_________________________________.______________________._________________________________________________________________________________ _|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_ _________________________________|______________________|_________________________________________________________________________________ Blastx evalue: 7e-22 Query name: gi|291045266|ref|NP_443115.1| thioredoxin reductase 3 isoform 1 [Homo sapiens] >gi|510120859|sp|Q86VQ6.4|TRXR3_HUMAN RecName: Full=Thioredoxin reductase 3; AltName: Full=Thioredoxin and glutathione reductase; AltName: Full=Thioredoxin reductase TR2 Query range: 1-643 (total 643) Target: /var/www/seblastian_output/715371373/tempfiles/temptarget.fasta Chromosome: your_sequence Strand: + Positions: -Exon 1 13595 13837 -Exon 2 23738 23798 -Exon 3 24840 24949 -Exon 4 26659 26763 -Exon 5 27003 27075 -Exon 6 28884 29003 -Exon 7 36943 37085 -Exon 8 39980 40095 -Exon 9 40940 41165 -Exon 10 42706 42798 -Exon 11 50000 50076 -Exon 12 50637 50793 -Exon 13 56632 56739 -Exon 14 60960 61055 -Exon 15 63516 63650 -Exon 16 64178 64243 Redox box: no Query MERSPPQSPGPGKAGDAPNRRSGHVRGARVLSPPGRRARLSSPGPSRSSEAREELRRHLVGLIERSRVVIFSKSYCPHSTR <---Intron---> VKE /|/||||||||||||||||||||||||||||||||||||||||||| |||||||||| | ||||||||/|||||||||||| < 9900bp > ||| Target VEQSPPQSPGPGKAGDAPNRRSGHVRGARVLSPPGRRARLSSPGPSSSSEAREELRRRLRGLIERSRVMIFSKSYCPHSTR VKE ggctccctcgcgaggggcacctgcgcggcgttccgccgccttcgcaattggcggccccccgcagcacgaataaattccaac gag taacccaccgcgacgaccaggcgatggcgttcccgggcgtcccgcggccacgaatgggtggttagggttttgagagcagcg taa gggggaggagggggctcccccgctcaggcggggggccccggccgcccgcgccgggccccgcctgccgggcccgcctccttg gaa Query LFSSLGVECNVLELDQVD <---Intron---> DGARVQEVLSEITNQKTVPNIFVNKVHVGGCDQTFQA <---Intron---> YQSGLLQKLLQED |||||||||||||||||| < 1041bp > |||/||||||||||||||||/|||||||||||||||| < 1709bp > ||||||||||||| Target LFSSLGVECNVLELDQVD DGAKVQEVLSEITNQKTVPNVFVNKVHVGGCDQTFQA YQSGLLQKLLQED cttttgggtagtgcgcgg gggagcggctgaaacaagcagtgaagcgggtgcatcg tcagttcacccgg ttcctgtagattataat aagcataattcatcaaactcatttaatatgggaactac aaggttaattaaa ctttgacgtccgattat ttgcgtaaggaacttgatgctttgtagtatatcatcg atgttgaggctgat Query LAYDYDLIIIGGGSGGLSCAKE <---Intron---> AAILGKKVMVLDFVVPSPQGTSWGL <---Intron---> GGTCVNVGCIPKKLMHQAALL ||||||||/|||||||||||| < 239bp > ||||||||||||||||||||||||| < 1808bp > ||||||||||||||||||||| Target SAYDYDLIIVGGGSGGLSCAKE AAILGKKVMVLDFVVPSPQGTSWGL GGTCVNVGCIPKKLMHQAALL tgtgtgcaaggggtggcttgag ggatgaagagcgtggctccgattgc ggatgaggtacaataccggct ccaaaattttgggcggtcgcaa ccttgaattttatttcccagccgg tggcgtatggtcaattaacctt aattttccttttttcctataga tatgagatggacttcgatgcacgt ttcttatattttgaggtgtctg Query GQALCDSRKFGWEYNQQVR <---Intron---> HNWETMTKAIQNHISSLNWGYRLSLREKAVAYVNSYGEFVEHHKIKAT <---Intron---> N ||||||||||||||||||/ < 7939bp > |||||||||||||||||||||||||||||||||||||||||||||||| < 2894bp > | Target GQALCDSRKFGWEYNQQVK HNWETMTKAIQNHISSLNWGYRLSLREKAVAYVNSYGEFVEHHKIKAT N gcgttgtaatgtgtaccga catgaaaagacacaatcatgtattcagagggtgattggtggccaaaga a gactgacgatggaaaaata aagactcactaaatgctaggagtctgaactcatacagattaaaatacc a ggagtcggatcggttaagg ccggggaagtgcccctacgccggtggagtgctctctaattattaaga ct Query KKGQETYYTAAQFVIATGERPRYLGIQGDKEYCITSDD <---Intron---> LFSLPYCPGKTLVVGASYVALECAGFLAGFGLDVTVMVRSILLRGF |||||||||||||||||||||||||||||||||||||| < 844bp > |||||||||||||||||||||||||||||||||||||||||||||| Target KKGQETYYTAAQFVIATGERPRYLGIQGDKEYCITSDD LFSLPYCPGKTLVVGASYVALECAGFLAGFGLDVTVMVRSILLRGF aagcgattaggctgagaggaccttgacggagttaaagg cttccttcgaatggggttggcgtggtcggtgcggagagctacccgt aagaacaacccatttccgagcgatgtagaaaagtcgaa ttctcagcgactttgccatctagcgttcgtgtatctttgctttggt aaaggtttttagtcaagtagaataacaataacttttt ctttgtcctcaaaggtcttccggtagtgtctcatcatgacactctcc Query DQEMAEKVGSYMEQHGVKFLRKFIPVMVQQ <---Intron---> LEKGSPGKLKVLAKSTEGTETIEGVYNTVLL <---Intron---> AIGRDSC |||||||||||||||||||||||||||/|| < 1540bp > ||||||||||||||||||||||||||||||| < 7201bp > ||||||| Target DQEMAEKVGSYMEQHGVKFLRKFIPVMIQQ LEKGSPGKLKVLAKSTEGTETIEGVYNTVLL AIGRDSC gcgaggaggttagccggatccatacgaacc tgagtcgacagtgataggagaagggtaagtt gagcgtt aaatcaatgcataaagtattgattcttta ataagccgatattcaccagcactagtaacttt ctggacg caagaaagtccgggttggcagacatggta gggatataggaagtacgaaaaacaactcatga ttttcct Query TRKIGLEKIGVKINEKSGK <---Intron---> IPVNDVEQTNVPYVYAVGDILEDKPELTPVAIQSGKLLAQRLFGASLEKCDYI <---Intron- |||/||||||||||||||| < 560bp > |||||||||/|||||||||/ | ||||||||||||||||/||||||||||||| < 5838bp Target TRKMGLEKIGVKINEKSGK IPVNDVEQTSVPYVYAVGDVSEGKPELTPVAIQSGKLLARRLFGASLEKCDYI aaaagtgaaggaaagaaga acgagggcaagctgtgggggtggacgcacggactgaccgcactggttgatgta cgatgtaatgtataaagga tctaataacgtcatactgatcagacatcctctacgattcggttgcctaagaa agagcgggttcattggta aatattgagctgatctttgttggtgagcttccagacggatgattgctaagttt Query --> NVPTTVFTPLEYGCCGLSEEKAIEVYKKENLEIYHT <---Intron---> LFWPLEWTVAGRENNTCYAKIICNKFDHDRVI <---Intron- > |||||||||||||||||/|||||||||||||||||| < 4220bp > ||||||||||||||||||||||||| |||||| < 2460bp Target NVPTTVFTPLEYGCCGLAEEKAIEVYKKENLEIYHT LFWPLEWTVAGRENNTCYAKIICNKLDHDRVI agcaagtaccgtgttgtgggagaggtaagacgatca tttccgtagggagaaattgaaataatgcgcga tatcccttcctaaggggtcaaactataaaaatataac ttgctagctcggaaacgacattgaataaagtt tttgtggtttggttccaataaattaataagtaaattt gcgttagaatcagccttcggacctaacttgga Query --> GFHILGPNAGEVTQGFAAAMKCGLTKQLLDDTIGIHPTCGEVFTT <---Intron---> LEITKSSGLDITQKGCUG > |||||||||||||||| |||||||||||||||||||||||||||| < 527bp > |||||||||||||||||| Target GFHILGPNAGEVTQGFVAAMKCGLTKQLLDDTIGIHPTCGEVFTT LEITKSSGLDITQKGCUG gtcacgcaggggacgtgggaatgcaacccggaagaccatgggtaa tgaaattgcgaacagttg gtattgcacgatcagttcctaggtcaattaactgtaccggattcc tatcaccgtatcaagggg attttaatctgtcaatatagatgcaagattcctatccatgggcgt gacagggaacctgatcac * Sequence until next stop: TAG * Distance CDS-SECIS: 213 ; UGA-SECIS: 216 ------- SECIS element -- id:1 -- grade:A ---- Chromosome = your_sequence Strand = + Positions = 64457 - 64529 Found by: Infernal (score=18.86) Covels (score=17.86) Stem2 length = 10 Apical loop length = 16 Insertion in stem2 = 0, 0 Free Energy = -18.0 ..(((((((.......(((((((((((((((................)))))))))))))))........))))))).. model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuuuuucaugaccggc ..(([{(((.--....{[[{((((({(((((................)))))})))))}]]}----....)))}])).. target UGGGACUGCU--UCCUUGACGCCUUAGCUUGGAGCCCUGUUGUGAGGUGAGCCAAGGCCGAC----UCUCGCAAGCCAG **** ^^ ****