_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:2 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 1e-27 Query name: gi|1004692634|ref|XP_015745922.1| PREDICTED: selenoprotein O [Python bivittatus] Query range: 40-592 (total 592) Target: /data/www-rg/seblastian_results/88116019/tempfiles/temptarget.fasta Chromosome: SJPD01000016.1:subseq_1928997,107359_ Strand: - Positions: -Exon 1 56944 57107 -Exon 2 55208 55411 -Exon 3 54441 54621 -Exon 4 52304 52434 -Exon 5 51569 51849 -Exon 6 50993 51143 -Exon 7 50484 50669 -Exon 8 50018 50174 -Exon 9 49672 49860 Redox box: YES Query PGAEPAAHCYCGHQFGSFAGQLGDGAAIYLGEVLNPRGERWEIQLKGAGLTPFSR <---Intron---> QADGRKVLRSSIREFLCSEAMFHLGIPTT || |||||||||||||||||||||||||||||||||||||||||||||||||||| < 1532bp > ||||||||||||||||||||||||||||| Target PGVEPAAHCYCGHQFGSFAGQLGDGAAIYLGEVLNPRGERWEIQLKGAGLTPFSR QADGRKVLRSSIREFLCSEAMFHLGIPTT cgggcggctttgcctgatggccgggggatcgggtaccggctgaccagggcacttc cgggcagcctaaagtctaggatccgacaa cgtacccagaggaatggtcgatgagcctatgattacggaggatatagcgtcctcg acaggattgcgtgattggacttatgtccc aaggcccccccacgcccccggccctgcctgcgggcgtcgcggcgcgcccctctc gaatttatagacaaactccaagttaaacac Query RAGTCVTSDSEVIRDIFYDGNPKKEKCTVVLRIAPTFIR <---Intron---> FGSFEIFKPADEYTGRKGPSVDRNDIRIQMLDYVISTFYPEILQT ||||||||||||||||||||||||||||||||||||||| < 586bp > |||||||||||||||||||||/|||||||||||||||||||||| Target RAGTCVTSDSEVIRDIFYDGNPKKEKCTVVLRIAPTFIR FGSFEIFKPADEYTGRKGPSVNRNDIRIQMLDYVISTFYPEILQA aggatgatgtggacgattggacaagataggcaagcataa tgttgatacgggtagcagcagacagacacacgtgaaattcgaccg gcgcgtccacattgattaagacaaaagctttgtcccttg tgctattaccaaacggagcgtagaatgtattaattgctacattac aaaataattaattgcatttatcaaagtatcgaaaaatt ataatattatttattatacttttactcaaagtttacttctaataaa Query HPDNNIQRNVAFFRE <---Intron---> VSRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPFGFMDR <---Intron---> YDPEHICNG / |/|/||| ||||| < 2006bp > |/|||||||||||||||||||||||||||/|||||||||||||| < 454bp > ||||||||| Target YSDDNVQRNSAFFRE VTRRTARMVAEWQCVGFCHGVLNTDNMSIVGLTIDYGPFGFMDR YDPEHICNG ttggagcaatgttcg gacaagaagggtctggttcggcaagaaaaggcaagtgctgtaga tgcgcatag acaaatagaccttga tcggccgttcagagtgtgagttacaatgttgtctaagctgttag aacaatgag catcttggtttctaa taggaaggttaggttattttgcctccgtatataactgttatgc atttgttcta Query SDNTGRYAYNKQPEICKWNLTKFAEALVPELPLEMSIPILEEEYDAEFEKHYLQIMRRKLGLIQLQLDDDNKLILDLLETMHITG <---Intron---> |||||||||||| |||||||/| || ||||||||/|/||||||||||||/|||| ||/|||||||||||||||/ | |||||||| < 425bp > Target SDNTGRYAYNKQVEICKWNLSKLAETLVPELPLEISVPILEEEYDAEFERHYLQKMRKKLGLIQLQLDDDNKLVSDFLETMHITG tgaagctgtaacggatatacaacggatgcgcccgaagcacgggtgggtgacttcaaaaacgtaccctgggaatgtgttgaacaag caacggacaaaatatgagatgatcacttcatctatgtcttaaaaacatagaataatgaatgttatataaaaattcattactatc ttcaacttttgacattagtacattacacaacagactactgaaattaatgattaaagaggaaacgcaatttcaggtccaatgtca Query ADFTNTFCLLNSFLVDSDPLKLEEFLDQISKQCASLEELKVAYKPQMDPR <---Intron---> QLSMMLMLAQSNPQLFALIGTKSNINKELERIE ||||||| ||/|| ||||| |||//||/|||||||||||||||||||||| < 323bp > ||||||||||||||||||||||||||||||||| Target ADFTNTFHLLSSFSVDSDPSKLEDYLDEISKQCASLEELKVAYKPQMDPR QLSMMLMLAQSNPQLFALIGTKSNINKELERIE ggtaaatctcatttggtgctatggttggatactgttggcaggtaccagca cctaacatgctaccctgtagaataaaagtgcag gcatcactattgctctacaccataaataatcaagcctaatatcaacatacg atctttttcacacattcttgcacataaatagta tattattctggctcaactttagaactatgtaggtataaagattcgtggtc agtaggggaagttaacttataaaatataggacaa Query QFSKLQQLTASDLVSRNKRNWKNWLQNYR <---Intron---> VRLEKEMEHISNIDTWNDERLKIMNANNPKYILRNYIAQNAIEAAENGDFLE <- ||||||||| |||/|||| /||/|||||| < 309bp > /||||||||/|| /||| ||/||||/|||||||||||||||||||||||| | < Target QFSKLQQLTESDLLSRNKGHWKDWLQNYR IRLEKEMEHVSNANTWNAERVKIMNSNNPKYILRNYIAQNAIEAAENGDFSE cttaccctagtgtcaaaagctagttcata accgagagcgaagaataggcgaaaataacatataatagcagaggggaggttg atcataatcacattggaagagaagtaaag tgtaaataatgacacgacagtattacaacaattgaatcaactaccaagatca actaaggaaatcatcatagcgacggacc atcaaaagattctttcgttgtaatgtactaatcgactttattagaaattccag Query --Intron---> VRKVLKLLERPYEDSEGFGEVSEDRDEEEGVTAAAAAVATCSSGTQERIPYSSKPPLWASELCVTUSS 157bp > /|/||||||/||||/| ||/| /|| || || ||| /|/||||||||||||||||||||| Target IRRVLKLLEKPYEDAESH-EVTEGTEEE----AAVAAATACSSASQQRIPYSSKPPLWASELCVTUSS aaagtactgactggggac-ggaggaggg----ggggggagtatgaccaactaaaccctgtgctgattt tggttattaacaaacaga-atcagcaaa----cctcccccggccgaagtcaggacctgccatgtcgcc agacgacaagatacaatt-gaaggcaga----aggccatcctaacgagtattcattcgccgcttaatg * Sequence until next stop: TAA * Distance CDS-SECIS: 272 ; UGA-SECIS: 278 ------- SECIS element -- id:2 -- grade:A ---- Chromosome = SJPD01000016.1:subseq_1928997,107359_ Strand = - Positions = 49399 - 49324 Found by: Infernal (score=13.2) Covels (score=22.77) Stem2 length = 10 Apical loop length = 19 Insertion in stem2 = 0, 0 Free Energy = -8.31 ..(((((((.......((((((((((.(((((...............))))).))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccug-gcccuAAAcCcuuuuuggggcgggc-caggcCuGAUGuuuuuucaugaccggc .(({{({((.......([[(((((((((((...................)))))))))))]])----....))})}})). target AUAAAAUCUGUGCUUGUGAAGACAAAAAUAGCAAAUCAAAUACUGGAUAUAUUUUUGUCUGAA----AAUGAGUUAAUAG **** ^^^