________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:2 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 9e-59 Query name: gi|965980787|ref|XP_014956797.1| PREDICTED: selenoprotein P isoform X1 [Ovis aries] Query range: 1-386 (total 386) Target: /data/www-rg/seblastian_results/53121466/tempfiles/temptarget.fasta Chromosome: JAHTZZ010000013.1:subseq_40448113,100380_ Strand: - Positions: -Exon 1 55814 56016 -Exon 2 54645 54857 -Exon 3 52479 52596 -Exon 4 50588 50677 -Exon 5 50000 50533 Redox box: YES Query MWRGLGLALALCLLLTGGTESQGQSSYCKQPPAWSIKDQDPMLNSYGSVTVVALLQASUYLCILQASR <---Intron---> LEDLRVKLEKEGYSNI |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 956bp > |||||||||||||||| Target MWRGLGLALALCLLLTGGTESQGQSSYCKQPPAWSIKDQDPMLNSYGSVTVVALLQASUYLCILQASR LEDLRVKLEKEGYSNI atagcgcgcgctcccaggagacgcatttacccgtaaagcgcacattgtgagggcccgattctaccgta tggccgacgaggttaa tgggtgtctctgtttcggcagagagcagaacccggtaaaacttacagctcttcttacggatgttaccg taatgtataaagacat ggacgggcgtccccacaaagcgcaccttgatacgcagtactggccttagtgttttaccacgttggat aggcgaaaggaaattcc * Query SYVVVNHQEISSRLKYAHLKNKVSEHIPVYQQEEDQPDVWTLLNGNKDDFLIYDR <---Intron---> CGRLVYHLGLPYSFLTFTYVEDSIKTVYC |||||||||||||||| |||||||||| ||||//||||||||||||||||||||| < 2048bp > ||||||||||||||||||||||||||||| Target SYVVVNHQEISSRLKYVHLKNKVSEHITVYQQDDDQPDVWTLLNGNKDDFLIYDR CGRLVYHLGLPYSFLTFTYVEDSIKTVYC ttgggaccgattctatgccaaagtgcaagtccgggccggtactagaaggtcatga tgccgtccgtctttcatatgggtaaagtt catttaaaatccgtaatataaatcaatctaaaaaaacatgcttagaaaatttaag gggttaatgtcacttctcataactactag cttttttaacttaaattttatgtaattttcaacccaatcgtcatatatcccatc atcctattttgttccatcgtaatctgttct Query EDKCGNCSLK <---Intron---> TQEDEDFCKNVSLATKEKTAEASQRHHHPH <---Intron---> PHPHHGHQLHENAHLSESPKPDTPDTPE |||||||||| < 1801bp > | |||||||||||||||||||||||||| | < 54bp > |||||||||||||||||||||||||||| Target EDKCGNCSLK TLEDEDFCKNVSLATKEKTAEASQRHHHHH PHPHHGHQLHENAHLSESPKPDTPDTPE ggatgattca acggggttaagtcgaagaagggtccccccc cccccgccccgagcctgtcacgacgacg aaaggagcta ctaaaatgaatctccaaaccaccagaaaaa cacaagaataaacatcaccacaccacca atatacttcg agatacctacatgtcggaatgtagatctct ctcttgtgttattttagtaaacaatctg Query NPPPSGLHHHHHRHKGHQRQGHSDNCDTPVGSENLQLSLPQKKLURKRCINQLLUQFPKDSESALSSCCCHCRHLVFEKTGSAITUQCTENLPSLCSUQG |||||||| |||||||||||||||||||| ||||||| |||||||/||||||||||||||| |||||||||||||||||||||||||||||||||||||| Target NPPPSGLHDHHHRHKGHQRQGHSDNCDTPEGSENLQLPLPQKKLUQKRCINQLLUQFPKDSGSALSSCCCHCRHLVFEKTGSAITUQCTENLPSLCSUQG accctgccgcccacagccacgctgatgacggagatccccccaactcaataactctctcagtgtgtaatttctcccgtgaagtgaatctagacctttatcg accccgtaaaaagaagaagagacaagaccaggaatatctcaaatgaaggtaattgatcaacgcctgggggaggatttaacgcctcgagcaatcctgggag tcttatttccctgcgtcaagacatcttaaaatataatttaaggcaagacatgacagtcataattgtcttcctatgataaagtaccagtaaccctatcagc * * * * Query LLAEENVIESUQURLPPAAUQAAGQQLNPTEASTKUSUKNKAKMUKUPSN |||||||||||||||||||||||||||||||||||||||||||||||||| Target LLAEENVIESUQURLPPAAUQAAGQQLNPTEASTKUSUKNKAKMUKUPSN ctgggagagttctctccggtcgggcccacaggaaatataaagaatatcta ttcaaattacgaggtccccgaccgaataccacgcagggaaacatgagcca tgaggcctatagatgtatcagaatggcccaacccgacaatgcagaaatat * * * * * * * Sequence until next stop: TAA * Distance CDS-SECIS: 244 ; UGA-SECIS: 253 ------- SECIS element -- id:2 -- grade:A ---- Chromosome = JAHTZZ010000013.1:subseq_40448113,100380_ Strand = - Positions = 49755 - 49684 Found by: Infernal (score=28.33) Covels (score=28.55) Stem2 length = 10 Apical loop length = 14 Insertion in stem2 = 0, 0 Free Energy = -11.34 ..(((((((.......(((((((((((((((...............)))))))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc ...({((((.--....{[[{((((((((({(.....-.........)})))))))))}]]}..--..-.))))})... target UCUACUUGCA--UUAAUGAGAACAGAAACGUAAACU-AUAACCUAGGGGUUUCUGUUGGAUAG--UU-GGCAACUUAG **** ^^^ **** _________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 9e-59 Query name: gi|965980787|ref|XP_014956797.1| PREDICTED: selenoprotein P isoform X1 [Ovis aries] Query range: 1-386 (total 386) Target: /data/www-rg/seblastian_results/53121466/tempfiles/temptarget.fasta Chromosome: JAHTZZ010000013.1:subseq_40448113,100380_ Strand: - Positions: -Exon 1 55814 56016 -Exon 2 54645 54857 -Exon 3 52479 52596 -Exon 4 50588 50677 -Exon 5 50000 50533 Redox box: YES Query MWRGLGLALALCLLLTGGTESQGQSSYCKQPPAWSIKDQDPMLNSYGSVTVVALLQASUYLCILQASR <---Intron---> LEDLRVKLEKEGYSNI |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 956bp > |||||||||||||||| Target MWRGLGLALALCLLLTGGTESQGQSSYCKQPPAWSIKDQDPMLNSYGSVTVVALLQASUYLCILQASR LEDLRVKLEKEGYSNI atagcgcgcgctcccaggagacgcatttacccgtaaagcgcacattgtgagggcccgattctaccgta tggccgacgaggttaa tgggtgtctctgtttcggcagagagcagaacccggtaaaacttacagctcttcttacggatgttaccg taatgtataaagacat ggacgggcgtccccacaaagcgcaccttgatacgcagtactggccttagtgttttaccacgttggat aggcgaaaggaaattcc * Query SYVVVNHQEISSRLKYAHLKNKVSEHIPVYQQEEDQPDVWTLLNGNKDDFLIYDR <---Intron---> CGRLVYHLGLPYSFLTFTYVEDSIKTVYC |||||||||||||||| |||||||||| ||||//||||||||||||||||||||| < 2048bp > ||||||||||||||||||||||||||||| Target SYVVVNHQEISSRLKYVHLKNKVSEHITVYQQDDDQPDVWTLLNGNKDDFLIYDR CGRLVYHLGLPYSFLTFTYVEDSIKTVYC ttgggaccgattctatgccaaagtgcaagtccgggccggtactagaaggtcatga tgccgtccgtctttcatatgggtaaagtt catttaaaatccgtaatataaatcaatctaaaaaaacatgcttagaaaatttaag gggttaatgtcacttctcataactactag cttttttaacttaaattttatgtaattttcaacccaatcgtcatatatcccatc atcctattttgttccatcgtaatctgttct Query EDKCGNCSLK <---Intron---> TQEDEDFCKNVSLATKEKTAEASQRHHHPH <---Intron---> PHPHHGHQLHENAHLSESPKPDTPDTPE |||||||||| < 1801bp > | |||||||||||||||||||||||||| | < 54bp > |||||||||||||||||||||||||||| Target EDKCGNCSLK TLEDEDFCKNVSLATKEKTAEASQRHHHHH PHPHHGHQLHENAHLSESPKPDTPDTPE ggatgattca acggggttaagtcgaagaagggtccccccc cccccgccccgagcctgtcacgacgacg aaaggagcta ctaaaatgaatctccaaaccaccagaaaaa cacaagaataaacatcaccacaccacca atatacttcg agatacctacatgtcggaatgtagatctct ctcttgtgttattttagtaaacaatctg Query NPPPSGLHHHHHRHKGHQRQGHSDNCDTPVGSENLQLSLPQKKLURKRCINQLLUQFPKDSESALSSCCCHCRHLVFEKTGSAITUQCTENLPSLCSUQG |||||||| |||||||||||||||||||| ||||||| |||||||/||||||||||||||| |||||||||||||||||||||||||||||||||||||| Target NPPPSGLHDHHHRHKGHQRQGHSDNCDTPEGSENLQLPLPQKKLUQKRCINQLLUQFPKDSGSALSSCCCHCRHLVFEKTGSAITUQCTENLPSLCSUQG accctgccgcccacagccacgctgatgacggagatccccccaactcaataactctctcagtgtgtaatttctcccgtgaagtgaatctagacctttatcg accccgtaaaaagaagaagagacaagaccaggaatatctcaaatgaaggtaattgatcaacgcctgggggaggatttaacgcctcgagcaatcctgggag tcttatttccctgcgtcaagacatcttaaaatataatttaaggcaagacatgacagtcataattgtcttcctatgataaagtaccagtaaccctatcagc * * * * Query LLAEENVIESUQURLPPAAUQAAGQQLNPTEASTKUSUKNKAKMUKUPSN |||||||||||||||||||||||||||||||||||||||||||||||||| Target LLAEENVIESUQURLPPAAUQAAGQQLNPTEASTKUSUKNKAKMUKUPSN ctgggagagttctctccggtcgggcccacaggaaatataaagaatatcta ttcaaattacgaggtccccgaccgaataccacgcagggaaacatgagcca tgaggcctatagatgtatcagaatggcccaacccgacaatgcagaaatat * * * * * * * Sequence until next stop: TAA *