_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 7e-35 Query name: gi|755469480|gb|AHB30480.2| thioredoxin reductase 3 [Oplegnathus fasciatus] Query range: 44-602 (total 602) Target: /data/www-rg/seblastian_results/820432706/tempfiles/temptarget.fasta Chromosome: JXSJ01000728.1:subseq_83825,59425_ Strand: - Positions: -Exon 1 59162 59323 -Exon 2 58425 58532 -Exon 3 58146 58218 -Exon 4 57940 58059 -Exon 5 57661 57803 -Exon 6 57179 57294 -Exon 7 56375 56600 -Exon 8 56189 56281 -Exon 9 54750 54826 -Exon 10 53729 53885 -Exon 11 53099 53206 -Exon 12 51863 51958 -Exon 13 51615 51749 -Exon 14 50000 50065 Redox box: no Query FKELKVECNVVELDLI-EDGTNYQEMLLEMTGQKTVPNVFINKTHIGGCDKTLQ <---Intron---> AHKDGSLQQLLSGENEAYDYDLIVIGGGSG /| //|/|/ | |||||| |||/|||||||||//|||||| | | ||/| < 629bp > ||/||||||||||||/|||||||||||||| Target YKYYCMKCSVLHEPLCPEDGTNYLEMLIEMTGQKTVPSIFINKTHFGDCSKTMQ AHQDGSLQQLLSGENKAYDYDLIVIGGGSG tatttaatagtcgcctcgggaatcgacagaagcaagcaataaaactggtaaaac gccggacccccaggaagtgtgtagagggtg aaaagtaggttaactgcaagcaatatttatcgaactcgtttaacatgaggacta caaaggtaattggaaacaaaattttgggcg catccgatttatatctagtaccctgggcggtagaccccccccggtctctcaagg tcacccgggggtagcgttctcgtccaaata Query GLACSK <---Intron---> EAALLGKKAMVLDYVVPTPKGTTWG <---Intron---> LGGTCVNVGCIPKKLMHQTALLGTAMQDARKFGWEFD |||||| < 206bp > |||/|||| |||||||||||| /|| < 86bp > ||||||||||||||||||||||||||||||||||||| Target GLACSK EAAMLGKKTMVLDYVVPTPKGASWG LGGTCVNVGCIPKKLMHQTALLGTAMQDARKFGWEFD gcgtta gggatgaaaagcgtggcacaggttg cggatgaggtacaacaccagtcgagacggcatgtgtg gtcgca accttgaactttaattcccagccg gtggcgtatggtcaattaaccttgcctaacgatggata ccccag atcgggggcgagctcgcaggaccg tctaatgcgcctcggggcgacggcccggcgcgtcggtc Query ETV <---Intron---> KHNWETMKMAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIEPHKIK <---Intron---> AINKRGKETFYTAAKFVL ||| < 136bp > |||||||| ||||||||||||||||||||||||||||||||/||||| < 366bp > | ||||||||||||||/| Target ETV KHNWETMKSAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIDPHKIK ATNKRGKETFYTAAKFIL gag acatgaaatggaatagttatgtaggcagaagatgagtggtagccaaa gaaacgagattaggatat ac taaagactacctaaatgctaggagtctgaaataatacacattacaata ccaaggaactacccattt ga gaccggggggggccctcagcgccggagacgccttccctagcttttacg aacagaggatcagtgtca Query ATGERPRYLGIPGDKEYCITS <---Intron---> DDLFSLSYCPGKTLVIGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGEHMEEH ||||||||||||||||||||| < 578bp > ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target ATGERPRYLGIPGDKEYCITS DDLFSLSYCPGKTLVIGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGEHMEEH gaggacctcgacggagttaaa ggcttttttcgaacgaggttggcgtggtcggcgcggagagctaccagtgcgagacgggcaggc ccgagcgatgtcgaaaagtcg aattctcagcgactttgccatctagggttcgtgtatctttgctttggtaaatcagcgaataaa tgcgggccgcctacggcccc tccccggcccgagcggcgggcggggccccgccgttccccgcgccgggcccgcgccctagcgggc Query GVKFLRKYVPVK <---Intron---> VEELEAGTPGRLKVTAKSTETDEIIEGEYNT <---Intron---> VLIAVGRDACTDKIGLDKTGVKVNP ||||||||||/| < 93bp > ||||||||||||||||||||||||||||||| < 1362bp > ||||||||||||||||||||||||| Target GVKFLRKYVPIK VEELEAGTPGRLKVTAKSTETDEIIEGEYNT VLIAVGRDACTDKIGLDKTGVKVNP ggatccatgcaa gggcgggacgacagagatagaggaagggtaa gtagggcggtagaagcgaaggagac gtattgaatcta taatacgccggtatccaccacaattagaaac tttctggacgcaatgtaacgtatac cagcccatccag ggggaacttcggggaggcaactgccgagccc cgaagcacgcgcgtcgcgagcacct Query K <---Intron---> NGKIPVNDEEQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLYGGSKLK <---Intron---> CDYVNVPTTVFTPLE | < 864bp > |||||||||||||||||||||||||||||||||||||||||||||| |/||| < 522bp > |||/||||||||||| Target K NGKIPVNDEEQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLYAGAKLK CDYINVPTTVFTPLE a agaacgagggcaagccatgaggacggatgcacggacggaccgccctgggaca tgtaagcaagtaccg a agatctaaaaacatcatactgattagagatcctctacgattcggtacgcata gaatatcccttccta gtaacagctaggccgccccctactgacggggatcccgtcgggaacccaccacg tcccctccccccggg Query YGACGLSEERATELYGKDNIE <---Intron---> VFHSLFWPLEFTVPNRDNNKCYGKIICNKLDS <---Intron---> DRVIGFHYLGPNAGE ||||||||||||||||/|||| < 1140bp > |||||||||||||| ||||/|| ||||||||| < 113bp > ||||||||||||||| Target YGACGLSEERATELYGQDNIE VFHSLFWPLEFTVPGRDNNRCYAKIICNKLDS DRVIGFHYLGPNAGE tggtgctggagagctgcgaag gtcacttccgtagcgagaaattgaaataacga gcgagtctcgcaggg agcggtcaagccatagaaata ttagttgctatctcggaaaggacattgaatag agttgtaatgcacga ctcctgaggaccggcggcccg gcctgcgtggccgccacccacccgccctagcc cactgcctgtatcag Query VTQGFGAAMKCGATKEQLDSTIGIHPTCAE <---Intron---> IFTTLEVTKSSGGDITQAGCUG |||||| ||||||||||||||||||||||| < 1549bp > |||||||||||||||||/|||| Target VTQGFGIAMKCGATKEQLDSTIGIHPTCAE IFTTLEVTKSSGGDITQSGCUG gacgtgagaatggaagccgaaagaccatgg ataacggaaatgggaactgttg tcagtgtctaggccaaatagctgtaccgca ttcctatcagcggatcacgggg gggcccacgaccctagggcccccccgcttg ccctgggcgcctacccgcccat * Sequence until next stop: TAA * Distance CDS-SECIS: 378 ; UGA-SECIS: 381 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = JXSJ01000728.1:subseq_83825,59425_ Strand = - Positions = 49621 - 49538 Found by: Infernal (score=28.97) Covels (score=24.97) Stem2 length = 11 Apical loop length = 16 Insertion in stem2 = 0, 0 Free Energy = -15.06 ..(((((((.........(((((((((((((((..................)))))))))))))))..........))))))).. model uucggucaugcg--UuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc (({([((((.........{[[{((((({((((((................))))))})))))}]]}......-...))))])})) target GUAUGUUUGGGCUGUUUGUGACGUCCUGGCCCGUAACCUUAAAUACUGAGGUGGGCGAGGAUCGAUGUCCCU-CUGCAGAAGCAC **** ^^ ****