Command line: [exonerate -m p2g --showtargetgff -q SPP00000034_1.0.fa -t SPP00000034_1.0.GL397326.1/GL397326.1.subseq] Hostname: [upf-OptiPlex-755] C4 Alignment: ------------ Query: SPP00000034_1.0 # Protein # Thioredoxin reductase 1 (TR1) # Homo sapiens # Complete Target: GL397326.1:subseq(9230278,124655) dna:supercontig supercontig:Nleu1.0:GL397326.1:1:14093033:1 REF Model: protein2genome:local Raw score: 2502 Query range: 0 -> 499 Target range: 45529 -> 83778 1 : MetAsnGlyProGluAspLeuProLysSerTyrAspTyrAspLeuIleIleIleGlyGly : 20 |||:!!||||||||||||||||||:!!||||||||||||||||||||||||||||||||| MetAspGlyProGluAspLeuProGluSerTyrAspTyrAspLeuIleIleIleGlyGly 45530 : ATGGACGGCCCTGAAGATCTTCCCGAGTCCTATGACTATGACCTTATCATCATTGGAGGT : 45587 21 : GlySerGlyGlyLeuAlaAlaAlaLys >>>> Target Intron 1 >>>> GluA : 31 ||||||||||||||||||||||||||| 1839 bp |||| GlySerGlyGlyLeuAlaAlaAlaLys+- ++GluA 45588 : GGCTCAGGAGGCCTGGCAGCTGCTAAGgc.........................agGAGG : 47459 32 : laAlaGlnTyrGlyLysLysValMetValLeuAspPheValThrProThrProLeuGlyT : 51 |||||!:!|||||||||||||||||||||||||||||||||||||||||||||||||||| laAlaArgTyrGlyLysLysValMetValLeuAspPheValThrProThrProLeuGlyT 47460 : CAGCCCGATATGGCAAGAAGGTGATGGTCCTGGACTTTGTCACTCCCACGCCTCTTGGAA : 47519 52 : hrArgTrp{G} >>>> Target Intron 2 >>>> {ly}LeuGlyGlyThrCysV : 60 ||||||||{|} 2472 bp {||}|||||||||||||||| hrArgTrp{G}++ ++{ly}LeuGlyGlyThrCysV 47520 : CTAGATGG{G}gt.........................ag{GT}CTTGGAGGAACATGTG : 50018 61 : alAsnValGlyCysIleProLysLysLeuMetHisGlnAlaAlaLeuLeuGlyGlnAlaL : 80 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| alAsnValGlyCysIleProLysLysLeuMetHisGlnAlaAlaLeuLeuGlyGlnAlaL 50019 : TGAATGTGGGTTGCATACCTAAAAAACTGATGCATCAAGCAGCTTTGTTAGGACAAGCCC : 50078 81 : euGlnAspSerArgAsnTyrGlyTrpLysValGluGluThr{V} >>>> Target In : 94 |||||||||||||||||||||||||||||||||||||||||{|} 2999 euGlnAspSerArgAsnTyrGlyTrpLysValGluGluThr{V}++ 50079 : TGCAAGACTCTCGAAACTATGGATGGAAAGTCGAGGAGACA{G}gt.............. : 50123 95 : tron 3 >>>> {al}LysHisAspTrpAspArgMetIleGluAlaValGlnAsnHisI : 109 bp {||}||||||||||||||||||||||||||||||||||||||||||| ++{al}LysHisAspTrpAspArgMetIleGluAlaValGlnAsnHisI 50124 : ...........ag{TT}AAGCATGATTGGGACAGAATGATAGAAGCTGTACAGAATCACA : 53164 110 : leGlySerLeuAsnTrpGlyTyrArgValAlaLeuArgGluLysLysValValTyrGluA : 129 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| leGlySerLeuAsnTrpGlyTyrArgValAlaLeuArgGluLysLysValValTyrGluA 53165 : TTGGCTCTTTGAATTGGGGCTACCGAGTAGCTCTGCGGGAGAAAAAAGTCGTCTATGAGA : 53224 130 : snAlaTyrGlyGlnPheIleGlyProHisArgIleLys >>>> Target Intron 4 : 142 |||||||||||||||||||||||||||||||||||||| 282 bp snAlaTyrGlyGlnPheIleGlyProHisArgIleLys++ 53225 : ATGCTTACGGGCAATTTATTGGTCCTCATAGGATTAAGgt.................... : 53265 143 : >>>> AlaThrAsnAsnLysGlyLysGluLysIleTyrSerAlaGluArgPheLeuIl : 159 ||||||||||||||||||||||||||||||||||||||||||||||||||||| ++AlaThrAsnAsnLysGlyLysGluLysIleTyrSerAlaGluArgPheLeuIl 53266 : .....agGCAACTAATAATAAAGGCAAAGAAAAAATTTATTCAGCAGAGAGATTTCTCAT : 53596 160 : eAlaThrGlyGluArgProArgTyrLeuGlyIleProGlyAspLysGluTyrCysIleSe : 179 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| eAlaThrGlyGluArgProArgTyrLeuGlyIleProGlyAspLysGluTyrCysIleSe 53597 : TGCCACTGGTGAAAGACCACGTTACTTGGGCATCCCTGGTGACAAAGAATACTGCATCAG : 53656 180 : r{Se} >>>> Target Intron 5 >>>> {r}AspAspLeuPheSerLeuProTy : 188 |{||} 1330 bp {|}||||||||||||||||||||||| r{Se}++ ++{r}AspAspLeuPheSerLeuProTy 53657 : C{AG}gt.........................ag{T}GATGATCTTTTCTCCTTGCCTTA : 55013 189 : rCysProGlyLysThrLeuValValGlyAlaSerTyrValAlaLeuGluCysAlaGlyPh : 208 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| rCysProGlyLysThrLeuValValGlyAlaSerTyrValAlaLeuGluCysAlaGlyPh 55014 : CTGCCCGGGTAAGACTCTGGTTGTTGGAGCATCCTATGTCGCCTTGGAGTGTGCTGGATT : 55073 209 : eLeuAlaGlyIleGlyLeuAspValThrValMetValArgSerIleLeuLeuArgGlyPh : 228 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| eLeuAlaGlyIleGlyLeuAspValThrValMetValArgSerIleLeuLeuArgGlyPh 55074 : TCTTGCTGGTATTGGTTTAGACGTCACTGTTATGGTTAGGTCCATTCTTCTTAGAGGATT : 55133 229 : eAspGlnAspMetAlaAsnLysIleGlyGluHisMetGluGluHisGlyIleLysPheIl : 248 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| eAspGlnAspMetAlaAsnLysIleGlyGluHisMetGluGluHisGlyIleLysPheIl 55134 : TGACCAGGACATGGCCAACAAAATTGGTGAACACATGGAAGAACATGGCATCAAGTTTAT : 55193 249 : eArgGlnPheValProIleLys >>>> Target Intron 6 >>>> ValGluGln : 258 |||||||||||||||||||||| 2935 bp ||||||||| eArgGlnPheValProIleLys++ ++ValGluGln 55194 : AAGACAGTTTGTACCAATTAAAgt.........................agGTTGAACAA : 58158 259 : IleGluAlaGlyThrProGlyArgLeuArgValValAlaGlnSerThrAsnSerGluGlu : 278 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| IleGluAlaGlyThrProGlyArgLeuArgValValAlaGlnSerThrAsnSerGluGlu 58159 : ATTGAAGCGGGGACACCAGGCCGACTCAGAGTAGTAGCTCAGTCCACCAATAGTGAGGAA : 58218 279 : IleIleGluGlyGluTyrAsnThr >>>> Target Intron 7 >>>> ValMetL : 289 |||||||||||||||||||||||| 908 bp |||:!!| IleIleGluGlyGluTyrAsnThr++ ++ValLeuL 58219 : ATCATTGAAGGAGAATATAATACGgt.........................agGTGTTGC : 59159 290 : euAlaIleGlyArgAspAlaCysThrArgLysIleGlyLeuGluThrValGlyValLysI : 309 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||: euAlaIleGlyArgAspAlaCysThrArgLysIleGlyLeuGluThrValGlyValLysL 59160 : TGGCAATAGGAAGAGATGCTTGCACAAGAAAAATTGGCTTAGAAACCGTAGGGGTGAAGC : 59219 310 : leAsnGlu{Ly} >>>> Target Intron 8 >>>> {s}ThrGlyLysIleProV : 318 !!||||||{||} 1073 bp {|}|||||||||||||||| euAsnGlu{Ly}++ ++{s}ThrGlyLysIleProV 59220 : TAAATGAA{AA}gt.........................ag{G}ACTGGAAAAATACCTG : 60319 319 : alThrAspGluGluGlnThrAsnValProTyrIleTyrAlaIleGlyAspIleLeuGluA : 338 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| alThrAspGluGluGlnThrAsnValProTyrIleTyrAlaIleGlyAspIleLeuGluA 60320 : TCACAGATGAAGAACAGACCAATGTGCCTTACATTTATGCCATTGGCGATATACTGGAGG : 60379 339 : spLysValGluLeuThrProValAlaIleGlnAlaGlyArgLeuLeuAlaGlnArgLeuT : 358 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| spLysValGluLeuThrProValAlaIleGlnAlaGlyArgLeuLeuAlaGlnArgLeuT 60380 : ATAAGGTGGAGCTCACCCCAGTTGCAATCCAGGCAGGAAGATTGCTGGCTCAGAGGCTCT : 60439 359 : yrAlaGlySerThrValLys >>>> Target Intron 9 >>>> CysAspTyrGl : 368 |||||||||||||||||||| 3344 bp ||||||||||| yrAlaGlySerThrValLys++ ++CysAspTyrGl 60440 : ATGCAGGTTCCACTGTCAAGgt.........................agTGTGACTATGA : 63813 369 : uAsnValProThrThrValPheThrProLeuGluTyrGlyAlaCysGlyLeuSerGluGl : 388 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| uAsnValProThrThrValPheThrProLeuGluTyrGlyAlaCysGlyLeuSerGluGl 63814 : AAATGTTCCAACCACTGTATTTACTCCTTTGGAATATGGTGCTTGTGGCCTTTCTGAGGA : 63873 389 : uLysAlaValGluLysPheGlyGluGluAsnIleGlu >>>> Target Intron 10 : 401 ||||||||||||||||||||||||||||||||||||| 2577 bp uLysAlaValGluLysPheGlyGluGluAsnIleGlu++ 63874 : GAAAGCTGTGGAGAAGTTTGGGGAAGAAAATATTGAGgt..................... : 63914 402 : >>>> ValTyrHisSerTyrPheTrpProLeuGluTrpThrIleProSerArgAspAs : 418 ||||||||||||||||||||||||||||||||||||||||||||||||||||| ++ValTyrHisSerTyrPheTrpProLeuGluTrpThrIleProSerArgAspAs 63915 : .....agGTTTACCATAGTTACTTTTGGCCATTGGAATGGACAATTCCTTCAAGAGATAA : 66540 419 : nAsnLysCysTyrAlaLysIleIleCysAsnThrLysAspAsn >>>> Target Int : 433 ||||||||||||||||||||||||||||||||||||||||||| 7933 nAsnLysCysTyrAlaLysIleIleCysAsnThrLysAspAsn++ 66541 : CAACAAATGTTACGCAAAAATAATCTGTAATACTAAAGACAATgt............... : 66587 434 : ron 11 >>>> GluArgValValGlyPheHisValLeuGlyProAsnAlaGlyGluVa : 448 bp ||||||||||||||||||||||||||||||||||||||||||||||| ++GluArgValValGlyPheHisValLeuGlyProAsnAlaGlyGluVa 66588 : ...........agGAACGTGTTGTGGGCTTTCACGTACTGGGTCCAAATGCTGGAGAAGT : 74563 449 : lThrGlnGlyPheAlaAlaAlaLeuLysCysGlyLeuThrLysLysGlnLeuAspSerTh : 468 |||||||||||||||||||||||||||||||||||||||||||!!.|||||||||||||| lThrGlnGlyPheAlaAlaAlaLeuLysCysGlyLeuThrLysAsnGlnLeuAspSerTh 74564 : TACACAAGGCTTCGCAGCTGCGCTCAAATGTGGACTGACCAAAAACCAGCTGGACAGCAC : 74623 469 : rIleGlyIleHisProValCysAlaGlu >>>> Target Intron 12 >>>> Va : 478 |||||||||||||||||||||||||||| 9060 bp || rIleGlyIleHisProValCysAlaGlu++ ++Va 74624 : AATTGGAATCCACCCTGTCTGTGCAGAGgt..........................agGT : 83713 479 : lPheThrThrLeuSerValThrLysArgSerGlyAlaSerIleLeuGlnAlaGlyCysUn : 498 |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| lPheThrThrLeuSerValThrLysArgSerGlyAlaSerIleLeuGlnAlaGlyCys** 83714 : ATTCACAACATTGTCTGTGACCAAGCGCTCTGGGGCAAGCATCCTTCAGGCTGGCTGCTG : 83773 499 : kGly : 499 ||| *Gly 83774 : AGGT : 83778 vulgar: SPP00000034_1.0 0 499 . GL397326.1:subseq(9230278,124655) 45529 83778 + 2502 M 29 87 5 0 2 I 0 1835 3 0 2 M 24 72 S 0 1 5 0 2 I 0 2468 3 0 2 S 1 2 M 39 117 S 0 1 5 0 2 I 0 2995 3 0 2 S 1 2 M 47 141 5 0 2 I 0 278 3 0 2 M 38 114 S 0 2 5 0 2 I 0 1326 3 0 2 S 1 1 M 75 225 5 0 2 I 0 2931 3 0 2 M 31 93 5 0 2 I 0 904 3 0 2 M 25 75 S 0 2 5 0 2 I 0 1069 3 0 2 S 1 1 M 52 156 5 0 2 I 0 3340 3 0 2 M 36 108 5 0 2 I 0 2573 3 0 2 M 32 96 5 0 2 I 0 7929 3 0 2 M 45 135 5 0 2 I 0 9056 3 0 2 M 22 66 # --- START OF GFF DUMP --- # # ##gff-version 2 ##source-version exonerate:protein2genome:local 2.2.0 ##date 2012-12-04 ##type DNA # # # seqname source feature start end score strand frame attributes # GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local gene 45530 83778 2502 + . gene_id 1 ; sequence SPP00000034_1.0 ; gene_orientation + GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 45530 45616 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 45530 45616 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 45617 45618 . + . intron_id 1 ; splice_site "GC" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 45617 47455 . + . intron_id 1 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 47454 47455 . + . intron_id 0 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 47456 47528 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 47456 47528 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 47529 47530 . + . intron_id 2 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 47529 50000 . + . intron_id 2 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 49999 50000 . + . intron_id 1 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 50001 50120 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 50001 50120 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 50121 50122 . + . intron_id 3 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 50121 53119 . + . intron_id 3 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 53118 53119 . + . intron_id 2 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 53120 53262 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 53120 53262 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 53263 53264 . + . intron_id 4 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 53263 53544 . + . intron_id 4 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 53543 53544 . + . intron_id 3 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 53545 53660 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 53545 53660 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 53661 53662 . + . intron_id 5 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 53661 54990 . + . intron_id 5 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 54989 54990 . + . intron_id 4 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 54991 55216 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 54991 55216 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 55217 55218 . + . intron_id 6 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 55217 58151 . + . intron_id 6 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 58150 58151 . + . intron_id 5 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 58152 58244 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 58152 58244 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 58245 58246 . + . intron_id 7 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 58245 59152 . + . intron_id 7 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 59151 59152 . + . intron_id 6 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 59153 59229 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 59153 59229 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 59230 59231 . + . intron_id 8 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 59230 60302 . + . intron_id 8 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 60301 60302 . + . intron_id 7 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 60303 60459 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 60303 60459 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 60460 60461 . + . intron_id 9 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 60460 63803 . + . intron_id 9 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 63802 63803 . + . intron_id 8 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 63804 63911 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 63804 63911 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 63912 63913 . + . intron_id 10 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 63912 66488 . + . intron_id 10 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 66487 66488 . + . intron_id 9 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 66489 66584 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 66489 66584 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 66585 66586 . + . intron_id 11 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 66585 74517 . + . intron_id 11 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 74516 74517 . + . intron_id 10 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 74518 74652 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 74518 74652 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice5 74653 74654 . + . intron_id 12 ; splice_site "GT" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local intron 74653 83712 . + . intron_id 12 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local splice3 83711 83712 . + . intron_id 11 ; splice_site "AG" GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local cds 83713 83778 . + . GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local exon 83713 83778 . + . insertions 0 ; deletions 0 GL397326.1:subseq(9230278,124655) exonerate:protein2genome:local similarity 45530 83778 2502 + . alignment_id 1 ; Query SPP00000034_1.0 ; Align 45530 1 87 ; Align 47456 30 72 ; Align 50003 55 117 ; Align 53122 95 141 ; Align 53545 142 114 ; Align 54992 181 225 ; Align 58152 256 93 ; Align 59153 287 75 ; Align 60304 313 156 ; Align 63804 365 108 ; Align 66489 401 96 ; Align 74518 433 135 ; Align 83713 478 66 # --- END OF GFF DUMP --- # -- completed exonerate analysis