_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 4e-65 Query name: gi|1044417681|ref|XP_017360374.1| PREDICTED: selenoprotein O isoform X1 [Cebus capucinus imitator] Query range: 1-670 (total 670) Target: /data/www-rg/seblastian_results/787896999/tempfiles/temptarget.fasta Chromosome: KV389755.1:subseq_2867310,100476_ Strand: + Positions: -Exon 1 49922 50475 -Exon 2 54741 54944 -Exon 3 56618 56798 -Exon 4 58216 58346 -Exon 5 58641 58921 -Exon 6 62487 62649 -Exon 7 63540 63725 -Exon 8 63800 63956 -Exon 9 64033 64185 Redox box: YES Query MAARRVAVCASLAATRPLPLGRRRLSPVPRSALSGAAMEPAPRWLAGLRFDNRALRALPVETPPAGPEGAWTTPRLVPGACFTRVRPTPLRQPRLVALSE |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target MAARRVAVCASLAATRPLPLGRRRLSPVPRSALSGAAMEPAPRWLAGLRFDNRALRALPVETPPAGPEGAWTTPRLVPGACFTRVRPTPLRQPRLVALSE aggcagggtgtcggacccccgcccctcgcctgttgggagcgcctcggcctgacgccgccggaccggcgggtaacccgcggttacgccacccccccggctg tccggtctgcctcccgctctggggtcctcgcctcgcctacccggtcgtgtaagctgctctaccccgcagcgcccgttcgcgtcgtgccctgacgttctca gcgcgcgcccgcttcacgccccccggcgcctgggcccggtggcgggagccccctgcgggggggtctcgccgcgggcgcgcccccggccggggcccggggg Query PALALLGLGAPPAPEAEAEAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTAAGERWELQLKGAGPTPFSR <---Intron---> ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 4265bp > Target PALALLGLGAPPAPEAEAEAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTAAGERWELQLKGAGPTPFSR cgcgccgcggccgcgggggggtttagagcccgggcggctttgcctgctggccgggggatcgggtaggggctgcccagggcactta cctcttgtgcccccacacacctttggacttcgcacccagaggaatgatcgatgagcctatgatgcccgaggatatagcgccctcg ctggggcggggcgcgcacgcggcccccgcggccgccgccccccgccgccgggcccccgcacggcggccgcggggcgccgcgccc Query QADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVARDVFYDGNPKYEKCTVVLRIASTFIR <---Intron---> FGSFEIFKSADEHTG |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 1673bp > ||||||||||||||| Target QADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVARDVFYDGNPKYEKCTVVLRIASTFIR FGSFEIFKSADEHTG cgggcagcctaacgtctaggatccggcaacgggtgatgtaggcggttggacatgataggtcagtataa tgttgatatgggcag acaggattgcgtgattggacttatgtcccgcgcgtccacctcgattaagacaaaagctttgtcccttg tgctattaccaaacg agcctcgcagactggcgccacgccggcccagttcccgtgcgggttgcttttcataacatggtatctca gtactgttgcatgcgg Query RAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASDNVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPF ||||||||||||||||||||||||||||||||||||||||||||| < 1417bp > ||||||||||||||||||||||||||||||||||||||| Target RAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASDNVQRNAAFFRE VTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPF cggcaggaagacgcccgtgaatttcgacggcgagagcaaggttcg gaccagcagggtctggttcggcaagaaaacgcaagtgct gcgcgtggaatgtattaattgctacataccacgaatagaccttga tcggccgttcagagtgtgagttacaatgttgtctaagct cacccgggcctcgggccccccccccgcgttcccccggatccccgg gagcgggggcgggcacccccgtccccgccgggccccgcc Query GFLDR <---Intron---> YDPDHVCNASDNTGRYAYSKQPEVCKWNLRKLAEALQPELPLELGEAILAEEFDAEFQRHYLQKMRRKLGLVRVELEED ||||| < 294bp > ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| Target GFLDR YDPDHVCNASDNTGRYAYSKQPEVCKWNLRKLAEALQPELPLELGEAILAEEFDAEFQRHYLQKMRRKLGLVRVELEED gtcga tgcgcgtagtgaagctgtaaccggtataccacgggcccgcccgcgggacgggtgggtcactccaacaacgcgcggcggg gttag aacaatgaccaacggacagaacatgagatgatcactacatctatgacttcaatacatagaataatggatgttgtataaa ccgc gcccccgctcaccccccgccggcggcggcggggtgggggggcgggcgccgcggtccgcagccggggagagccggggggac Query GVLVSKLLQTMHLTA <---Intron---> CVPGADFTNTFYLLSSFLVDPESPGLAEFLARLMEQCASLEELRQAFRPQMDPR <---Intron---> ||||||||||||||| < 3565bp > |||||||||||||||||||||||||||||||||||||||||||||||||||||| < 890bp > Target GVLVSKLLQTMHLTA CVPGADFTNTFYLLSSFLVDPESPGLAEFLARLMEQCASLEELRQAFRPQMDPR ggcgtacccaaccag tgcgggtaaatttcattcggcgtcgcggtcgacagctgtcggcacgtcccagcc gtttcattactatc cgtcgcatcactattgctttacaccgtcattcgttaagcctaatgactgcatacg ggggcgcggcgcgt cttattccaccccggcccggtggagcgggcgcgggggttcgggggaccgcggtc Query QLSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSQLEQLSAAELQSRNQDHWATWLQAYR <---Intron---> ARLDKDLEGAGDAAAWQAERV |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 74bp > ||||||||||||||||||||| Target QLSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSQLEQLSAAELQSRNQDHWATWLQAYR ARLDKDLEGAGDAAAWQAERV cctaatacgctaccctgcagacggagagcgcggcctccgccagggccaaacgctgatccgta gccgagcggggggggtcggcg atctttttcacacattcttgcgcgtcgatagtaaacataatgccataggaaaagccgtacag cgtaaatagcgacccgacagt gggcgggggagacgggcgcgccgacccggggcggggtggaggcgcgggcgcgccgccgcggc acggcgcggccacctcggcgtg Query RVMRASNPKYVLRNYIAQNAIEAAERGDFSE <---Intron---> VQRVLKLLETPYHCEAGAATEPEATEPTGGQRSYSSKPPLWAAELCVTUSS ||||||||||||||||||||||||||||||| < 76bp > ||||||||||||||||||||||||||||||||||||||||||||||||||| Target RVMRASNPKYVLRNYIAQNAIEAAERGDFSE VQRVLKLLETPYHCEAGAATEPEATEPTGGQRSYSSKPPLWAAELCVTUSS cgacgaacatgcaatagcagaggggcggttg gccgcaccgactctgggggagcggagcaggccttaaaccctgggctgattt gttgcgacaattgaatcaactaccaggatca tagttattaccaagacgcccacaccaccggagcaggacctgccatgtcgcc tggtccccgtggacccggcccgtcgcgccag tggaggaggctcccgagccagtgcgggtcggtccccgtgcgaaagtggaag * Sequence until next stop: TAA * Distance CDS-SECIS: 121 ; UGA-SECIS: 127 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = KV389755.1:subseq_2867310,100476_ Strand = + Positions = 64307 - 64385 Found by: Infernal (score=25.42) Covels (score=25.5) Stem2 length = 10 Apical loop length = 18 Insertion in stem2 = 0, 0 Free Energy = -16.23 ..(((((((.......(((((((((((((((................)))))))))))))))............))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu---u-uuucaugaccggc ..({(((((---....{[[(((((((((((..................)))))))))))]]}........-...)))))}).. target ACCCGUCUU---UCCAUGAAGGCAGAGACAUCCAGUCAGGACCUGACCUGUCUCUGUCUGACGCUGGCUC-AGCAGGACAGCU **** ^^ ****