_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 7e-80 Query name: gi|316983151|ref|NP_001186909.1| selenoprotein O precursor [Pongo abelii] Query range: 1-669 (total 669) Target: /data/www-rg/seblastian_results/226710012/tempfiles/temptarget.fasta Chromosome: KQ005223.1:subseq_613138,100134_ Strand: - Positions: -Exon 1 58433 58986 -Exon 2 54098 54301 -Exon 3 51561 51741 -Exon 4 50001 50131 -Exon 5 49444 49724 -Exon 6 44474 44624 -Exon 7 43512 43697 -Exon 8 43266 43422 -Exon 9 43027 43188 Redox box: YES Query MAAYRAALGALLAAARLLPLGRCRPSPALRSTLSGAAMEPAPRWLAGLRFDNRALRALPVEAPPPGPEGAPSAPRPVPGACFTRVQPTPLRQPRLVALSE ||||||||| |||||||||||| |||| |||||||||||| |||||||||||||||||||||| |||| |||| |||||||||/|||||||||||||| Target MAAYRAALGGSLAAARLLPLGRCHPSPAPGSTLSGAAMEPAPCWLAGLRFDNRALRALPVEAPPPDPEGAQSAPRQVPGACFTRVRPTPLRQPRLVALSE aggtaggcggtcgggcccccgctcctcgcgtattgggagcgcttcggcctgacgccgccgggcccgcgggctgcccgcggttacgccacccccccggctg tccagcctggctcccgttctgggacccccgcctcgcctacccggtcgtgtaagctgctctaccccacagcacccgatcgcgtcgtgccctgacgttctca gcgcgatcgtgcatcacgccccccggcgcctcggcccggcgtcgggggccccccgcggcggggtctcgccgcggcggcgcccccggcccggggctggggg Query PALALLGLGAPPAREAEAEAELFFSGNAILPGAEPAAHCYWGHQFDQLAGQLGEGSAMYLGEVCTATGERWELQLKGAGPTPFSR <---Intron---> |||||||||||||||||||| |||||||/||||||||||| |||| | |||||/|/|||||||||| |||||||||||||||||| < 4131bp > Target PALALLGLGAPPAREAEAEAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTAAGERWELQLKGAGPTPFSR cgcgccgcggccgcgggggggcttagagcccgggcggctttgcctgctggccgggggattgggtaggggctgcccagggcactta cctcttgtgccccgacacacctttggacttcgcacccagaggaatgatcgatgagcctatgatgcccgaggatatagcgccctcg cggaggcgcggcacgcgcgcggcccccggggctgccgccccccgccgccgagcccccgcgcggcggccgcggggcgctgcgccc Query QADGRKVLRSSIREFLCSEAMFHLGIPTTRAGACVTSESTVVRDVFYDGNPKYEQCTVVLRVASTFIR <---Intron---> FGSFEIFKSADEHTG |||||||||||||||||||||||||/|||||||||||||||||||||||||||||||||||/|||||| < 2356bp > ||||||||||||||| Target QADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVVRDVFYDGNPKYEQCTVVLRIASTFIR FGSFEIFKSADEHTG cgggcagcctaacgtctaggatccggcaacgggtgatgtaggcggttggacatgctaggtcagtataa tgttgatatgggcag acaggattgcgtgattggacttatgtcccgcgcgtccaccttgattaagacaaaagctttgtcccttg tgctattaccaaacg agcctcgcggaccggcgccacgccggcccagctctcgcgcgggccgcttttcataacgtggtatctca gtactgttgcatgcag Query RAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASNNVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPF |||||||||||||||||||||||||||||||||/ |||||||||| < 1429bp > |||||| |||||||||||||||||||||||||||||||| Target RAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASDRVQRNAAFFRE VTRRTAWMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPF cggcaggaagacgcccgtgaatttcgacggcgagcgcaaggttcg gaccagtagggtctggttcggcaagaaaacgcaagtgct gcgcgtggaatgtattaattgctacataccacgagtagaccttga tcggccgttcagagtgtgagttacaatgttgtctaagct tacccgggcctcgggtctcccctctgcgttcctccggactcccgg gggcgggggtgggcgccctcgcctccgccggcccccgcc Query GFLDR <---Intron---> YDPDHVCNASDNTGRYAYSKQPEVCRWNLRKLAEALQPELPLELGEAILADEFDAEFQRHYLQKMRRKLGLVQVELEED ||||| < 276bp > |||||||||||||||||||||||||/|||/||||||||||||||||||||/||||||||||/|||||||||||/||||| Target GFLDR YDPDHVCNASDNTGRYAYSKQPEVCKWNLQKLAEALQPELPLELGEAILAEEFDAEFQRHYMQKMRRKLGLVQLELEED gtcga tgcgcgtagtgaagctgtaaccggtataccacgggcccgcccgcgggacgggtgggtcactacaacaacgcgccgcggg gttag aacaatgaccaacggacagaacatgagataatcactacatctatgacttcaatacatagaataatggatgttatataaa ccgc gtctccgctccccccccaccggcggcggcggggcgcggaggcgggcgccgcggttcgcagccggggcgggctggggggac Query GVLVSKLLETMHLTG <---Intron---> ADFTNTFYLLSSFPVEPESPGLAEFLARLMEQCASLEELRLAFRPQMDPR <---Intron---> QLS ||||||||||||| < 4819bp > |||||||/|||||||| ||||||||||||||||||||||||||||||||| < 776bp > ||| Target RALVSKLLETMHLTG ADFTNTFFLLSSFPVELESPGLAEFLARLMEQCASLEELRLAFRPQMDPR QLS agcgtaccgaaccag ggtaaatttcattcggcgtcgcggtcgacagctgtcggcacgtcccagcc cct gcttcattactatc gcatcacttttgctctataccgtcattcgttaagcctaatgtctgcatacg atc ggggcgcggcgcgc ttccaccccggcccagggggacgggcgcggggatccggggggccgcggtc ggac Query MMLMLAQSNPQLFALMGTRAGIARELERVEQQSRLEQLSAADLQSRNQGHWADWLQAYR <---Intron---> ARLDKDLEGARDAAAWQAERVRVMH ||||||||||||||||||||||||||||||||||||||| |/||||||||||||||||| < 89bp > |||||||||| |||||||||||||| Target MMLMLAQSNPQLFALMGTRAGIARELERVEQQSRLEQLSMAELQSRNQGHWADWLQAYR ARLDKDLEGAGDAAAWQAERVRVMH aacacgctaccctgcagacggagagcgcggcctccgccaaggccacacgctggtccgta gccgagcggggggggtcggcgcgac tttttcacacattcttgcgcgtcgatagtaaacgtaatgtcataggaagagcagtacag cgtaaatagcgacccgacagtgtta gggggagacgggcgcgccgactcggggtggggtgggggcgagggcgcgccgccggggc acggcgcgaccgtttcggtgtgcggc Query ANNPKYVLRNYIAQNAIEAAERGDFSE <---Intron---> VRRVLKLLETPYHCEAGAATDAEATEADGADGRQRSYSSKPPLWAAELCVTUSS ||||||||||||||||||||||||||| < 77bp > ||||||||| ||||||||||| |||||||||||||||||||||||||||||||| Target ANNPKYVLRNYIAQNAIEAAERGDFSE VRRVLKLLENPYHCEAGAATDPEATEADGADGRQRSYSSKPPLWAAELCVTUSS gaacatgcaatagcagaggggcggttg gccgcaccgactctgggggagcggagggggggaccttaaaccctgggctgattt caacaattgaatcaactaccaggatca tggttattaacaagacgcccacaccacagcaggagcaggacctgccatgtcgcc ctccgcgggcccggcccgtcgcgccag ggggggaggctcccgggtcatcgcagccggccggcccctgcgcgacagtgaatg * Sequence until next stop: TAA * Distance CDS-SECIS: 117 ; UGA-SECIS: 123 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = KQ005223.1:subseq_613138,100134_ Strand = - Positions = 42909 - 42831 Found by: Infernal (score=19.62) Covels (score=26.47) Stem2 length = 9 Apical loop length = 20 Insertion in stem2 = 0, 0 Free Energy = -20.01 ..(((((((........(((((((((((((((................))))))))))))))).........))))))).. model uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc (((({{(((........([[{(((((((((....................)))))))))}]]).....-.-.)))}})))) target GCACACCUGUCUUUCCAUGAUGGCAGAGACAUCCAGUCAGGACCUGACCCGUCUCUGUCUGAGACCAG-C-UCAGCAGUGC **** ^^ ****