_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 2e-20 Query name: gi|998733340|ref|XP_015504893.1| PREDICTED: selenoprotein N [Parus major] Query range: 1-533 (total 533) Target: /data/www-rg/seblastian_results/195002458/tempfiles/temptarget.fasta Chromosome: CM003732.1:subseq_1,108959_ Strand: + Positions: -Exon 1 25812 25925 -Exon 2 29424 29541 -Exon 3 30538 30668 -Exon 4 31118 31330 -Exon 5 31997 32121 -Exon 6 32771 32908 -Exon 7 33668 33749 -Exon 8 34598 34786 -Exon 9 35694 35799 -Exon 10 36499 36611 -Exon 11 37234 37335 -Exon 12 38216 38383 Redox box: no Query MAGPGPGAAPPRLALALALLAALLAVKYYRDTEAARRQ <---Intron---> ELALKSLGNEGLFLFSSLDTNKDLYLSPEEFKPIAEKLTG <---I |||||||||||||||||||||||||||||||||||||| < 3498bp > |||||||||||||||||||||||||||||||||||||||| < 9 Target MAGPGPGAAPPRLALALALLAALLAVKYYRDTEAARRQ ELALKSLGNEGLFLFSSLDTNKDLYLSPEEFKPIAEKLTG aggcgcgggccccgcgcgccggccggattcgagggccc gcgcattgaggctctttcgaaagctcacggtacaggacag tcgcgcgccccgtctctcttccttctaaagacaccgga atctactgaagttttcctacaaatatgcaatactcaatc ggggccggctgcgggcgcgccgggccgccgcggggggg ggtggcggtgggcccccgcacgcgcgcaggcgcctggca Query ntron---> VAPVSESEEEETPDPDGETLSIVAKFQPLVMETMTKSKDGFLG <---Intron---> ISHVALSGLRNWTAPAVPRSVLLARQFKAFL 96bp > ||||||||||||||||||||||||||||||||||||||||||| < 449bp > ||||||||||||||||||||||||||||||| Target VAPVSESEEEETPDPDGETLSIVAKFQPLVMETMTKSKDGFLG ISHVALSGLRNWTAPAVPRSVLLARQFKAFL ggcgtgtggggacgcgggattaggatcctgagaaaaaaggttg atcggctgcaatagcggcaagccgactagtc gtcctcacaaaaccacagactcttcatactttactcagaagttg tcatctcgtgagcccctcggtttcgatactt gttacaacagggaatatggtgccgcacgcgcgaagggcgttcga tccgtgtgggcgacaactgtcgtcggtactc Query PPKNNLDLGDPWWIIPSELNIFTGYLSNNRFYPPPPKGKE <---Intron---> VLIHRLLSMFHPRPFVKTRFAPQGAVACIQASSSFYYTIAFR < |||||||||||||||||||||||||||||||||||||||| < 666bp > |||||||||||||||||||||||||||||||||||||||||| < Target PPKNNLDLGDPWWIIPSELNIFTGYLSNNRFYPPPPKGKE VLIHRLLSMFHPRPFVKTRFAPQGAVACIQASSSFYYTIAFR ccaaacgcggcttaacagcaatagtctaaattccccagag gcacaccaatcccctgaactgccggggtacgaaatttaagtc ccaaatatgacggttcgatattcgatcaagtaccccagaa tttagttgttacgcttacgtccagctcgtacgggtaactctg tagccgttgtgggatctagccctgcccccgtctatcgcag ggccgggcgccagccgggctcggacgcccgccccccccaac Query ---Intron---> IHAEFQLNEPPNFPFWFSPGQFTGYIVLSKDSSHVRDFRLFVPNNR <---Intron---> SLNVDMEWLYGASESSNMEVDIGY 649bp > |||||||||||||||||||||||||||||||||||||||||||||| < 759bp > |||||||||||||||||||||||| Target IHAEFQLNEPPNFPFWFSPGQFTGYIVLSKDSSHVRDFRLFVPNNR SLNVDMEWLYGASESSNMEVDIGY acggtccagccatcttttcgctagtagctagttcgagtactgcaaa tcaggagtctggagaaaagggagt tacatataaccatctgtccgatcgatttcaaccatgatgtttcaag ctatatagtagcgaggatatatga gcctacggtgaaccccgtcaagcatctcgcgctcccgccgctttcc gcgcgcggggcggcgcccgagctac Query LPQ <---Intron---> MELESTGPSIPTVIHDKNGNVLDSRDPSGEPIQFVFEEITWQQEIPWQEAAHRLEVAMYPFKK <---Intron---> IS ||| < 848bp > ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 907bp > || Target LPQ MELESTGPSIPTVIHDKNGNVLDSRDPSGEPIQFVFEEITWQQEIPWQEAAHRLEVAMYPFKK IS ccc agcgtagctacagacgaagagcgaagctggcactgtggaatccgactcgggcacgggatctaa at tca tataccgcctccttaaaagattaggaccgactatttaatcgaaatcgaaccagtatctactaa tc gcg gggacagtgcccgcccgcgccgccgccaggccgtgcggccggggccgggaccggagcgtatgg cc Query YLPFTEAFERAQAEKKLVHSILLWGALDDQSCUG <---Intron---> SGRTLRETVLESSPILALLNQSFISSWSLVKELEELQ <---Intron-- |||||||||||||||||||||||||||||||||| < 699bp > ||||||||||||||||||||||||||||||||||||| < 622bp Target YLPFTEAFERAQAEKKLVHSILLWGALDDQSCUG SGRTLRETVLESSPILALLNQSFISSWSLVKELEELQ tcctaggtgagcggaacgctacctggcggctttg tgcaccgagcgatcacgccacataaattcgagcggcc atctcactagcacaaattactttggctaaacgg gcggctgacttagccttcttaagttgggcttaataata cgccaactggaaagggggcccgcgtcgtcgcca tggatcggccgatgccccggcgcccccgcggggggggg * Query -> SNRENEFHSKLAELHLEKYNFPVEMIICLPNGTV <---Intron---> IHHINANYFLDITSMKPEDVESSIFSFSSNFEDPSTATYLQFLKEGL > |||||||||||||||||||||||||||||||||| < 880bp > ||||||||||||||||||||||||||||||||||||||||||||||| Target SNRENEFHSKLAELHLEKYNFPVEMIICLPNGTV IHHINANYFLDITSMKPEDVESSIFSFSSNFEDPSTATYLQFLKEGL aaagagtcaacggcccgatatcggaaatccagag accaagattcgaataacggggaaatattaatggctagatcctcaggc gagaaatagatcatataaaatctatttgtcagct taatacaattatcctacaataggttgtcgataacccccatattaagt ccagtgcccagcggcggaccctgggcccccccgg tctctcctcgctttggtattacccctcacttactatatccgcggagg Query QRAKPYLQP ||||||||| Target QRAKPYLQP cagactccc agcacatac gaaagcggc Sequence until next stop: TAA * Distance CDS-SECIS: 1724 ; UGA-SECIS: 2108 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = CM003732.1:subseq_1,108959_ Strand = + Positions = 40108 - 40181 Found by: Infernal (score=22.15) Covels (score=26.08) Stem2 length = 10 Apical loop length = 10 Insertion in stem2 = 0, 0 Free Energy = -34.79 ..(((((((........(((((((((((((((...............))))))))))))))).........))))))).. model uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc ..(((((((........{[[{(((({((((((........-----..))))))}))))}]]}.....-...))))))).. target CUCCCCUCCGCGCCUUGUGACGCCCUGGCCCGAAACCGGC-----GGCGGGCCCGGGCCGAUGUCGG-CCGGGAGGGGCG **** ^^^ ****