_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:QUE_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 9e-15 Query name: gi|820831930|gb|AFX81684.2| selenoprotein N, partial [Meleagris gallopavo] Query range: 1-315 (total 317) Target: /data/www-rg/seblastian_results/549100129/tempfiles/temptarget.fasta Chromosome: ULFQ01000081.1:subseq_1111991,116291_ Strand: + Positions: -Exon 1 58496 58548 -Exon 2 60791 60928 -Exon 3 61608 61689 -Exon 4 61981 62163 -Exon 5 62428 62533 -Exon 6 63658 63770 -Exon 7 65002 65100 -Exon 8 66130 66291 Redox box: no Query SVACIQAISTYYYTIAFR <---Intron---> IHAEFQLNEPPDFPFWFSPGQFTGYIVLSKDSSHVREFKLFVPNKR <---Intron---> SLNV /||||||// /|| |||| < 2242bp > ||||||||||||||||||| ||||||| |||||||||||||||| | < 679bp > |||| Target AVACIQAVAEFYYKIAFR IHAEFQLNEPPDFPFWFSPAQFTGYIVFSKDSSHVREFKLFVPNNR SLNV gggtacggggtttaagta acggtccagccgtcttttcgctagtagttagttcgcgtactgcaaa tcag ctcgtactcataaatctg tacatataaccatctgtcccatcgatttcaaccatgatatttcaag ctat agcctataagcccaacc actaacagtgtatcacgtttcacgcctccagttcttagcgatcttc gtcta Query DMEWLYGASEGSNMEVDIGYLPQ <---Intron---> MELESTGPSVPSVIYDENGNVIDSRDPSGEPIQFVFEEITWQQEISWEEAAQKLEVAMYPF |||||||| | |||||||||||| < 291bp > ||||| ||| ||||/||||||||||/ ||||||/||/|/||/|||||||/ |||| |||| Target DMEWLYGALESSNMEVDIGYLPQ MELESLGPSTPSVIHDENGNVIDSRE--GEPIQFIFEDISWQREISWEEASGKLEVVMYPF gagtttggtgaaaagggagttcc agcgtcgctactgacggagagagaag--ggcactatggattcagaatgggtgacgggatct atagtagctaggatatatgatca tatactgcccccttaaaagattagga--gactatttaatcgagatggaaccgatatttact tgagattcagcccgggtaacatg ggggtgaatctagtttatgcgtccaa--aaatatttactcggaaacgaaatgggagcgtat Query KK <---Intron---> VSYLPFTEAFERAKAEKKLVHSILLWGALDDQSCUG <---Intron---> SGRTLRETVLESSPILALLNESFISSWSLV || < 264bp > ||| |||/|||/||/| ||||||||||||||||||| < 1124bp > ||||||||||||||||| |||||||/|||| Target KK VSYFPFTQAFEKAKSEGKLVHSILLWGALDDQSCUG SGRTLRETVLESSPILAFLNESFISTWSLV aa gtttctacgtgagatggacgctacttggtggctttg tgcaccgagcgatcacgtcagataaatttg aa tcatctcactaacacagattactttggctaaacgg gcggctgacttagccttcttaagttgcgctt ga tcctctcgttagcgtgtatttcacagacattgaca tagatcgaacgatgcctacgtgtcctcgggg * Query KELEELQ <---Intron---> TNRENEFYSKLADLHLEKYNFPVEMIICLPNGTV <---Intron---> IHHINANYFLDITSMKPEDVESSIFSF ||||/|| < 1231bp > |///| ||||||||||||||||//|||||||| < 1029bp > /|||||||||||||||||/|||||||| Target KELEDLQ -NKQDEIISKLADLHLEKYNFPVEIMICLPNGTV VHHINANYFLDITSMKPEEVESSIFSF agcggtc -aacggaaaacggcccgatatcggaaatccagag gccaagattcgaataacggggaaatat aataata -aaaaattgatcatataaaatctatttgtcagct taatacaattatcctacaataggttgt gggatag -tagcgcccatacattaatcctggtgccgctctg tccctctttgttttggtaatgcccttc Query SSSFDDPSTATYLQFLKEGLQRAKAYL ||||/||||||||||||||||/||/|| Target SSSFEDPSTATYLQFLKEGLQKAKSYL ttatggctagatccttaggccagattc ccgtaacccccatattaagtaacacat ccttaccaaattcgcggagtgacgccg Sequence until next stop: TAG * Distance CDS-SECIS: 2465 ; UGA-SECIS: 2840 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = ULFQ01000081.1:subseq_1111991,116291_ Strand = + Positions = 68757 - 68829 Found by: Infernal (score=31.34) Covels (score=25.15) Stem2 length = 9 Apical loop length = 12 Insertion in stem2 = 0, 0 Free Energy = -19.1 ..(((((((........(((((((((((((((...............))))))))))))))).........))))))).. model uucggucaugcg-UuaAUGAcGgccuggcccuAAAcCcuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc (({((({(((((.....{[[(((((((({((.........-----...))}))))))))]]}....)-)-)))})))})) target UGCUCAUCUGUUCUUUGUGAAGGCCUGAUCUUAAAUCAAG-----GAUGGCUCAGGCUUGAUGUCUG-A-CAGUUGAUUG **** ^^^ ****