_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 8e-52 Query name: gi|965788681|ref|XP_011965380.2| PREDICTED: selenoprotein O isoform X2 [Ovis aries musimon] Query range: 1-682 (total 682) Target: /data/www-rg/seblastian_results/582675586/tempfiles/temptarget.fasta Chromosome: your_sequence Strand: + Positions: -Exon 1 49907 50478 -Exon 2 60853 61056 -Exon 3 61777 61957 -Exon 4 63055 63185 -Exon 5 63514 63794 -Exon 6 67810 67960 -Exon 7 68547 68732 -Exon 8 68825 68981 -Exon 9 69093 69275 Redox box: YES Query MAALRAALAASLAVARARPPPLGRRPPSARCSALAGAMEPAPRWLAGLRFDNRALRALPVETPPPGPEGAPSAPRPVPGACFSRARPEPLRRPRVVALSE |||||| |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target MAALRAVLAASLAEARARPPPLGRRPPSARCSALAGAMEPAPRWLAGLRFDNRALRALPVETPPPGPEGAPSAPRPVPGACFSRARPEPLRRPRVVALSE aggccggcggtcgggcgcccccgcccctgcttgtgggagcgcctcggcctgacgccgccggacccgcgggctgcccgcggttacgccgccccccgggctg tcctgcttccctcacgcgccctgggccccggcctcgctacccggtcgtgtaagctgctctaccccgcagcccccgctcgcgtggcgcactggcgttctca gcgccagagctcgacccgggcccccggcccccggcccggcgccggcggccccccgcggggggggccggccgcgggagcccccccggcgcggggccggggg Query PALALLGLDAPPAADAAAREAREAEAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTEAGERWELQLKGAGPTPFSR <---Intr ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 10374 Target PALALLGLDAPPAADAAAREAREAEVALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTEAGERWELQLKGAGPTPFSR cgcgccgcggccggggggcggcgggggcttagagcccgggcggctttgcctgctggccgggggatcgggtaggggctgcccagggcactta cctcttgtacccccacccgacgacatctttggacttcgcacccagaggaatgatcgatgagcctatgatgcacgaggatatagcgccctcg cgggggcgcggccccccccggcgcgtgccccccggggccgccgccccccgccgccgggcccccgcgcggccgccgcggggcgcggcgccc Query on---> QADGRKVLRSSIREFLCSEAMFHLGIPTTRAGSCVSSQSTVVRDAFYDGNPRPEPCAVVLRLAPTFLR <---Intron---> FGSFEIFKP bp > |||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||| < 720bp > ||||||||| Target QADGRKVLRSSIREFLCSEAMFHLGIPTTRAGSCVSSQSTVVRDPFYDGNPRPEPCAVVLRLAPTFLR FGSFEIFKP cgggcagcctaacgtctaggatccgacaacggttgttctaggcgcttggacccgctgggcccgcatca tgttgatac acaggattgcgtgattggacttatgtcccgcgcgtccaccttgactaagacgcacgctttgtcccttg tgctattac aggtccgggcccccgcgccgcgccgccccggcccccccgcccgtcccccgcgacggccgggcgccgcc gcaccgccgc Query RDEHTGRAGPSVGRDDIRLQMLDYVISTFYPEIQASHPGDHVQRHAAFFRE <---Intron---> VTRRTARLVAEWQCVGFCHGVLNTDNMSIVGLT |||||||||||||||||||||||||||||||||||||||| |||||||||| < 1097bp > ||||||||||||||||||||||||||||||||| Target RDEHTGRAGPSVGRDDIRLQMLDYVISTFYPEIQASHPGDPVQRHAAFFRE VTRRTARLVAEWQCVGFCHGVLNTDNMSIVGLT aggcagcggcaggaggacccacgtgaaattcgacgtccggcgcacggttcg gaccagccgggtctggttcggcaagaaaaggca gaaacggcgcgtggaatgtattaattgctacataccacgactagaccttga tcggccgttcagagtgtgagttacaatgttgtc acgcgcggcccgggtcccgggccccccccccgcgctccactggatccccgg gcgcgcgggtgggtgcccccgccaccgccggcc Query IDYGPFGFLDR <---Intron---> YDPGHVCNASDTAGRYSYGKQPEVCRWNLQKLAEALDPALPLELAEAILAQEFDAEFGRHYLQKMRRKLGLVQ ||||||||||| < 328bp > ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target IDYGPFGFLDR YDPGHVCNASDAAGRYSYGKQPEVCRWNLQKLAEALDPALPLELAEAILAQEFDAEFGRHYLQKMRRKLGLVQ agtgctgtcga tgcgcgtagtggggctttgaccggtataccacgggcgcgcccgcgggacgcgtgggtgcctccaaccacgcgc taagctgttag aacgatgaccaccggacagaacatgggataatcactacctctatcacttcaatacatggaataatggatgtta cccgccccgc gtcttcgcccccctgccgccggtggcggcggggcgcgccggccggcgccggggcccgccgccggggcgggccgg Query TEQEGDGALVAQLLETMHLTG <---Intron---> ADFTNSFYLLSSFPAAPESPDLDEFLAALTAQCASLEELRLAFRPQMDPR <---Intron-- ||||||||||||||||||||| < 4015bp > ||||||||||||||||||||||||||||/||||||||||||||||||||| < 586bp Target TEQEGDGALVAQLLETMHLTG ADFTNSFYLLSSFPAAPESPDLDEFLAAMTAQCASLEELRLAFRPQMDPR agcgggggcggcccgaaccag ggtaatttccattcggcgtcgcggtcggaagctgtcggcacgtcccagcc caaagagcttcattactatc gcatcactattgctccccaccataattcctccagcctaatgtctgcatacg gggggtccggcgcggcgcgc gtccaccccggctcatgggcacgtgcgtggtagtccgggggtccacggtc Query -> QLAMMLMLAQSNPQLLALIGTRASLARELERVEQQSRLEQLSEAELHSKNRSRWAAWLHDYR <---Intron---> ARLEKDREASGDVATWQAE > ||||||||||||||||||||||||||||||||||||/||||||||||||||||||||||||| < 92bp > |||||||||||| |||||| Target QLAMMLMLAQSNPQLLALIGTRASLARELERVEQQSQLEQLSEAELHSKNRSRWAAWLHDYR ARLEKDREASGDAATWQAE ccgaacacgctaccccgcagacgacgcgcgcggcctccgccagggccaaaaactggtccgta gccgagcggaggggatcgg atctttttcacacattcttgcgcgtcgatagtaaacataatgacatagaaggggccgtaaag cgtaaagacggacccgaca gggcggcggggacggcgggccgggcgtggggcggggggagggcgcggccgcgccgcggcccc gcggggcggccccgccggcg Query RTRVMRANNPKYVLRNYIAQGAIEAAENGDFSE <---Intron---> VRRVLKLLETPYGGEAEAAEPEGAAEASEVAAETSGAAGRRRSYSSKPPLW |||||||||||||||||||||||||||/||||| < 111bp > |||||||||||||||||||||| |||||| |||| |||||||||||||||| Target RTRVMRANNPKYVLRNYIAQGAIEAAESGDFSE VRRVLKLLETPYGGEAEAAEPEAAAEASEAAAETGGAAGRRRSYSSKPPLW cacgacgaacatgcaatagcggaggggaggttg gccgtaccgactggggggggcggggggagggggagggggcccttaaaccct gcgttgcaacaattgaatcagctaccaggatca tggttattaccaggacaccacacccacgacccacggccggggcaggacctg catcgtccccgcgggcctagcctatggctccgg gggggggggctccggagtcgcggcggccggtagccgaccggcccccgcgcg Query AAELCVTUSS |||||||||| Target AAELCVTUSS gggctgattt ccatgtcgcc gaggcggacg * Sequence until next stop: TAA * Distance CDS-SECIS: 69 ; UGA-SECIS: 75 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = your_sequence Strand = + Positions = 69345 - 69415 Found by: Infernal (score=12.2) Covels (score=19.88) Stem2 length = 9 Apical loop length = 18 Insertion in stem2 = 0, 0 Free Energy = -13.87 Type = 1 ..(((((((.......(((((((((((((((................)))))))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc ...(({{((---....{[[{(({(((((((..................)))))))}))}]]}----..-.))}}))... target UCCCGUCUC---UCCGUGACGGCGGAGACGUCCAGUCAGGACCUGACCCGUCUCCACCCGAC----GC-CGACUCGCCA **** ^^ ****