_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 1e-25 Query name: gi|5107031|gb|AAD39929.1|AF133519_1 thioredoxin reductase 3, partial [Homo sapiens] Query range: 1-577 (total 577) Target: /data/www-rg/seblastian_results/655977138/tempfiles/temptarget.fasta Chromosome: NW_018329262.1:subseq_1741683,92676_ Strand: + Positions: -Exon 1 30171 30215 -Exon 2 38665 38725 -Exon 3 39644 39753 -Exon 4 42084 42188 -Exon 5 42398 42470 -Exon 6 43412 43531 -Exon 7 45696 45838 -Exon 8 46005 46120 -Exon 9 46670 46895 -Exon 10 47508 47600 -Exon 11 53662 53738 -Exon 12 54257 54413 -Exon 13 55023 55130 -Exon 14 58349 58444 -Exon 15 62323 62457 -Exon 16 62611 62676 Redox box: no Query RVVIFSKSYCPHSTR <---Intron---> VKELFSSLGVECNVLELDQVD <---Intron---> DGARVQEVLSEITNQKTVPNIFVNKVHVGGCD |||||||/||||||| < 8449bp > ||||||||||/||/||||||| < 918bp > /|| |||||||||||/|||/|||||||||||| Target RVVIFSKTYCPHSTR VKELFSSLGVDCNILELDQVD EGASVQEVLSEITNQRTVPSIFVNKVHVGGCD cggataaattccaac gagctttcgggtaacgcgcgg gggagcggctgaaacaagcaatgaagcgggtg gttttgacagcagcg taattcctgtagattataat aagcgtaattcatcaagctcgtttaatatggga cgccccgcctgccgg tagctttgatctccgattat tggctcggtcagcccggtgctctgtagcgtttc Query QTFQ <---Intron---> AYQSGLLQKLLQEDLAYDYDLIIIGGGSGGLSCAK <---Intron---> EAAILGKKVMVLDFVVPSPQGTSWG <-- ||| < 2330bp > |//|||||/|||/| ||||||/|||||||||||/ < 209bp > ||||||||||/||||||||/||||| < Target HTFQ AHRSGLLQRLLQQDPVYDYDLIVIGGGSGGLSCAQ EAAILGKKVMLLDFVVPSPRGTSWG catc gccagttccccccgcgtgtgcagagggtggcttgc gggacgaagaccgtggctccgattg acta cagggttagttaaactaaaattttgggcggtcgca accttgaattttatttcccggccg ctcg atgttaaggccggtagcccccccctgctgccgctg acccggggcgggctgcgcctcgcg Query -Intron---> LGGTCVNVGCIPKKLMHQAALLGQALCDSRKFGWEYNQQV <---Intron---> RHNWETMTKAIQNHISSLNWGYRLSLREKAVA 941bp > |||||||||||||||||||||||||| ||||||||///|| < 2164bp > /|/| |||/|||/|/ ||/||/||/|||||| Target LGGTCVNVGCIPKKLMHQAALLGQALTDSRKFGWEHSRQV KHSWATMTEAIQSHVGSLSWGHRLALREKAVT cggatgaggtacaacaccggccgcgcagtaatgtgcaccg acatgaaaggacacggtcatgcccgccgagga gtggcgtatggtcaattaaccttgactcacgatggaagga taaggcctcactagatgctgggagtctgaactc tttcatgttctcgggggcgcggaggggtcgggccgactga ggccgccgtgccgccccagcgccggtggggagc Query YVNSYGEFVEHHKIK <---Intron---> ATNKKGQETYYTAAQFVIATGERPRYLGIQGDKEYCITS <---Intron---> DDLFSLPYCPGKPL |||||||||||||/| < 166bp > |||/|||| /||||/|||||||||||||||||||||||| < 549bp > ||| ||| ||| | Target YVNSYGEFVEHHKVK ATNEKGQEAFYTAAKFVIATGERPRYLGIQGDKEYCITS DDLLSLPCCPGATL tgattggtggccaga gaagagcggttaggatgagaggaccttgacggagttaaa ggcctccttcggac atacagattaaaata ccaaagaactacccatttccgagcgatgtagaaaagtcg aattctcggcgcct cccccggtcgccacg actaaagggttctcgtccggaggaccgacgacagctcc cccgcggcccgcggg Query VVGASYVALECAGFLAGFGLDVTVMVRSILLRGFDQEMAEKVGSYMEQHGVKFLRKFIPVM <---Intron---> VQQLEKGSPGKLKVLAKSTEGTE ||||| ||||||||||| ||/|||||||/||||||//|||/||/ |/| ||/|| ||/|| < 612bp > ||||||| ||/|||/|||||||| Target VVGASCVALECAGFLAGLGLEVTVMVRSVLLRGFDRDMAERVGASMQQLGVRFLHKFVPVQ VQQLEKGLPGRLKVVAKSTEGTE ggggttggcgtggtcggcgcggagagctgcccgtgcgaggcgggtacccggctccatgcgc gcccgagccgacagggataggag ttgccgtctagcgttcgtgtatctttgctttggtagatcagtgcctaatgtgttaattcta taataagtcggtattcaccagca ggcgccggggcgccgtcgcggcggggcgccggcccgcgcgcgtccgggccgccgcgcgcgg cgggggcgcggggagtacgagag Query TIEGVYNT <---Intron---> VLLAIGRDSCTRKIGLEKIGVKINEK <---Intron---> SGKIPVNDVEQTNVPYVYAVGDILEDKPELTPVA /|||||| < 6061bp > ||||/||||||/|/||||||| |/|| < 518bp > /||| ||| |||/|||||||||/|| ||/||||| Target MMEGVYNT VLLAVGRDSCTKKLGLEKIGVNISEK TGKILVNDEEQTSVPYVYAVGDVLEGKPQLTPVA aagggtaa gttgggcgttaaatgcgaaggaaaga agaacgagggcaagctgtgggggcggacccacgg ttagtaac tttctggacgcaatgtaatgtatgaa cgatttaaaaacgtcatactgattagacatcctc gggccccg tgaatttcctgggaggggttgcctg ggcgcgaccgggctgcccctcgccggcgggccgcc Query IQSGKLLAQRLFGASLEK <---Intron---> CDYINVPTTVFTPLEYGCCGLSEEKAIEVYKKENLE <---Intron---> IYHTLFWPLEWTVA /|/|||||/|||| || < 609bp > |||/|||| ||||||||||| ||||| |||/ ||| < 3218bp > /||||||||||||| Target VQAGKLLARRLFGGRSEK CDYVNVPTVVFTPLEYGCCGYSEEKASEVYQAENLN VYHTLFWPLEWTVA gcggaccgcactggctga tgtgagcaggtactgtgttgttggagaggtcggaca gtcacttccgtagg tacgattcggttgggcaa gaatatcctttcctaaggggacaaacgataacaata taacttgctagctc gaacgggtagttgcaagg tcccccccggcgcggccctgcagggtcggcgggtgt ccctgcgtcggagc Query GRENNTCYAKIICNKFDH <---Intron---> DRVIGFHILGPNAGEVTQGFAAAMKCGLTKQLLDDTIGIHPTCGE <---Intron---> VFTTL |//||||||||||| // < 3878bp > |||/|||/|||||||/||||| ||||||||||||||||||||||| < 153bp > ||||| Target CRDSNTCYAKIICNKLEN DRVVGFHVLGPNAGEITQGFATAMKCGLTKQLLDDTIGIHPTCGE VFTTL tagaaattgaaataacga gcgggtcgcgcagggaacgtgagaatgcaacccggaagaccatgg gtaat ggagacgacattgaataa agttgtattgcacgatcagtccctaggtcaattaactgtaccgga ttcct cacccttcggacctaggc tggaatcccagccggccgctcctggtgcaggggtcccgcccgcag acccg Query EITKSSGLDITQKGCUG ||||/|||||||||||| Target EITKASGLDITQKGCUG gaaagtgcgaacagttg atcaccgtatcaagggg gccgagagccgggccac * Sequence until next stop: TAG * Distance CDS-SECIS: 128 ; UGA-SECIS: 131 ------- SECIS element -- id:1 -- grade:B ---- Chromosome = NW_018329262.1:subseq_1741683,92676_ Strand = + Positions = 62805 - 62883 Found by: Infernal (score=17.0) Covels (score=12.55) Stem2 length = 10 Apical loop length = 11 Insertion in stem2 = 0, 0 Free Energy = -25.34 ..(((((((................(((((((((((((((................)))))))))))))))........))))))).. model uucggucaugcg---------UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc ..(({(((((((.............{[[{((((({(((((.........-----..)))))})))))}]]}----.)))))))})).. target CGGGAGGGCAGACUUGCUGCCUCCUUGACGUCUUUGCUCAGAGCCGCCA-----GGUGAGCCAAGACCGAC----CUCUGCCCACCAG **** ^^ ****