValHisLeuGlyTrpArgCysAspGlyAspA : 283 !!... ! !|||!.!||||||! !|||..!||||||..! ! !! ...||| ! laSerGlyIleCysHisSerGlyAlaCysThrHisLeuSerGluLeuSerSerGlyLeuL 8785 : CGTCTGGTATCTGTCATTCCGGGGCATGCACCCACCTCTCAGAGTTGTCATCAGGACTGA : 8726 284 : rgAspCysLysAsp{L} >>>> Target Intron 6 >>>> {ys}SerAspGluA : 292 :!!:: {:} 1521 bp {!!} !!.!..!. ysGluSerGlyGly{G}++ ++{lu}ProGlnHisA 8725 : AGGaaagtggtggg{g}gt.........................ag{AA}CCGCAGCACA : 7178 293 : laAspCysProLeuGlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyThr : 310 !||| ! !! !|||!:!||| !! ! ! ... ! !||| !.!.|||:!! rgAspThrLysProGlySerCysGlyProLysSerGlyTrpCysProGlnGlySer 7177 : GAGACACCAAGCCTGGCAGCTGTGGTCCCAAGTCCGGTTGGTGTCCCCAGGGCTCC : 7122 vulgar: SPP00002933_2.0 136 310 . KB228992.1:subseq(2664082,25452) 25359 7121 - 162 M 28 84 G 0 3 M 10 30 G 0 9 M 26 78 5 0 2 I 0 1005 3 0 2 M 13 39 G 3 0 M 29 87 S 0 1 5 0 2 I 0 1308 3 0 2 S 1 2 M 6 18 5 0 2 I 0 2911 3 0 2 M 6 18 5 0 2 I 0 81 3 0 2 M 4 12 5 0 2 I 0 10867 3 0 2 M 25 75 S 0 1 5 0 2 I 0 1517 3 0 2 S 1 2 M 22 66 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 7122 25359 162 - . gene_id 7 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 25156 25359 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 25156 25359 . - . insertions 12 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 25154 25155 . - . intron_id 1 ; splice_site "GA" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24147 25155 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24147 24148 . - . intron_id 0 ; splice_site "TG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24146 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24146 . - . insertions 0 ; deletions 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 22708 24019 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 22708 22709 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 22688 22707 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 22688 22707 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 22686 22687 . - . intron_id 3 ; splice_site "gt" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19773 22687 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19773 19774 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19755 19772 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19755 19772 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19753 19754 . - . intron_id 4 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 19670 19754 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 19670 19671 . - . intron_id 3 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 19658 19669 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 19658 19669 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 19656 19657 . - . intron_id 5 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 8787 19657 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 8787 8788 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 8711 8786 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 8711 8786 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 8709 8710 . - . intron_id 6 ; splice_site "gt" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 7190 8710 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 7190 7191 . - . intron_id 5 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 7122 7189 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 7122 7189 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 7122 25359 162 - . alignment_id 7 ; Query SPP00002933_2.0 ; Align 25360 137 84 ; Align 25273 165 30 ; Align 25234 175 78 ; Align 24147 201 39 ; Align 24108 217 87 ; Align 22706 247 18 ; Align 19773 253 18 ; Align 19670 259 12 ; Align 8787 263 75 ; Align 7188 289 66 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 154 Query range: 46 -> 144 Target range: 24131 -> 3515 47 : CysGluLysAspGlnPheGlnCysArgAsnGluArgCysIleProSerValTrpArgCys : 66 |||... !|||:!!||||||||| !!:!!! !! !|||:!!|||!!!:!! !|||||| CysArgGlyAspGluPheGlnCysGlyAspGlyThrCysValProThrIleLysArgCys 24131 : TGCCGTGGGGACGAGTTCCAGTGTGGGGATGGGACTTGTGTCCCTACGATCAAGCGTTGC : 24074 67 : AspGluAspAspAspCysLeuAspHisSerAspGluAspAspCys<->Pro{L} >>>> : 83 :!!:!!!!:.!.|||||||||||| |||||||||! !! !||| ! !{:} AsnGlnGluGlnAspCysLeuAspGlySerAspGluAlaGlyCysLeuGln{G}++ 24073 : AACCAGGAACAGGACTGTCTGGACGGAAGTGACGAAGCTGGCTGCCTGCAG{G}gt.... : 24017 84 : Target Intron 1 >>>> {ys}LysThrCys<->AlaAspSerAspPheThrCys : 93 808 bp {!!}..!|||||| !.! ! !! ||| !||| ++{lu}SerThrCysGluGlyProArgArgPheGlnCys 24016 : .....................ag{AG}TCAACATGTGAGGGTCCCCGCAGATTTCAGTGT : 23179 94 : AspAsnGlyHisCysIleHisGluArgTrpLysCysAspGlyGluGluGluCysProAsp : 113 ! !:!|||.!.|||:!: !!! !! !||||||!.!:!!..!!!:|||! !||| LysSerGlyGluCysValAspGlyGlyLysValCysAspAlaGlnArgAspCysArgAsp 23178 : AAGAGTGGCGAGTGCGTGGACGGCGGGAAAGTGTGTGACGCTCAGAGAGACTGCCGGGAC : 23119 114 : GlySerAspGluSerGluAlaThrCysThrLys >>>> Target Intron 2 >>>> : 125 !!||||||||| !! ! ! !||| !! ! 9409 bp TrpSerAspGluProLeuLysGluCysGlyThr++ 23118 : TGGTCAGATGAGCCTCTGAAAGAGTGTGGTACAgt......................... : 23081 126 : GlnValCysPro{Al} >>>> Target Intron 3 >>>> {a}GluLysLeuS : 133 ::!! !||||||{ } 10099 bp {!}... | ++GluGlyCysPro{Ar}+- ++{g}ArgProAlaS 23080 : aggaGGGATGTCCC{AG}ga.........................ag{g}aggcctgctt : 3551 134 : erCysGlyProThrSerHisLysCysValProAla : 144 || ...|||||| |||||||||::: erProSerProThrProProAlaCysValProSer 3550 : ctccctctcccactccccctgcttgtgttccctct : 3516 vulgar: SPP00002933_2.0 46 144 . KB228992.1:subseq(2664082,25452) 24131 3515 - 154 M 35 105 G 0 3 M 1 3 S 0 1 5 0 2 I 0 804 3 0 2 S 1 2 M 3 9 G 0 3 M 38 114 5 0 2 I 0 9405 3 0 2 M 4 12 S 0 2 5 0 2 I 0 10095 3 0 2 S 1 1 M 15 45 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 3516 24131 154 - . gene_id 8 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24131 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24131 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 1 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 23212 24019 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 23212 23213 . - . intron_id 0 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 23084 23211 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 23084 23211 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 23082 23083 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 13675 23083 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 13675 13676 . - . intron_id 1 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 13661 13674 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 13661 13674 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 13659 13660 . - . intron_id 3 ; splice_site "GA" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 3562 13660 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 3562 3563 . - . intron_id 2 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 3516 3561 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 3516 3561 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 3516 24131 154 - . alignment_id 8 ; Query SPP00002933_2.0 ; Align 24132 47 105 ; Align 24024 82 3 ; Align 23210 84 9 ; Align 23198 87 114 ; Align 13675 125 12 ; Align 3561 130 45 # --- END OF GFF DUMP --- # C4 Alignment: ------------ Query: SPP00002933_2.0 # Protein # low density lipoprotein receptor-related protein 8 (LRP8) # Human (Homo sapiens) Target: KB228992.1:subseq(2664082,25452) Odobenus rosmarus divergens isolate Ivan unplaced genomic scaffold Scaffold115, whole genome shotgun sequence:[revcomp] Model: protein2genome:local Raw score: 137 Query range: 296 -> 801 Target range: 25389 -> 1325 297 : GlyThrCysArgGlyAspGluPheGlnCysGlyAspGlyThrCysValLeuAlaIleLys : 316 !.!..!||| ! ! !!||||||||||||.!!:!! !!:!!|||:!! !|||:!: AlaValCysAlaProHisGluPheGlnCysSerAsnArgSerCysLeuAlaAlaValPhe 25389 : GCAGTGTGCGCCCCGCACGAGTTCCAGTGCAGCAACCGCTCCTGCCTGGCCGCCGTGTTC : 25332 317 : HisCysAsnGlnGluGlnAspCysProAspGlySerAspGluAlaGlyCysLeuGlnGly : 336 |||:!! !!:.!.|||||| !||||||||||||||| !|||||| !.!. ! ValCysAspGlyAspAspAspCysGlyAspGlySerAspGluArgGlyCysAlaAspPro 25331 : GTGTGCGACGGCGACGACGACTGCGGCGACGGCAGCGACGAGCGCGGCTGCGCCGACCCG : 25272 337 : {Le} >>>> Target Intron 1 >>>> {u}AsnGluCysLeuHisAsnAsnGly : 345 { } 192 bp {!}..!||||||:!!||| ..! !! {Al}-+ ++{a}GlyGluCysValHisLeuGlyTrp 25271 : {GC}ct.........................ag{C}GGCGAGTGCGTGCACCTGGGCTGG : 25053 346 : GlyCysSerHisIleCysThrAspLeuLysIleGlyPheGluCysThrCys{P} >>>> : 363 !!|||..! ! ! !! ! ! ! ! ! ..! !|||..! !|||{|} ArgCysAspGlyAspArgAspCysLysAspLysSerAspGluAlaAspCys{P}++ 25052 : CGCTGCGACGGCGACCGCGACTGCAAGGACAAGTCGGACGAGGCCGACTGC{C}gt.... : 24996 364 : Target Intron 2 >>>> {ro}AlaGlyPheGlnLeuLeuAspGlnLysThrCys : 374 856 bp {||} !||| ! ! ! !|||:!! !||| ++{ro}LeuGlyThrCysArgGlyAspGluPheGlnCys 24995 : .....................ag{CT}CTGGGGACCTGCCGTGGGGACGAGTTCCAGTGT : 24110 375 : GlyAspIleAspGluCysLysAspProAspAlaCysSerGlnIleCysValAsnTyrLys : 394 |||||| ! ! ! ! !|||!:!||| ! ! ! ! ! GlyAspGlyThrCysValProThrIleLysArgCysAsnGlnGluGlnAspCysLeuAsp 24109 : GGGGATGGGACTTGTGTCCCTACGATCAAGCGTTGCAACCAGGAACAGGACTGTCTGGAC : 24050 395 : GlyTyrPheLysCysGluCysTyrPro{G} >>>> Target Intron 3 >>>> { : 404 ||| ! !:!!..!! ||| ! !{|} 2114 bp { GlySerAspGluAlaGlyCysLeuGln{G}++ ++{ 24049 : GGAAGTGACGAAGCTGGCTGCCTGCAG{G}gt.........................ag{ : 21905 405 : ly}TyrGluMetAspLeuLeuThrLysAsnCysLysAlaAlaAlaGlyLys >>>> Ta : 421 ||} ||| :!!:!!! !..! ! ..!! !...:!!! ! !|||||| ly}GlyGluAlaAsnValCysValHisGlySerSerSerGlu***GlyLys+- 21904 : GG}GGAGAGGCCAATGTCTGTGTCCATGGCTCCTCCTCCGAGTAAGGCAAGgg....... : 21853 422 : rget Intron 4 >>>> SerProSerLeuIlePheThrAsnArgHisGluVal >> : 433 197 bp ::!|||||| !||| !:!!!..! ! !!|||:!! ++AlaProSerArgIleThrSerArgLeuAspGluLeu+- 21852 : ..................aggcACCCAGCAGAATCACTTCCAGGCTAGATGAATTGgg.. : 21620 434 : >> Target Intron 5 >>>> ArgArgIleAspLeuValLysArgAsnTyrSerAr : 444 51 bp !!!|||:!!:!! !||| !! !:!!! ! ! ++SerArgValAsnLysValTrpThrHisSerHisSe 21619 : .......................agAGCAGGGTCAACAAGGTCTGGACCCACTCTCATTC : 21538 445 : gLeuIleProMetLeuLysAsnValValAlaLeuAspValGluValAlaThrAsnArgIl : 464 !||| !||||||! ! !..! !!.!||| !!.! :!! ! !!..!.!:! rLeuAlaProMetHisLeuCysThrArgGlyLeuCysAlaPheLeuPheGlnArgAsnLe 21537 : TCTCGCCCCGATGCACCTCTGCACTAGAGGACTCTGTGCTTTCCTCTTTCAGAGAAACCT : 21478 465 : eTyrTrpCysAspLeuSerTyrArgLysIleTyrSerAlaTyrMetAspLysAlaSerAs : 484 : ! ! !! |||||| :::...::!:!! |||||| uSerHisPheValLeuSerLeuPhePro---PheGlnSerHisSerThrCysAlaSerLe 21477 : GAGCCACTTTGtgctctcccttttccct---tttcagAGCCATTCTACATGTGCTAGTCt : 21421 485 : pProLysGluGlnGluValLeuIleAspGluGlnLeuHisSerProGluGlyLeuAlaVa : 504 ... ||| ::: :!: ... ! !:!! ||| ||| ... uSerSerAlaGln***IleGlnLeuLeuSerCysCysTyrLeuProGlyGlyGlyGlyGl 21420 : gtcaagtgctcagtaaatacagCTGTTGAGTTGCTGCTACctaccggggggggggggggg : 21361 505 : lAspTrpValHisLysHisIleTyrTrpThrAspSerGlyAsnLys{Th} >>>> Tar : 520 ... ... ! ! !!!:!!!|||!:!:!!{ } yGlyGlyAlaGlyTrpGlnGlnValValHisGlu***GlySerGlu{Tr}++ 21360 : gggcggggcggggtggcaGCAAGTGGTGCATGAATGAGGCAGTGAG{TG}gt........ : 21309 521 : get Intron 6 >>>> {r}IleSerValAlaThrValAspGlyGlyArgArgArgTh : 533 2646 bp {!}:!! !!||||||.!!:!! |||||| !|||||| ++{p}LeuProValAlaAlaLeuLeuGlyGlyAspArgArgGl 21308 : .................ag{G}CTTCCTGTGGCTGCTTTGCTGGGAGGAGACCGTAGGGG : 18628 534 : rLeuPheSerArgAsnLeuSerGluProArgAlaIleAlaValAspProLeuArgGlyPh : 553 !! ! !!!..!.!. !!:!.!. !|||!.!.!!!.! ! ! ||| !|||||| yHisGlyArgGluGlnGlyAsnHis***ArgGlyPheGlyPro***ProArgArgGlyAs 18627 : GCACGGGAGGGAGCAGGGAAACCATTGAAGAGGTTTTGGGCCATAACCCAGAAGAGGAGA : 18568 554 : e{M} >>>> Target Intron 7 >>>> {et}TyrTrp{S} >>>> Target : 557 { } 1094 bp { } !|||{.} 99 p{G}++ ++{ly}LeuTrp{G}++ 18567 : c{g}gt.........................ag{GC}CTCTGG{G}gt............ : 17459 558 : Intron 8 >>>> {er}AspTrpGlyAspGln{Al} >>>> Target Intron 9 : 563 1 bp {!!}..! ||||||::!{ } 1916 bp ++{ly}SerProGlyAspArg{Ar}+- 17458 : .............ag{GA}TCCCCAGGGGACAGA{CG}gg.................... : 16449 564 : >>>> {a}LysIleGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeuValSe : 580 {!} ! ! ! !.!!.! !:!! !!.!!!:!:!:!!..!|||:!!.. ++{g}AlaTyrMetAspLysAlaSerAspProAlaGluGlnGluValLeuMetAs 16448 : .....ag{T}GCCTACATGGACAAGGCCAGCGACCCGGCGGAGCAGGAGGTCCTCATGGA : 14486 581 : rAspAsnIleGluTrpProAsnGlyIleThrLeuAspLeuLeuSerGlnArgLeuTyrTr : 600 !!!:.!.:!:.!.! |||.!.|||:!:.!!:!!|||! !:!! !:!!!.!:!!||||| pGluGlnLeuHisSerProGluGlyLeuAlaValAspTrpValHisLysHisIleTyrTr 14485 : TGAGCAGCTGCACTCTCCGGAGGGCCTGGCGGTAGACTGGGTCCACAAGCACATCTACTG : 14426 601 : pValAspSerLysLeuHisGlnLeuSerSerIleAspPheSerGlyGlyAsnArgLysTh : 620 |..!|||||| ! ! !:!!||| ! ! .!!..!||||||..!||| || pThrAspSerGlyAsnLysThrIleSerValAlaThrIleAspGlyGlyArgArgCysTh 14425 : GACTGACTCAGGCAACAAGACGATCTCTGTGGCCACAATTGATGGCGGCCGCCGCTGCAC : 14366 621 : rLeuIleSerSerThrAspPheLeuSerHisProPheGlyIleAlaValPheGlu{As} : 639 ||||.!!||| !! ! ! ! ! !!!.. !!.!!!.!:!!! ! !.!...!{! } rLeuPheSerArgAspLeuSerGluProArgAlaIleAlaValAspProLeuArg{Gl}+ 14365 : TCTCTTCAGCCGTGACCTCAGTGAACCCCGGGCCATCGCGGTCGACCCCCTGAGA{GG}g : 14307 640 : >>>> Target Intron 10 >>>> {p}LysValPheTrpThrAspLeuGluAsnG : 649 2707 bp { } :!!!:!|||:!!|||! !! ! !!: + ++{y}PheMetTyrTrpSerAspTrpGlyTyrG 14306 : t..........................ag{G}TTCATGTATTGGTCTGACTGGGGGTACC : 11572 650 : luAlaIlePheSerAlaAsnArgLeuAsnGlyLeuGlu<->IleSerIleLeuAlaGluA : 668 !!|||! .!!..! !::! !!|||||||||:!!!!: !!!!:!::!!:!!!!:| lnAlaLysIleGluLysSerGlyLeuAsnGlyValAspArgGlnThrLeuValSerAspA 11571 : AGGCCAAGATCGAGAAGTCTGGGCTCAATGGTGTGGACCGGCAAACACTGGTATCAGACA : 11512 669 : snLeuAsnAsnProHisAspIleValIle{P} >>>> Target Intron 11 >>>> : 678 ||:!!.!. |||:!!! |||..!:!:{ } 598 bp snIleGluTrpProAsnGlyIleThrLeu{G}++ 11511 : ACATTGAATGGCCCAATGGAATCACCCTG{G}gt.......................... : 11479 679 : {he}HisGluLeuLys >>>> Target Intron 12 >>>> GlnProArgAla : 686 { }||| !! !:!! 3576 bp !!.! !!.! ! ++{lu}HisLeuSerGln++ ++HisLeuAsnLeu 11478 : ag{AG}CACTTGTCACAGgt..........................agCACCTCAATCTA : 7284 687 : ProAspAlaCysGluLeuSerValGlnProAsnGlyGlyCysGluTyrLeuCysLeuPro : 706 |||.!. ! ! ...! ! !:!!! !! !...||| ! ! ! ! ! !||| ProGlnLeuArgArg***LeuLeuProGlnArgGlyHisGluProThrProArgGluPro 7283 : CCTCAACTACGACGTTAGCTCCTACCACAACGAGGACACGAGCCGACACCACGAGAACCC : 7224 707 : AlaProGlnIleSerSerHisSerProLysTyrThrCysAlaCysProAspThrMetTrp : 726 !! !! !:!:|||!!! !||||||! |||...||| ! !! ! ||| ProGlyProLeuSerThrAlaSerProThrArgThrAlaAlaGlnArgHisGlnAlaTrp 7223 : CCGGGACCACTGTCCACAGCCTCACCTACCAGAACCGCAGCACAGAGACACCAAGCCTGG : 7164 727 : LeuGlyProAspMetLysArgCysTyrArgAlaProGlnSerThrSerThrThrThrLeu : 746 ! ! ! !..!... |||! ! !! !! !!.!!|||!:! !! !! ! GlnLeuTrpSerGlnValArgLeuValSerProGlyLeuProAlaSerSerProLeuPro 7163 : CAGCTGTGGTCCCAAGTCCGGTTGGTGTCCCCAGGGCTCCCAGCATCAAGCCCTCTACCC : 7104 747 : AlaSerThrMetThrArgThrValProAlaThr >>>> Target Intron 13 >>> : 758 !:!! ! !! !|||..!|||::!||| 4930 bp GlnAlaLeuArgProAlaThrThrProSerThr++ 7103 : CAAGCCCTGCGACCAGCAACCACTCCCAGCACTgt......................... : 7066 759 : > ThrArgAlaProGlyThrThrValHisArg >>>> Target Intron 14 >>> : 768 !:!! !::!||| !:!!|||:!!|||! ! 681 bp ++SerProSerProProSerThrLeuHisLeu+- 7065 : .agAGCCCCAGCCCACCATCCACCCTCCATCTGgg......................... : 2106 769 : > SerThrTyrGlnAsnHisSerThrGluThrProSerLeuThrAlaAlaValProSer : 786 |||::: ||| ||| ::: :::|||||| -+ProThrPheLeuProSerSerPheLeuProSerPheLeuProSerPheLeuProSer 2105 : .cgcccaccttccttccttcttccttccttccttccttccttccttccttccttccttcc : 1373 787 : SerValSerValProArgAlaProSerIleSerProSerThrLeu : 801 |||::: ||||||... |||||| ||| SerLeuProProSerLeuProProSerPheLeuProSerPheLeu 1372 : tccctcccaccctccctccctccttccttccttccttccttcctt : 1326 vulgar: SPP00002933_2.0 296 801 . KB228992.1:subseq(2664082,25452) 25389 1325 - 137 M 40 120 S 0 2 5 0 2 I 0 188 3 0 2 S 1 1 M 25 75 S 0 1 5 0 2 I 0 852 3 0 2 S 1 2 M 40 120 S 0 1 5 0 2 I 0 2110 3 0 2 S 1 2 M 16 48 5 0 2 I 0 193 3 0 2 M 12 36 5 0 2 I 0 47 3 0 2 M 41 123 G 1 0 M 45 135 S 0 2 5 0 2 I 0 2642 3 0 2 S 1 1 M 33 99 S 0 1 5 0 2 I 0 1090 3 0 2 S 1 2 M 2 6 S 0 1 5 0 2 I 0 987 3 0 2 S 1 2 M 5 15 S 0 2 5 0 2 I 0 1912 3 0 2 S 1 1 M 75 225 S 0 2 5 0 2 I 0 2703 3 0 2 S 1 1 M 22 66 G 0 3 M 16 48 S 0 1 5 0 2 I 0 594 3 0 2 S 1 2 M 4 12 5 0 2 I 0 3572 3 0 2 M 75 225 5 0 2 I 0 4926 3 0 2 M 10 30 5 0 2 I 0 677 3 0 2 M 34 102 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2015-11-25 ##type DNA # # # seqname source feature start end score strand frame attributes # KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local gene 1326 25389 137 - . gene_id 9 ; sequence SPP00002933_2.0 ; gene_orientation + KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 25268 25389 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 25268 25389 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 25266 25267 . - . intron_id 1 ; splice_site "CT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 25076 25267 . - . intron_id 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 25076 25077 . - . intron_id 0 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24999 25075 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24999 25075 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24997 24998 . - . intron_id 2 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 24143 24998 . - . intron_id 2 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 24143 24144 . - . intron_id 1 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 24020 24142 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 24020 24142 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 24018 24019 . - . intron_id 3 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21906 24019 . - . intron_id 3 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21906 21907 . - . intron_id 2 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21856 21905 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21856 21905 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21854 21855 . - . intron_id 4 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21659 21855 . - . intron_id 4 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21659 21660 . - . intron_id 3 ; splice_site "ag" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21623 21658 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21623 21658 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21621 21622 . - . intron_id 5 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 21572 21622 . - . intron_id 5 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 21572 21573 . - . intron_id 4 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 21312 21571 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 21312 21571 . - . insertions 0 ; deletions 1 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 21310 21311 . - . intron_id 6 ; splice_site "Gt" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 18666 21311 . - . intron_id 6 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 18666 18667 . - . intron_id 5 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 18565 18665 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 18565 18665 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 18563 18564 . - . intron_id 7 ; splice_site "gt" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 17471 18564 . - . intron_id 7 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 17471 17472 . - . intron_id 6 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 17462 17470 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 17462 17470 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 17460 17461 . - . intron_id 8 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 16471 17461 . - . intron_id 8 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 16471 16472 . - . intron_id 7 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 16452 16470 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 16452 16470 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 16450 16451 . - . intron_id 9 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 14536 16451 . - . intron_id 9 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 14536 14537 . - . intron_id 8 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 14308 14535 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 14308 14535 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 14306 14307 . - . intron_id 10 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 11601 14307 . - . intron_id 10 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 11601 11602 . - . intron_id 9 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 11482 11600 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 11482 11600 . - . insertions 3 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 11480 11481 . - . intron_id 11 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 10884 11481 . - . intron_id 11 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 10884 10885 . - . intron_id 10 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 10870 10883 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 10870 10883 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 10868 10869 . - . intron_id 12 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 7294 10869 . - . intron_id 12 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 7294 7295 . - . intron_id 11 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 7069 7293 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 7069 7293 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 7067 7068 . - . intron_id 13 ; splice_site "GT" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 2139 7068 . - . intron_id 13 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 2139 2140 . - . intron_id 12 ; splice_site "AG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 2109 2138 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 2109 2138 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice5 2107 2108 . - . intron_id 14 ; splice_site "GG" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local intron 1428 2108 . - . intron_id 14 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local splice3 1428 1429 . - . intron_id 13 ; splice_site "cg" KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local cds 1326 1427 . - . KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local exon 1326 1427 . - . insertions 0 ; deletions 0 KB228992.1:subseq(2664082,25452) exonerate:protein2genome:local similarity 1326 25389 137 - . alignment_id 9 ; Query SPP00002933_2.0 ; Align 25390 297 120 ; Align 25075 338 75 ; Align 24141 364 120 ; Align 21904 405 48 ; Align 21659 421 36 ; Align 21572 433 123 ; Align 21449 475 135 ; Align 18665 521 99 ; Align 17469 555 6 ; Align 16469 558 15 ; Align 14535 564 225 ; Align 11600 640 66 ; Align 11531 662 48 ; Align 10882 679 12 ; Align 7294 683 225 ; Align 2139 758 30 ; Align 1428 768 102 # --- END OF GFF DUMP --- # -- completed exonerate analysis