miRNA display CGI


Results 1 - 20 of 52 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
30404 3' -57.9 NC_006548.1 + 1311 1.08 0.000332
Target:  5'- cUGCCGCACCGCGCGCGCAAGCAAAGAc -3'
miRNA:   3'- -ACGGCGUGGCGCGCGCGUUCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 26881 0.8 0.04431
Target:  5'- uUGCCGCAauccUCGCGCGCGCGugAGCcGGGAg -3'
miRNA:   3'- -ACGGCGU----GGCGCGCGCGU--UCGuUUCU- -5'
30404 3' -57.9 NC_006548.1 + 36743 0.77 0.0849
Target:  5'- aGCCGCACCaGCucgGCGaCGCucGCAGAGAg -3'
miRNA:   3'- aCGGCGUGG-CG---CGC-GCGuuCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 33016 0.76 0.087414
Target:  5'- cGCUGCACCGgGCGCGCcAGUu--GAa -3'
miRNA:   3'- aCGGCGUGGCgCGCGCGuUCGuuuCU- -5'
30404 3' -57.9 NC_006548.1 + 12996 0.76 0.089998
Target:  5'- cGCacaGCACCGCGCucaGCGCGAGCc-AGAa -3'
miRNA:   3'- aCGg--CGUGGCGCG---CGCGUUCGuuUCU- -5'
30404 3' -57.9 NC_006548.1 + 7206 0.75 0.110221
Target:  5'- aGCgCGCACCGCGUaaGCGGcGCAAGGAc -3'
miRNA:   3'- aCG-GCGUGGCGCGcgCGUU-CGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 25425 0.74 0.130869
Target:  5'- uUGCCagGCCGUGCGCGCAGGCc---- -3'
miRNA:   3'- -ACGGcgUGGCGCGCGCGUUCGuuucu -5'
30404 3' -57.9 NC_006548.1 + 13623 0.72 0.16858
Target:  5'- uUGCC--GCCGCcCGCGCAGGCAccGAGGa -3'
miRNA:   3'- -ACGGcgUGGCGcGCGCGUUCGU--UUCU- -5'
30404 3' -57.9 NC_006548.1 + 6460 0.72 0.176718
Target:  5'- cGCCGCGCCugGCGCGUGCAcGaugaccucgaugccCAGGGAg -3'
miRNA:   3'- aCGGCGUGG--CGCGCGCGUuC--------------GUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 7812 0.72 0.17819
Target:  5'- cUGCCGCgaGCUGCGCaaggcucuGCGCGAccuccGCGAGGAc -3'
miRNA:   3'- -ACGGCG--UGGCGCG--------CGCGUU-----CGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 36595 0.72 0.17819
Target:  5'- gGCCgGCACCGCG-GUGCucgcGCGGGGAu -3'
miRNA:   3'- aCGG-CGUGGCGCgCGCGuu--CGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 28850 0.72 0.192987
Target:  5'- cUGCCGCAUCcagggucgcccagGCG-GCGCGAGCAcGGGc -3'
miRNA:   3'- -ACGGCGUGG-------------CGCgCGCGUUCGUuUCU- -5'
30404 3' -57.9 NC_006548.1 + 35941 0.71 0.198875
Target:  5'- cGCCGCcgGCCGCGCggaucGCGCcGGCAu--- -3'
miRNA:   3'- aCGGCG--UGGCGCG-----CGCGuUCGUuucu -5'
30404 3' -57.9 NC_006548.1 + 19256 0.71 0.209983
Target:  5'- cGCCGgccUACCuGCG-GCGCAAGCgAAAGAa -3'
miRNA:   3'- aCGGC---GUGG-CGCgCGCGUUCG-UUUCU- -5'
30404 3' -57.9 NC_006548.1 + 22972 0.71 0.215735
Target:  5'- cGCUuCAUCGUGCaGCGCGAGCGucuGGAu -3'
miRNA:   3'- aCGGcGUGGCGCG-CGCGUUCGUu--UCU- -5'
30404 3' -57.9 NC_006548.1 + 2002 0.71 0.221622
Target:  5'- aUGCCGCGggcaaGCGCGCGCGGcuGCAccAGGGg -3'
miRNA:   3'- -ACGGCGUgg---CGCGCGCGUU--CGU--UUCU- -5'
30404 3' -57.9 NC_006548.1 + 22518 0.7 0.227645
Target:  5'- cUGCCGCACCaaccacuaccgGCGCacagcCGCcGGCGGAGGa -3'
miRNA:   3'- -ACGGCGUGG-----------CGCGc----GCGuUCGUUUCU- -5'
30404 3' -57.9 NC_006548.1 + 12877 0.7 0.233806
Target:  5'- -aCCGCGCCGCuCGCGCGgcacuGGCGAGc- -3'
miRNA:   3'- acGGCGUGGCGcGCGCGU-----UCGUUUcu -5'
30404 3' -57.9 NC_006548.1 + 9646 0.7 0.245897
Target:  5'- cGCCGCGCucgaugcacugauCGCGUGCGCcccuGGCGAu-- -3'
miRNA:   3'- aCGGCGUG-------------GCGCGCGCGu---UCGUUucu -5'
30404 3' -57.9 NC_006548.1 + 25376 0.7 0.246548
Target:  5'- cUGCCGCcugggcaaugaGCUGCGCGaccaGCGaauggugggcGGCAAGGAc -3'
miRNA:   3'- -ACGGCG-----------UGGCGCGCg---CGU----------UCGUUUCU- -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.