_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 2e-36 Query name: gi|1007775267|ref|XP_015825407.1| PREDICTED: selenoprotein N isoform X1 [Nothobranchius furzeri] Query range: 1-566 (total 566) Target: /data/www-rg/seblastian_results/935035741/tempfiles/temptarget.fasta Chromosome: SSNR01000028.1:subseq_3936858,103491_ Strand: - Positions: -Exon 1 53276 53491 -Exon 2 52619 52736 -Exon 3 52393 52523 -Exon 4 52068 52280 -Exon 5 51858 51982 -Exon 6 51439 51576 -Exon 7 51289 51370 -Exon 8 51029 51217 -Exon 9 50844 50949 -Exon 10 50531 50643 -Exon 11 50333 50434 -Exon 12 49836 50000 Redox box: no Query MAADVDKITHGNESNIRQDGPRTPDCGSWFYRGIWALLGLCSVPLLAFGIKYYQDALFLKRHVRSTAGMRVL <---Intron---> EESVGALGAEGF ||||||| | | /| | |/| ||| ||| | || || /|/|||/|||||||||| ||||||| |/|| || < 539bp > |||| ||||| Target MAADVDKRTPGKDSGIGQNGHRTPGSGSWLCRWIWTLLVVCAVPLIAFGIKYYQDAQFLKRHVRPTSGMHVL EESVRTLGAEGL agggggaaacgagagagcagccacgtgttctctataccggtggccagtgaattcggctcaccgacatgacgt ggagcatggggc tccataagccgaaggtgaagagccgcgcgtgggtgcttttgctcttctgtaaaaacattagatgcccgtatt aagtgctgcagt gcacgtaaccgaccttggtacgcgctacgcccgtgcgggcttattcgtgcgccatcgccatcaacatagcta aattgtgtaaat Query FLFSSLDTDHDLYLSPEEFKPIAEKLTG <---Intron---> ITAPVDQEEEDIHDPNGETLVLEARMQPLLLDSMTKSKDSFLG <---Intron-- ||||||||||||||||/||||||||||| < 95bp > |||||| |||/| |||||||||||||||||||||||||| ||| < 112bp Target FLFSSLDTDHDLYLSPDEFKPIAEKLTG ITAPVDLEEEEIRDPNGETLVLEARMQPLLLDSMTKSKDGFLG tcttttgagcgctcacggtacaggacag aagcggcggggacgcaggatgcggaacccccgtaaaaaggtcg tttcctacaaatatgcaatactcaatc gtccctataaaatgacagactttacgtactttactcagaagttg tccccactcttctctttgcactagaca gcacagtgggagctcataggggggcgggtggcccggacgtttta Query -> VSHSSLSGLRSWTSPAVPSSSFFASQFRVFLPPKNKLEVGDTWWVIPSELNIFTGYLPNNRYHPPSPKGKE <---Intron---> VLIHSLLSMF > |||||||||||||/|||||||||||||||||||||||||||||||||||||||||||||||||||/||||| < 85bp > ||||||||| Target VSHSSLSGLRSWTTPAVPSSSFFASQFRVFLPPKNKLEVGDTWWVIPSELNIFTGYLPNNRYHPPTPKGKE ALIHSLLSMF gtcatcagccttaacggctttttgactagtcccaaatggggattgacagcaatagtccaactcccacagag gcactttaat tcagctggtgcgcccctccccttcgatgtttccaaatatgacggttcgatattcgatcaagaaccccagaa cttacttgtt ttccggtacgaggccggttctctccgtatcgcagcaaagacggggtccgccctcacgatttcttctaacag tccccggcgc Query HPRPFIKSRFAPQGTVACIRASSDFYYDIVFR <---Intron---> IHAEFQLNDVPNFPFWFTPGQFTGNIVLSKDASHVRRFHLYVPNER <---I |||||||||||||||||||||||||||||||| < 281bp > ||||||||||||||||||||||||||/|||||||/| ||| |||/| < Target HPRPFIKSRFAPQGTVACIRASSDFYYDIVFR IHAEFQLNDVPNFPFWFTPGQFTGNIILSKDASHIRHFHLNVPNDR cccctaatctgccgaggtacgaagtttgagta acggtccaggcatctttacgctagaaactaggtcacctccagcaga acgcttacgtccagctcgtgcggataaatttg tacatataatcatctgtccgatcgatttcaaccatgatatatcaag ctgtccaacttagtacccttcctttttccct gttaacgactttctccgccgtacgtcccctatttccccccccttcc Query ntron---> SLNVDMEWLYGASESSNMEVDIGYLPQ <---Intron---> LELQSTGPSTPSVITDEEGNVVDSRDGSSEPIQFIFEEINWNTEISQ 68bp > ||||||||||||||||||||||||||| < 71bp > ||||| |||||||| ||||||/||||||||||||/|||||||||||| Target SLNVDMEWLYGASESSNMEVDIGYLPQ LELQSAGPSTPSVILDEEGNVIDSRDGSSEPIQFVFEEINWNTEISQ tcaggagtctggagaaaagggagtccc tgcctggctactgatggggagagacggaagcactgtggaataagaac ctatatagtagcgaggatatatgatca tataccgccccctttaaagattaggagggactatttaatagacatga gtgtgcggggcaccgcccgggctacggg gaagtacccactccgcggatccctatcccgccgtctaatcgcagctg Query EEAFGRVEATLYPFKK <---Intron---> VSYLPFSEAFERAEAEKKLVHSILLWGALDDQSCUG <---Intron---> SGRTLRETVLESSPVL |||| |/| ||||||| < 79bp > | ||||||||||||||/||||||||||||||||||| < 200bp > |||||||||||||||| Target EEAFRRLEVTLYPFKK VPYLPFSEAFERAEAEEKLVHSILLWGALDDQSCUG SGRTLRETVLESSPVL gggtaccggactctaa gctccttggtgcgggggacgctacctggcggctttg tgcaccgagcgatcgc aactggtatctactaa tcatctcactagcacaaattactttggctaaacgg gcggctgacttagcctt aattgcgggggcctgg gccgttagttgatgagggggtctgcgatattgtca tagatcggacgatgccg * Query ALLNQSFISSWSLVKELENMQ <---Intron---> ADEQNPALSEKARLHLEKYNFPVEMMVALPNGTI <---Intron---> LHHINANYFLDQT ||||||||||||||||||||| < 96bp > |||||||||/|| ||||||||||||||||||||| < 332bp > /|||||||||||| Target ALLNQSFISSWSLVKELENMQ ADEQNPALSQKASLHLEKYNFPVEMMVALPNGTI VHHINANYFLDQT gccacataaattcgagcgaac gggcacgcacagatccgatatcggaaggccagaa gccaagattcgca cttaagttgggcttaataata caaaacctgaacgtataaaatctatttctcagct taatacaattaac tgccgcccccgtgcagggcgg tcggcttgtagtcatgagccctgggggggctact cccccccctgcat Query AMKPEDEGATFSFSSGFEDPSTSTYISFLKEGLEKAKEIMEQ |||||||||||||| ||||||||||| |||||||/||| | Target AMKPEDEGATFSFSGGFEDPSTSTYIRFLKEGLERAKEYSAQ gaacgggggatattggtggctatataatcaggcgagagttgc ctacaaagcctgtcggtaacccccatgttaagtagcaaacca tgaggtaaacccttcgtgctcaccccgcggggggggggctag Sequence until next stop: TAA * Distance CDS-SECIS: 1457 ; UGA-SECIS: 1838 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = SSNR01000028.1:subseq_3936858,103491_ Strand = - Positions = 48378 - 48299 Found by: Infernal (score=36.44) Covels (score=33.37) Stem2 length = 9 Apical loop length = 16 Insertion in stem2 = 0, 0 Free Energy = -17.58 ..(((((((........(((((((((((((((................))))))))))))))).........))))))).. model uucggucaugcg-UuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc ...((((((........{[[(({({(((((((................)))))))})}))]]}.....-...))))))... target UGCGUCUCUUCAGUUUGUGAAGACUUCACCUGAAAGCUCUCUCUGAGCCGGGUGAUGCCUGAUGUUCC-UGCAGAGGCUGC **** ^^^ ****