_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 1e-38 Query name: gi|755469480|gb|AHB30480.2| thioredoxin reductase 3 [Oplegnathus fasciatus] Query range: 1-602 (total 602) Target: /data/www-rg/seblastian_results/660218711/tempfiles/temptarget.fasta Chromosome: OMLM01011900.1:subseq_8881,63964_ Strand: - Positions: -Exon 1 58247 58363 -Exon 2 57577 57637 -Exon 3 56187 56296 -Exon 4 55230 55337 -Exon 5 54921 54993 -Exon 6 54696 54815 -Exon 7 54415 54557 -Exon 8 54102 54217 -Exon 9 53437 53662 -Exon 10 53143 53235 -Exon 11 51848 51924 -Exon 12 50925 51081 -Exon 13 50698 50805 -Exon 14 50233 50328 -Exon 15 50003 50137 -Exon 16 48685 48750 Redox box: no Query MPPIESDTGKNELKSRIQQLIDSNQVVVFSKSYCPFCVK <---Intron---> VKDLFKELKVECNVVELDLIE <---Intron---> DGTNYQEM |||/|/ /||||||||||||||||||||||||||||||| < 609bp > |||||||| ||||||||| || < 1280bp > |||/|||| Target MPPVENASGKNELKSRIQQLIDSNQVVVFSKSYCPFCVK VKDLFKELNVECNVVELDRIE DGTSYQEM accggagtgaagcatcacccagtacgggtaaattcttga gagctagtaggtagggtgcag ggaatcga tcctaaccgaaatacgtaattacaattttgagagctgta taattaatatagattatagt aagcgaaat gtccgtccgatacatgaggttctcaggtccacctgttgg gatgcaggtcgtcggggcca gtacccggg Query LLEMTGQKTVPNVFINKTHIGGCDKTLQ <---Intron---> AHKDGSLQQLLSGENEAYDYDLIVIGGGSGGLACSK <---Intron---> EAAL |||||||||||||||||||/||||||/| < 849bp > |||||||||||/|||||||||||||||||||||||| < 236bp > || Target LLEMTGQKTVPNVFINKTHVGGCDKTMQ AHKDGSLQQLLNGENEAYDYDLIVIGGGSGGLACSK AAAA ccgaagcaagcagtaaaacgggtgaaac gcaggacccccaggaggtgtgcagagggtggcgtta gggg ttatcgaactcatttaacatgggaacta caaaggtaattagaaacaaaattttgggcggtcgca cccc gcggtaggttttccccgtcttctcaagg ccacccgggggtaatattctcgcctaagcatgccag attc Query LGKKAMVLDYVVPTPKGTTWG <---Intron---> LGGTCVNVGCIPKKLMHQTALLGTAMQDARKFGWEFDETV <---Intron---> KHNWETM ||| |||||||||||||||| < 105bp > ||||||||||||||||||||/| ||||||||||||||| | < 138bp > ||||||| Target FGKKVMVLDYVVPTPKGTTWG LGGTCVNVGCIPKKLMHQTAMLSTAMQDARKFGWEFDEAV KHNWETM tgaagagtgtggcacagaatg cggatgaggtacaacaccagacaagacggcatgtgtgggg acatgaa tgaattttaattcccagccg gtggcgtatggtcaattaaccttgcctaacgatggataac taaagact tgggcgcgcttgcaaaaacg tctaatgcgcctcggggcggtggcacgatgcgtcggccga gaccggag Query KMAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIEPHKIK <---Intron---> AINKRGKETFYTAAKFVLATGERPRYLGIPGDKEYCITS <--- | |||||||||||||||||||||||||||||||||||||| < 197bp > | ||||||||||||||||||||||||||||||||||||| < Target KTAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIEPHKIK ATNKRGKETFYTAAKFVLATGERPRYLGIPGDKEYCITS aaggaatagttatgtaggcagaagatgagtggtagccaaa gaaacgagattaggatgtgaggacctcgacggagttaaa acctaaatgctaggagtctgaaataatacacattacaata ccaaggaactacccatttccgagcgatgtcgaaaagtcg gaggcccccagcgccggggacgtaccctctagtcaccatg aacggaggatcattgttaaacgggccgcctacggctcc Query Intron---> DDLFSLSYCPGKTLVIGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGEHMEEHGVKFLRKYVPVK <---Intron--- 439bp > |||||||||||||||/||||||||||||||||||||||||||||||||||||||||| /||||||||/||/|||| < 201bp Target DDLFSLSYCPGKTLVVGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGAYMEEHGVKFIRKFVPVK ggcttttttcgaacggggttggcgtggtcggcgcggagagctaccagtgcgagacgggtaggcggatacatgcga aattctcagcgactttgccatctagggttcgtgtatctttgctttggtaaatcagcgcataaagtattgattcta tcctcagcccgagcggcaaacttggtgtcgttgtctcgcgtaccgcgcccgcgtctttacgggttagcccgtttgg Query > VEELEAGTPGRLKVTAKSTETDEIIEGEYNT <---Intron---> VLIAVGRDACTDKIGLDKTGVKVNPK <---Intron---> NGKIPVNDE > /||||||/||||||||||||/|||||||||| < 1218bp > |||||||||||||||||| ||||| | < 766bp > ||||||||| Target IEELEAGSPGRLKVTAKSTESDEIIEGEYNT VLIAVGRDACTDKIGLDKVGVKVNSK NGKIPVNDE aggcgggtcgacagagatagaggaagggtaa gcagggcggtagaagcgagggagata agaacgagg taatacgccggtatccaccagaattagaaac tttctggacgcaatgtaatgtataca agatctaaa agggaaattcgggcatacaattactgcgcct ggaagcttacacgtcgcgggcaccc gtagtagtta Query EQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLYGGSKLK <---Intron---> CDYVNVPTTVFTPLEYGACGLSEERATELYGKDNIE <--- ||||/||||||||||||| ||||||||||||||||||||| /| < 119bp > |||/|||||||||/|||||||||||||||||//||| < Target EQTNMPHIYAIGDILEGKLELTPVAIQAGKLLARRLYGGSTVK CDYINVPTTVFTPMEYGACGLSEERATELYGEENIE gcaaaccatgaggacggatgcacggacggaccgccctggtaga tgtaagcaagtacagtggtgctggagagctgggaag aacatcatactgattagatatcctctacgattcggtaggccta gaatatcccttcctaagcggtcaagccatagaaata ggccgccctccaccgaaggggatgccgccaggaccctaaaacg cccccacattccaggtccttggagactgccggactg Query Intron---> VFHSLFWPLEFTVPNRDNNKCYGKIICNKLDS <---Intron---> DRVIGFHYLGPNAGEVTQGFGAAMKCGATKEQLDSTIGIHP 369bp > |/||||||||/||| ||||||| ||||||/|/ < 95bp > ||||||||||||||||||||||||||| ||||||/|||||| Target VYHSLFWPLEYTVPGRDNNKCYAKIICNKIDN DRVIGFHYLGPNAGEVTQGFGAAMKCGVTKEQLDNTIGIHP gtcacttccgtagcgagaaattgaaataaaga gcgagtctcgcaggggacgtgggaatggaagccgaaagacc taagttgctaactcggaaaagacattgaataa agttgtaatgcacgatcagtgcctaggtcaaataactgtac tcctgcgtggctgccacccaccagccctacct tacctcccgggtaaggggcctacgataccggggccccccca Query TCAE <---Intron---> IFTTLEVTKSSGGDITQAGCUG |||| < 1252bp > /|||| ||| || |//|||||| Target TCAE VFTTLAVTKRSGADVSQAGCUG atgg gtaacggaactggggtcggttg cgca ttcctctcagcgcatcacgggg attg gtctgcgcaatcatccgcccat * Sequence until next stop: TAA * Distance CDS-SECIS: 374 ; UGA-SECIS: 377 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = OMLM01011900.1:subseq_8881,63964_ Strand = - Positions = 48310 - 48222 Found by: Infernal (score=28.55) Covels (score=24.61) Stem2 length = 12 Apical loop length = 16 Insertion in stem2 = 0, 0 Free Energy = -12.99 ..(((((((...........(((((((((((((((..................))))))))))))))).............))))))).. model uucggucaugcg----UuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuu----u-uuucaugaccggc (({((((((...........{[[{((((([((((((................))))))])))))}]]}.........-...))))))})) target UGUGUGUUUGGGCUAUUUAAUGACGUCCUGGCUCGUAACCCAAAGUACUGAGGUGGGCAAGGAUCGAUGUCCCUCUG-CAGAAGCACCUG **** ^^ ****