_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 2e-42 Query name: gi|1041060975|ref|XP_017266763.1| PREDICTED: selenoprotein N [Kryptolebias marmoratus] Query range: 1-557 (total 557) Target: /data/www-rg/seblastian_results/411972860/tempfiles/temptarget.fasta Chromosome: JACSYO010002166.1:subseq_2876593,100000_ Strand: + Positions: -Exon 1 50000 50188 -Exon 2 50901 51018 -Exon 3 51152 51282 -Exon 4 51649 51861 -Exon 5 51941 52065 -Exon 6 52742 52879 -Exon 7 52976 53057 -Exon 8 53616 53804 -Exon 9 53898 54003 -Exon 10 54598 54710 -Exon 11 54822 54923 -Exon 12 55177 55341 Redox box: no Query MAADVDKRSPETESKPGQSGRRTAGSGSSWFRRGTWTLLVLCAVPLLAFGVKYYQDVQLLRRH <---Intron---> EKGVQALGVEGLFFFSSLDTD ||||||| | || / | || || ||||/| ||||||||/||||| |||/|| < 712bp > / |/ ||||||| ||||||| Target MAADVDKTIPGDESNVSRRNGNLGPSSGSWISRGVWTLLILAAVPLLAFGIKYYQDAQLLQRH QGSVRTLGVEGLFLFSSLDTD agggggaaacgggaagtccagacgcatgttataggtaccacgggcccgtgaattcggcccccc cgagcacggggctcttttgag tccataactcgaagatcggagatgcgcgcgtcggtgcttttcctcttctgtaaaaacattaga aggtgctgtagttttcctaca gtacgtaaccgtgcctaggcgtgtgccgcgccggcgggcacctctgcctgcgctatcgccgtt agctacgcagttttcccgtcc Query HDLYLSPEEFKPIAEKLTG <---Intron---> IAAPVDLEEEEIHDPNGETLILEAKMQALLLDSMTKSKDGFLG <---Intron---> VSHSSL ||||||||||||| ||||| < 133bp > | ||| ||| ||||||||| |||||| ||||||||||||||| < 366bp > |||||| Target HDLYLSPEEFKPIVEKLTG ITPPVDFEEEVIHDPNGETLTLEAKMQPLLLDSMTKSKDGFLG VSHSSL cgctcacggtacaggacag aaccggtggggacgcaggatatggaacccccgtaaaaaggtcg gtcatc aatatgcaatacttaatc gtccctataaattaacagactctacatactttactcagaagttg tcagct tcttctgggtacttgaca atacggttgaagctcctagtgcggtaggtggcccgaacattccg gtcctg Query SGLRSWKSPAVPSLSFFASQFRAFLPPKNKVDVGDTWWVIPSELNIFTGYLPNNRYHPPAPKGKE <---Intron---> VLVHALLSMFHPRPFIKSR |||||||||||| || |||||| |||| ||/||||||||||||||||||||||||||| ||||| < 79bp > ||/|/|||||||||||||| Target SGLRSWKSPAVPFSSFSASQFRALLPPKKKVEVGDTWWVIPSELNIFTGYLPNNRYHPPLPKGKE VLIHSLLSMFHPRPFIKSR agccttaacggctttttgactagctccaaagggggattgacagcaatagtccaactccctcagag gcactttaatcccctaatc ggtgcgagcctctcctccgatgcttccaaatatgacggttcgatattcgatcaagaacctcagaa tttacttgttacgcttacg tggcaggcaagttccctccgcgccgcgggggagtcggggttcgcccccgccccttcctcaagcag tccccggcgccggcccaat Query FAPQGAVACIRASSDFYYDIVFR <---Intron---> IHAEFQLNDVPNFPFWFTPGQFTGNIVLSKDASHVRHFHLFVPNDR <---Intron---> |||||||||||||/||||||||| < 676bp > |||||||||||/||||||||/|||||||||||||||/|||/||||| < 96bp > Target FAPQGAVACIRASNDFYYDIVFR IHAEFQLNDVPDFPFWFTPGKFTGNIVLSKDASHVRNFHLYVPNDR tgccggggtacgaagtttgagta acggtccaggcgtctttacgatagaagctaggtcgcatcctgcaga tccagctcgtgcgaataaatttg tacatataatcatctgtccgatcgatttcaaccatgatatatcaag tttgcacccttcccctttctgc gttaatgctttactccgccgggccccttctatattctctccccctc Query SLNVDMEWLYGASESSNMEVDIGYLPQ <---Intron---> LELQSTGPSTPSVILDEEGKVIDSRAGGGEPIQFVFEEIHWSSEISREEAFRRLEV ||||||||||||||||||||||||||| < 558bp > ||||||||||||/|/|||| /|||| | |||||||||/|||/|||||/|| ||||| Target SLNVDMEWLYGASESSNMEVDIGYLPQ LELQSTGPSTPSIIMDEEGNIIDSRDGSGEPIQFVFEDIHWTSEISRQEATRRLEV tcaggagtctggagaaaagggagtccc tgcctagctactaaaggggaaagacggaggcactgtggactatgaaccggacccgg ctatatagtagcgaggatatatgatca tataccgccccctttaaagattaggagggactatttaatagccatggaaccggtat gtgtgcggggcgctgcccgggccatgag agggcgcgctccccgcggccccctatcctggcgtctgcccgcagatgaaccacggc Query TLYPFKK <---Intron---> VPYLPFSEAFERAEAEKKLVHSILLWGALDDQSCUG <---Intron---> SGRTLRETVLESSPVLALLNQSFIS |||||| < 93bp > | |||||||||||||| ||||||||||||||||||| < 594bp > ||||||||||||||||||||||||| Target ILYPFKK VSYLPFSEAFERAEAENKLVHSILLWGALDDQSCUG SGRTLRETVLESSPVLALLNQSFIS actctaa gttccttggtgcggggaacgctacctggtggctttg tgcaccgagcgatcgcgccacataa ttactaa tcatctcactagcacaaattactttggctaaacgg gcggctgacttagccttcttaagttg ccttcgg gccgttaactgataggtaggtctgtggaaccgcca tggatcggacgatgccgcgccgccac * Query SWSLVRELENMQ <---Intron---> ADEQDPALSEKARLHLENYSFPVEMMVALPNGTI <---Intron---> VHHINANYFLDQTAMKPEDEGA |||||||||||| < 111bp > ||||/| |||||||||| |/|||||||||||||| < 253bp > |||||||/||||||||||/||| Target SWSLVRELENMQ ADEQNPVLSEKARLHLEMYNFPVEMMVALPNGTI VHHINANFFLDQTAMKPEEEGA attcgcgcgaac gggcacgtagagctccgatatcggaaggccagaa gccaagattcgcagaacggggg ggcttgataata caaaacttgaacgtatataatctatttctcagct taatacatttaacctacaaagc cgtgcagggcgg ttggctggtagcgacgggccctgggggagccagt cccctccccgcggcgaaggaaa Query TFSFSGGFEDPSTSTYLSFLKEGLEKAQAYVTQ |||||||||||||/||/||||||||||/ // | Target TFSFSGGFEDPSTATYISFLKEGLEKAKGHLAQ atattggtggctagataatcaggtgagagccgc ctgtcggtaacccccatgttaagtaacagatca tcccttgtgccagcttccccgggggacggcgag Sequence until next stop: TAA * Distance CDS-SECIS: 524 ; UGA-SECIS: 905 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = JACSYO010002166.1:subseq_2876593,100000_ Strand = + Positions = 55866 - 55939 Found by: Infernal (score=35.54) Covels (score=27.79) Stem2 length = 10 Apical loop length = 16 Insertion in stem2 = 0, 0 Free Energy = -25.89 ..(((((((.......(((((((((((((((................)))))))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc ((([((((((--(...{[[(({(((((((((................)))))))))}))]]}..--.)-))))))]))) target GUUGCAGCAG--UUUGUGAAGACGUUGCCUGAAAGCUCUCUUCGGGCCGGGCGACGCCUGAUGU--UA-UUGCUGAGGC **** ^^^ ****