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_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
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Blastx evalue: 5e-05
Query name: gi|5107031|gb|AAD39929.1|AF133519_1 thioredoxin reductase 3, partial [Homo sapiens]
Query range: 2-577 (total 577)
Target: /data/www-rg/seblastian_results/391718330/tempfiles/temptarget.fasta
Chromosome: KV389994.1:subseq_492455,100245_ Strand: +
Positions:
-Exon 1 29164 29205
-Exon 2 34711 34771
-Exon 3 35784 35893
-Exon 4 38706 38810
-Exon 5 39056 39128
-Exon 6 41020 41139
-Exon 7 45044 45186
-Exon 8 49107 49222
-Exon 9 50014 50239
-Exon 10 51500 51592
-Exon 11 58463 58539
-Exon 12 59110 59266
-Exon 13 65249 65356
-Exon 14 66061 66156
-Exon 15 68680 68814
-Exon 16 69335 69400
Redox box: no
Query VVIFSKSYCPHSTR <---Intron---> VKELFSSLGVECNVLELDQVD <---Intron---> DGARVQEVLSEITNQKTVPNIFVNKVHVGGCDQ
|||||||||||||| < 5505bp > ||||||||| || |||||||| < 1012bp > |||//|||| |||||||||||||||||||||||
Target VVIFSKSYCPHSTR VKELFSSLGAECYVLELDQVD DGAKIQEVLLEITNQKTVPNIFVNKVHVGGCDQ
ggataaattccaac gagcttttgggttgtgcgcgg gggaacggctgaaacaagcaatgaagcgggtgc
ttttgagagcagcg taattcctgcagattataat aagcataatttatcaaactcatttaatatgggaa
ggcccgcctcccgg gaacttcgatattcgattat ttgcgtaaggaacttgacgctttgtagtatatca
Query TFQ <---Intron---> AYQSGLLQKLLQEDLAYDYDLIIIGGGSGGLSCAK <---Intron---> EAAILGKKVMVLDFVVPSPQGTSWG <---
||| < 2812bp > ||||||||||| || |||||||/|||||||||||| < 245bp > ||||||||||||||||||||||||| <
Target TFQ AYQSGLLQKLLHEDSAYDYDLIVIGGGSGGLSCAK EAAILGKKVMVLDFVVPSPQGTSWG
atc gtcagttcacccggtgtgtgcagagggtggcttga gggatgaagagcgtggctccgattg
cta caaggttaattaaaccaaaattttgggcggtcgca accttgaattttatttcccagccg
tcg atgttggggcttgtaatttcgccctttttctgtag atctgagatggacttcgatgcatg
Query Intron---> LGGTCVNVGCIPKKLMHQAALLGQALCDSRKFGWEYNQQV <---Intron---> RHNWETMTKAIQNHISSLNWGYRLSLREKAVAY
1891bp > ||||||||||/||||||||||||||| ||||||||||||| < 3904bp > |||||||||||||| |||/|| ||||||||||
Target LGGTCVNVGCVPKKLMHQAALLGQALHDSRKFGWEYNQQV THNWETMTKAIQNHIRSLNFGYGLSLREKAVAY
cggatgaggtgcaataccggctgcgtcgtaatgtgtaccg acatgaaaagacacactcatgtgtttagagggt
gtggcgtatggtcaattaaccttgactaacgatggaaaaa tcaagactcactaaatgctatgagtctgaactca
tttcttatattttgaggtgtctgggaatcaggtcggttaa ggccggggaagtgcccctactccggtggagtgct
Query VNSYGEFVEHHKIK <---Intron---> ATNKKGQETYYTAAQFVIATGERPRYLGIQGDKEYCITS <---Intron---> DDLFSLPYCPGKPLV
|||||||||||||| < 3920bp > ||||||||||||||||||||||||||||||||||||||| < 791bp > |||||||||||| ||
Target VNSYGEFVEHHKIK ATNKKGQETYYTAAQFVIATGERPRYLGIQGDKEYCITS DDLFSLPYCPGKTLV
gattggtggccaaa gaaaagcgattaggctgagaggaccttgacggagttaaa ggcttccttcgaatg
tacagattaaaata ccaaagaacaacccatttccgagcgatgtagaaaagtcg aattctcagcgactt
ctctaattatcaag actaaagatttttagtcaagtagggtaacaataacttc ttctttgttctcagag
Query VGASYVALECAGFLAGFGLDVTVMVRSILLRGFDQEMAEKVGSYMEQHGVKFLRKFIPVM <---Intron---> VQQLEKGSPGKLKVLAKSTEGTET
||||||||||||||||||||||||||||||||||||||||||||||||||/|| |||||| < 1260bp > ||||||||||||||||||||||||
Target VGASYVALECAGFLAGFGLDVTVMVRSILLRGFDQEMAEKVGSYMEQHGVRFLWKFIPVM VQQLEKGSPGKLKVLAKSTEGTET
gggttggcgtggtcggtgcggagagctacccgtgcgaggaggttagccggatctatacga gcctgagtcgacagtgataggaga
tgccatctagcgttcgtgtatctttgctttggtaaatcaatgcataaagtgttgattctt taataagccgatattcaccagcac
gtctcccggtagtgtctcatcatgacactctctcaagagagtctgggttggcagacatgg tagggatataggaagtactaaaaa
Query IEGVYNT <---Intron---> VLLAIGRDSCTRKIGLEKIGVKINEK <---Intron---> SGKIPVNDVEQTNVPYVYAVGDILEDKPELTPVAI
|| |||| < 6870bp > |||||||||||||||||||||||||| < 570bp > ||||||||||||/|||||||||||| |||||||||
Target IEEVYNT VLLAIGRDSCTRKIGLEKIGVKINEK SGKIPVNDVEQTSVPYVYAVGDILEGKPELTPVAI
agggtaa gttgagcgttaaaagtgaaggaaaga agaacgagggcaagctgtggggatggacgcacgga
taataac tttctggacgcgatgtaatgtataaa ggatctaataacgtcatactgattagacatcctct
taactca tgattttcctagaaggggttcattg ataaatattgagcttatctttgttggtgagcttcca
Query QSGKLLAQRLFGASLEK <---Intron---> CDYINVPTTVFTPLEYGCCGLSEEKAIEVYKKENLE <---Intron---> IYHTLFWPLEWTVAG
|||||||/||||||||| < 5982bp > |||||||||||||||||||||||||||||||||||| < 704bp > |||||||||||||||
Target QSGKLLARRLFGASLEK CDYINVPTTVFTPLEYGCCGLSEEKAIEVYKKENLE IYHTLFWPLEWTVAG
ctgaccgcactggttga tgtaagcaagtaccgtgttgttggagaggtaagacg atcatttccgtaggg
acgattcggttgcctaa gaatatcccttcctaaggggtcaaactataaaaata taacttgctagctcg
gacggatgattgctaag ttttttatggtttggttctaataggttaataagtaa atttgcgttagaatc
Query RENNTCYAKIICNKFDH <---Intron---> DRVIGFHILGPNAGEVTQGFAAAMKCGLTKQLLDDTIGIHPTCGE <---Intron---> VFTTLE
||||||||||||||||| < 2523bp > ||||||||||||||||||||||||||||||||||||||||||||| < 520bp > ||||||
Target RENNTCYAKIICNKFDH DRVIGFHILGPNAGEVTQGFAAAMKCGLTKQLLDDTIGIHPTCGE VFTTLE
agaaattgaaataatgc gcgagtcacgcaggggacgtgggaatgcaacccggaagaccatgg gtaatg
gaaacgacattgaataa agttgtattgcacgatcagtccctaggtcaattaactgtaccgga ttccta
agccttcagacctacct tggagttttaatctgtcactatagactcaagattcctatccatgg gcatga
Query ITKSSGLDITQKGCUG
||||||||||||||||
Target ITKSSGLDITQKGCUG
aaattgcgaacagttg
tcaccgtatcaagggg
caacaaacctgaccac
*
Sequence until next stop:
TAG
*
Distance CDS-SECIS: 212 ; UGA-SECIS: 215
------- SECIS element -- id:1 -- grade:A ----
Chromosome = KV389994.1:subseq_492455,100245_ Strand = + Positions = 69613 - 69687
Found by: Infernal (score=23.92) Covels (score=22.5)
Stem2 length = 11 Apical loop length = 14 Insertion in stem2 = 0, 0
Free Energy = -19.44
..(((((((.......(((((((((((((((................))))))))))))))).........)))))))..
model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuuu-uuucaugaccggc
.....((((---(...{[[{((((({((((((..............))))))})))))}]]}.....-.-))))).....
target GGGACUGCU---UCCUUGAUGCCUUAGCUCGCAGCCCCGUUAUGAGGUGAGCCAAGGCUGAUUCUCG-C-AAGCGAGGAC
**** ^^ ****