_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | 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: 1-602 (total 602) Target: /data/www-rg/seblastian_results/689215881/tempfiles/temptarget.fasta Chromosome: JXSJ01000302.1:subseq_266058,79392_ Strand: + Positions: -Exon 1 50000 50116 -Exon 2 50685 50745 -Exon 3 51665 51774 -Exon 4 52409 52516 -Exon 5 52721 52793 -Exon 6 52880 52999 -Exon 7 53136 53278 -Exon 8 53645 53760 -Exon 9 54339 54564 -Exon 10 54658 54750 -Exon 11 56111 56187 -Exon 12 57054 57210 -Exon 13 57733 57840 -Exon 14 58983 59078 -Exon 15 59192 59326 -Exon 16 60852 60917 Redox box: no Query MPPIESDTGKNELKSRIQQLIDSNQVVVFSKSYCPFCVK <---Intron---> VKDLFKELKVECNVVELDLIE <---Intron---> DGTNYQEM |||||/||||||||/|||||||/|||/||||/|||/||| < 568bp > ||/|||||||| ||||||||| < 919bp > ||||| || Target MPPIENDTGKNELKTRIQQLIDTNQVMVFSKTYCPYCVK VKNLFKELKVEYNVVELDLIE DGTNYLEM accagagagaagcaacacccagaacgagtaaattcttga gaactagcaggtagggtgcag ggaatcga tcctaaacgaaatacgtaattacaattttgacagcagta taattaatataaattatatt aagcaatat gtccgcccggtgcaagaaggtcccaggtccacctgctcg gacgcaggacgttggggtca gtaccctgg Query LLEMTGQKTVPNVFINKTHIGGCDKTLQ <---Intron---> AHKDGSLQQLLSGENEAYDYDLIVIGGGSGGLACSK <---Intron---> EAAL |/|||||||||//|||||| | | ||/| < 634bp > ||/||||||||||||/|||||||||||||||||||| < 204bp > |||/ Target LIEMTGQKTVPSIFINKTHFGDCSKTMQ AHQDGSLQQLLSGENKAYDYDLIVIGGGSGGLACSK EAAM cagaagcaagcaataaaactggtaaaac gccggacccccaggaagtgtgtagagggtggcgtta ggga ttatcgaactcgtttaacatgaggacta caaaggtaattggaaacaaaattttgggcggtcgca acct gcggtagaccccccccggtctctcaagg tcacccgggggtagcgttctcgtccaaataccccag atcg Query LGKKAMVLDYVVPTPKGTTWG <---Intron---> LGGTCVNVGCIPKKLMHQTALLGTAMQDARKFGWEFDETV <---Intron---> KHNWETM |||| |||||||||||| /|| < 86bp > |||||||||||||||||||||||||||||||||||||||| < 136bp > ||||||| Target LGKKTMVLDYVVPTPKGASWG LGGTCVNVGCIPKKLMHQTALLGTAMQDARKFGWEFDETV KHNWETM tgaaaagcgtggcacaggttg cggatgaggtacaacaccagtcgagacggcatgtgtggag acatgaa tgaactttaattcccagccg gtggcgtatggtcaattaaccttgcctaacgatggataac taaagact ggggcgagctcgcaggaccg tctaatgcgcctcggggcggcggcccggcgcgtcggtcga gaccgggg Query KMAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIEPHKIK <---Intron---> AINKRGKETFYTAAKFVLATGERPRYLGIPGDKEYCITS <--- | ||||||||||||||||||||||||||||||||/||||| < 366bp > | ||||||||||||||/|||||||||||||||||||||| < Target KSAVNNYIGSLNWGYRVALRDKNVNYVNAYAEFIDPHKIK ATNKRGKETFYTAAKFILATGERPRYLGIPGDKEYCITS atggaatagttatgtaggcagaagatgagtggtagccaaa gaaacgagattaggatatgaggacctcgacggagttaaa acctaaatgctaggagtctgaaataatacacattacaata ccaaggaactacccatttccgagcgatgtcgaaaagtcg ggggccctcagcgccggagacgccttccctagcttttacg aacagaggatcagtgtcatgcgggccgcctacggcccc Query Intron---> DDLFSLSYCPGKTLVIGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGEHMEEHGVKFLRKYVPVK <---Intron--- 578bp > |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||/| < 93bp Target DDLFSLSYCPGKTLVIGASYVALECGGFLAGLGLDVTVMVRSILLRGFDQDMANRAGEHMEEHGVKFLRKYVPIK ggcttttttcgaacgaggttggcgtggtcggcgcggagagctaccagtgcgagacgggcaggcggatccatgcaa aattctcagcgactttgccatctagggttcgtgtatctttgctttggtaaatcagcgaataaagtattgaatcta tccccggcccgagcggcgggcggggccccgccgttccccgcgccgggcccgcgccctagcgggccagcccatccag Query > VEELEAGTPGRLKVTAKSTETDEIIEGEYNT <---Intron---> VLIAVGRDACTDKIGLDKTGVKVNPK <---Intron---> NGKIPVNDE > ||||||||||||||||||||||||||||||| < 1360bp > |||||||||||||||||||||||||| < 866bp > ||||||||| Target VEELEAGTPGRLKVTAKSTETDEIIEGEYNT VLIAVGRDACTDKIGLDKTGVKVNPK NGKIPVNDE gggcgggacgacagagatagaggaagggtaa gtagggcggtagaagcgaaggagaca agaacgagg taatacgccggtatccaccacaattagaaac tttctggacgcaatgtaacgtataca agatctaaa ggggaacttcggggaggcaactgccgagccc cgaagcacgcgcgtcgcgagcacct gtaacagcta Query EQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLYGGSKLK <---Intron---> CDYVNVPTTVFTPLEYGACGLSEERATELYGKDNIE <--- ||||||||||||||||||||||||||||||||||||| |/||| < 522bp > |||/|||||||||||||||||||||||||||/|||| < Target EQTNVPHIYAIGDILEGKWELTPVAIQAGKLLARRLYAGAKLK CDYINVPTTVFTPLEYGACGLSEERATELYGQDNIE gcaagccatgaggacggatgcacggacggaccgccctgggaca tgtaagcaagtaccgtggtgctggagagctgcgaag aacatcatactgattagagatcctctacgattcggtacgcata gaatatcccttcctaagcggtcaagccatagaaata ggccgccccctactgacggggatcccgtcgggaacccaccacg tcccctccccccgggctcctgaggaccggcggcccg Query Intron---> VFHSLFWPLEFTVPNRDNNKCYGKIICNKLDS <---Intron---> DRVIGFHYLGPNAGEVTQGFGAAMKCGATKEQLDSTIGIHP 1142bp > |||||||||||||| ||||/|| ||||||||| < 113bp > ||||||||||||||||||||| ||||||||||||||||||| Target VFHSLFWPLEFTVPGRDNNRCYAKIICNKLDS DRVIGFHYLGPNAGEVTQGFGIAMKCGATKEQLDSTIGIHP gtcacttccgtagcgagaaattgaaataacga gcgagtctcgcaggggacgtgagaatggaagccgaaagacc ttagttgctatctcggaaaggacattgaatag agttgtaatgcacgatcagtgtctaggccaaatagctgtac gcctgcgtggccgccacccacccgccctagcc cactgcctgtatcaggggcccacgaccctagggcccccccg Query TCAE <---Intron---> IFTTLEVTKSSGGDITQAGCUG |||| < 1525bp > |||||||||||||||||/|||| Target TCAE IFTTLEVTKSSGGDITQSGCUG atgg ataacggaaatgggaactgttg cgca ttcctatcagcggatcacgggg cttg ccctgggcgcctacccgcccat * Sequence until next stop: TAA * Distance CDS-SECIS: 378 ; UGA-SECIS: 381 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = JXSJ01000302.1:subseq_266058,79392_ Strand = + Positions = 61296 - 61379 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 **** ^^ 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