miRNA display CGI


Results 1 - 7 of 7 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
1294 5' -54.1 NC_001317.1 + 3621 0.68 0.45692
Target:  5'- aCCUgcaGCAUUUCGGCAAUCugcGGCACGg- -3'
miRNA:   3'- aGGA---UGUAGGGCCGUUGG---UCGUGUau -5'
1294 5' -54.1 NC_001317.1 + 14621 0.68 0.414591
Target:  5'- uUCCUGCGUaucgagaCCCGGCAcACCGagaauGCGCGg- -3'
miRNA:   3'- -AGGAUGUA-------GGGCCGU-UGGU-----CGUGUau -5'
1294 5' -54.1 NC_001317.1 + 17159 0.68 0.412588
Target:  5'- gCCUGCAuUUCUGGCGACUgcuuaucgaccccgAGCACAg- -3'
miRNA:   3'- aGGAUGU-AGGGCCGUUGG--------------UCGUGUau -5'
1294 5' -54.1 NC_001317.1 + 26307 0.69 0.386146
Target:  5'- aUCUGCAUCCUccucccacauaGGUAACgCAGCGCGg- -3'
miRNA:   3'- aGGAUGUAGGG-----------CCGUUG-GUCGUGUau -5'
1294 5' -54.1 NC_001317.1 + 6164 0.69 0.371014
Target:  5'- aUCCUGCgcaccacgaccaucaGUCagcacaCCGGCGACCcacGGCGCAUAg -3'
miRNA:   3'- -AGGAUG---------------UAG------GGCCGUUGG---UCGUGUAU- -5'
1294 5' -54.1 NC_001317.1 + 7239 0.71 0.275262
Target:  5'- gUCCUGCAga-CGcGCAacugACCAGCGCAUAu -3'
miRNA:   3'- -AGGAUGUaggGC-CGU----UGGUCGUGUAU- -5'
1294 5' -54.1 NC_001317.1 + 18635 1.07 0.000649
Target:  5'- uUCCUACAUCCCGGCAACCAGCACAUAu -3'
miRNA:   3'- -AGGAUGUAGGGCCGUUGGUCGUGUAU- -5'
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.