_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 4e-35 Query name: gi|755469480|gb|AHB30480.2| thioredoxin reductase 3 [Oplegnathus fasciatus] Query range: 1-602 (total 602) Target: /data/www-rg/seblastian_results/855531280/tempfiles/temptarget.fasta Chromosome: WARS01000013.1:subseq_18981897,200000_:subseq_0,120000_ Strand: - Positions: -Exon 1 105029 105145 -Exon 2 104293 104353 -Exon 3 103092 103201 -Exon 4 102180 102287 -Exon 5 101841 101913 -Exon 6 101594 101713 -Exon 7 101330 101472 -Exon 8 100735 100850 -Exon 9 100003 100228 -Exon 10 99577 99669 -Exon 11 98887 98963 -Exon 12 97842 97998 -Exon 13 96743 96850 -Exon 14 95641 95736 -Exon 15 95400 95534 -Exon 16 93613 93678 Redox box: no Query MPPIESDTGKNELKSRIQQLIDSNQVVVFSKSYCPFCVK <---Intron---> VKDLFKELKVECNVVELDLIE <---Intron---> DGTNYQEM |||/|/||||||||/|||||||||||/||||||||/||| < 675bp > ||||||||||/|||||||||| < 1091bp > |||||||| Target MPPVENDTGKNELKTRIQQLIDSNQVMVFSKSYCPYCVK VKDLFKELKVDCNVVELDLIE DGTNYQEM accggagagaagcaacacccagtacgagtaaattcttga gagttagcaggtagggtgcag ggaatcga tcctaaacgaaatacgtaattacaattttgagagcagta taattaatatagattatatt aagcaaaat gtccatccggtacatgaggttcctacgtccacctgcttg gacgcaggactttggggtca gtacccggg Query LLEMTGQKTVPNVFINKTHIGGCDKTLQ <---Intron---> AHKDGSLQQLLSGENEAYDYDLIVIGGGSGGLACSK <---Intron---> EAAL |||||||||||||||||||/|||| ||| < 804bp > |||||||||||||||||||||||||||||||||||| < 266bp > |/|/ Target LLEMTGQKTVPNVFINKTHLGGCDTTLQ AHKDGSLQQLLSGENEAYDYDLIVIGGGSGGLACSK ESAI ccgaagcaagcagtaaaaccggtgaatc gcaggacccctaggaggtgtgcagagggtggcgtta gtga ttatcgaactcatttaacatgggaccta caaaggtaattggaaacaaaattttgggcggtcgca acct gtggtagattccccccgacctctcaggg ttatccgggagtaatacccccgtccaagtactccag atta Query LGKKAMVLDYVVPTPKGTTWG <---Intron---> LGGTCVNVGCIPKKLMHQTALLGTAMQDARKFGWEFDETV <---Intron---> KHNWETM |||| |||||||||||||/|| < 127bp > |||||||||||||||||||||| ||||||||||||||||| < 121bp > ||||||| Target LGKKVMVLDYVVPTPKGTSWG LGGTCVNVGCIPKKLMHQTALLATAMQDARKFGWEFDETV KHNWETM tgaagagcgtggcacagattg cggatgaggtacaacaccagtcgagacggcatgtgtggag acatgaa tgaattttaattcccagccg gtggcgtatggtcaattaaccttccctaacgatggataac taaagact ggggcgggcctgtaaaaccg cctagtgtccctcggggcggcacaccggcgcgccggccga gaccgggg Query KMAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIEPHKIK <---Intron---> AINKRGKETFYTAAKFVLATGERPRYLGIPGDKEYCITS <--- | |||||||||||||||||||||||||||||||||||||| < 479bp > | |||||||||| |||||||||||||||||||||||||| < Target KTAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIEPHKIK ATNKRGKETFYTGAKFVLATGERPRYLGIPGDKEYCITS aaggaatagttatgtaggcagaagatgagtggtagccaaa gaaacgagattaggatgtgaggacctcgacggagttaaa acctaaatgctaggagtctgaaataatacacattacaata ccaaggaactacgcatttccgagcgatgtcgaaaagtcg ggagccctcggcgccggagatgccctctccagccgtcacg gacaagggatcaatgccgtacgggtcgcctacggcccc Query Intron---> DDLFSLSYCPGKTLVIGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGEHMEEHGVKFLRKYVPVK <---Intron--- 506bp > |||||| ||||||||/|||||||||||||||||||||/||||||||||||||||||||||||||||||||||||| < 333bp Target DDLFSLPYCPGKTLVVGASYVALECGGFLAGLGLDVTIMVRSILLRGFDQDMANRAGEHMEEHGVKFLRKYVPVK ggctttcttcgaacggggttggcgtggtcggcgcggaaagctacccgtgcgagacgggcaggcggatccatgcga aattctcagcgactttgccatctagggttcgtgtatctttgctttggtaaatcagcgaataaagtattgaatcta cccccagcctgagcggcggacgcggcttcgccgtctcccgtgccgggtccgcgccctagcgagcctgcctatcaag Query > VEELEAGTPGRLKVTAKSTETDEIIEGEYNT <---Intron---> VLIAVGRDACTDKIGLDKTGVKVNPK <---Intron---> NGKIPVNDE > /|||||||||||||||||||||||||||||| < 613bp > |||||||||||||||||| ||||| | < 888bp > ||||||||| Target IEELEAGTPGRLKVTAKSTETDEIIEGEYNT VLIAVGRDACTDKIGLDKAGVKVNTK NGKIPVNDE aggcgggacgacagagatagaggaagggtaa gtagggcggtagaagtgagggagaaa agaacgagg taatacgccggtatccaccacaattagaaac tttctggacgcaatgtaacgtataca agatctaaa agggaacttcggggacgcaattgccgggcct ggaagcatacgcgtcgcgagcaccc gtaatagccg Query EQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLYGGSKLK <---Intron---> CDYVNVPTTVFTPLEYGACGLSEERATELYGKDNIE <--- ||||||||||||||||||||||||||||||||||||/| ||/| < 991bp > |||||||||||||||||||||||||||||||//||| < Target EQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLFGNSKVK CDYVNVPTTVFTPLEYGACGLSEERATELYGQENIE gcaagccatgaggacggatgcacggacggaccgccctgataga tgtgagcaagtaccgtggtgctggagagctgcgaag aacatcatactgattagagatcctctacgattcggttgacata gaatatcccttcctaagcggtcaagccatagaaata ggccgccccctactgacggggagctcgtcggggacccacagcg tctcctcctcccaggcccctgggggctgctaggccg Query Intron---> VFHSLFWPLEFTVPNRDNNKCYGKIICNKLDS <---Intron---> DRVIGFHYLGPNAGEVTQGFGAAMKCGATKEQLDSTIGIHP 1006bp > |/||| ||||||||/||||/|| ||||||||/ < 106bp > ||||||||||||||||||||||||||||||||||||||||| Target VYHSLLWPLEFTVPSRDNNRCYAKIICNKLDN DRVIGFHYLGPNAGEVTQGFGAAMKCGATKEQLDSTIGIHP gtcacctccgtagcaagaaattgaaataacga gcgagtctcgcaggggacgtgggaatggaagccgaaagacc taagttgctatctcggaaaggacattgaataa agttgtaatgcacgatcagtgcctaggccaaatagctgtac gcctgcgtggcagccgcccacccgccctagct cactgcctgtatcgggggctcccgatcccggggccctccca Query TCAE <---Intron---> IFTTLEVTKSSGGDITQAGCUG |||| < 1721bp > |||||||||/|||||||||||| Target TCAE IFTTLEVTKNSGGDITQAGCUG atgg ataatggaaatgggaacggttg cgca ttcctatcaacggatcacgggg cttg ccctgggcgcctacccgcccat * Sequence until next stop: TAA * Distance CDS-SECIS: 391 ; UGA-SECIS: 394 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = WARS01000013.1:subseq_18981897,200000_:subseq_0,120000_ Strand = - Positions = 93221 - 93143 Found by: Infernal (score=28.45) Covels (score=22.03) Stem2 length = 11 Apical loop length = 16 Insertion in stem2 = 0, 0 Free Energy = -7.19 ..(((((((.......(((((((((((((((..................)))))))))))))))..........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC---cuuuuuggggcgggccaggcCuGAUGuu-u-uuucaugaccggc .({(([(((---(...{[[{(((((({(((((................)))))}))))))}]]}......-..))))]))}). target UUCUUGCUG---UUUGUGACGUCCUCACCCGUAACCUGAAAUCCCGAGGUGGGCGAGGAUCGAUGUCCCU-CUGUGGAAGCGC **** ^^ ****