Total number of SECIS elements predicted: 1
Number of known selenoproteins predicted: 1
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Selenoprotein id: 1 Category: known selenoprotein
Protein prediction
Predicted by: exonerate Blastx evalue: 5e-19
Query protein: gi|287327510|ref|NP_001098598.2| selenoprotein X, 1b [Danio rerio]
Positions on query: 19-104 Query length: 110
Target name: JARO01016211.1:subseq_1,5535_
Positions on target: 714-857,2859-2972 Strand: +
Query GIYACSQCGHPLFSSRSKYEHSSPWPAFTETIREDSVTKMMETLTAYK <---Intron---> VLCGKC
||| |//| ||||||||||||||||||| ||/||||||| ||||/|/| < 2001bp > ||||||
Target GIYVCAKCKHPLFSSRSKYEHSSPWPAFIETLREDSVTKHMETLSAFK VLCGKC
gatgtgatacccttactatgcttctcgtagaccggagaacagactgta gctgat
gtatgcagaacttcggcaaaacccgccttactgaagtcaatactccta ttggag
tttgccgtgcggcctgcgtatcctgcgcagcccgccccacgactgccg tctgat
Query GNGLGHEFLNDGPEEGLSRFUIFSHSLKFVPK
||||||||/||||||| ||||||| |||||||
Target GNGLGHEFINDGPEEGQSRFUIFSSSLKFVPK
gagcgcgtaaggcgggctcttataatcatgca
gagtgaattaagcaagacgtgttggctattca
ctagctgtatcaagaagtccaatccgggtata
*
SECIS prediction Predicted by: Infernal (score 14.61)
Covels score: 15.64
Free Energy of structure: -23.5
Target name: JARO01016211.1:subseq_1,5535_
Positions on target: 3253-3326 Strand: +
Distance between candidate CDS and SECIS: 280
Distance between Sec-UGA and SECIS: 313
SECIS grade: A
SEQ GAGGUGUGGAUGGCUUAUGAAGCGUGUUGGACAAAGCUUCGUUCAGCACACAGAUGUGUCCGUGACCACACCGG
SS ..(((((((........{[[{({(((((((((........)))))))))})}]]}..........)))))))..
