miRNA display CGI


Results 1 - 20 of 142 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
12945 3' -55.9 NC_003387.1 + 28119 0.66 0.711395
Target:  5'- gAGGcGCUGAucgcCGAGGcccgcaAGCGCCCCaCGAUCg -3'
miRNA:   3'- -UCU-CGGUU----GCUCU------UUGCGGGG-GCUGG- -5'
12945 3' -55.9 NC_003387.1 + 2167 0.66 0.689953
Target:  5'- aGGuGUCAACacaAAGCGCCCCCcgaGCCa -3'
miRNA:   3'- -UCuCGGUUGcucUUUGCGGGGGc--UGG- -5'
12945 3' -55.9 NC_003387.1 + 31733 0.66 0.686715
Target:  5'- --cGCCGACGAGAGcuaucgcggcauucGCggcguugcccGCCCCUGcCCg -3'
miRNA:   3'- ucuCGGUUGCUCUU--------------UG----------CGGGGGCuGG- -5'
12945 3' -55.9 NC_003387.1 + 5960 0.66 0.679144
Target:  5'- --cGCCGaaccGCGAGu--CGCUcgaCCCGGCCg -3'
miRNA:   3'- ucuCGGU----UGCUCuuuGCGG---GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 18826 0.66 0.679144
Target:  5'- cAGAucGCCGACGGGu--CGCCgCCCauGugCa -3'
miRNA:   3'- -UCU--CGGUUGCUCuuuGCGG-GGG--CugG- -5'
12945 3' -55.9 NC_003387.1 + 41334 0.66 0.679144
Target:  5'- -cGGCCAGCGuGGcgccgauCGCCgcaaacgacgaCCCGGCCg -3'
miRNA:   3'- ucUCGGUUGCuCUuu-----GCGG-----------GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 23333 0.66 0.675892
Target:  5'- -cGGCgGGCGAGAucgaggucgucaccGGCGCCgCUGACg -3'
miRNA:   3'- ucUCGgUUGCUCU--------------UUGCGGgGGCUGg -5'
12945 3' -55.9 NC_003387.1 + 5673 0.66 0.668291
Target:  5'- cGGGGUaaAACGAGcgccACGCCucaugCCCGGCCg -3'
miRNA:   3'- -UCUCGg-UUGCUCuu--UGCGG-----GGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 43956 0.66 0.668291
Target:  5'- -uGGUCGucgaucuugACG-GuuACGCCCUCGACCg -3'
miRNA:   3'- ucUCGGU---------UGCuCuuUGCGGGGGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 42678 0.66 0.689953
Target:  5'- -cGGCCGACacc--GCGCCCUCGGCg -3'
miRNA:   3'- ucUCGGUUGcucuuUGCGGGGGCUGg -5'
12945 3' -55.9 NC_003387.1 + 41449 0.66 0.689953
Target:  5'- aAGAGCCuugauCGAGu--CGCCgaCgCGGCCg -3'
miRNA:   3'- -UCUCGGuu---GCUCuuuGCGGg-G-GCUGG- -5'
12945 3' -55.9 NC_003387.1 + 48416 0.66 0.693185
Target:  5'- uGAGCCAcugcCGGGucgcggugcgcugcuCGCCCgCGGCCu -3'
miRNA:   3'- uCUCGGUu---GCUCuuu------------GCGGGgGCUGG- -5'
12945 3' -55.9 NC_003387.1 + 40134 0.66 0.711395
Target:  5'- -cGGcCCGACGGGugaucgggguAAGCGUCCUgCGACCg -3'
miRNA:   3'- ucUC-GGUUGCUC----------UUUGCGGGG-GCUGG- -5'
12945 3' -55.9 NC_003387.1 + 29508 0.66 0.711395
Target:  5'- -cAGCCGcagacaaugcuGCGA-AAAUGCCCUCGACg -3'
miRNA:   3'- ucUCGGU-----------UGCUcUUUGCGGGGGCUGg -5'
12945 3' -55.9 NC_003387.1 + 44714 0.66 0.700707
Target:  5'- cGGGCCGacagagggcACGAGAGucacuguuGCgGCCCCUGcuCCg -3'
miRNA:   3'- uCUCGGU---------UGCUCUU--------UG-CGGGGGCu-GG- -5'
12945 3' -55.9 NC_003387.1 + 12179 0.66 0.700707
Target:  5'- --cGCCu-CGGGGGucACGCCCUCGGgCa -3'
miRNA:   3'- ucuCGGuuGCUCUU--UGCGGGGGCUgG- -5'
12945 3' -55.9 NC_003387.1 + 7172 0.66 0.700707
Target:  5'- cGAGCUGGCGGcGGAuCGCCUugccgcaCGGCCa -3'
miRNA:   3'- uCUCGGUUGCU-CUUuGCGGGg------GCUGG- -5'
12945 3' -55.9 NC_003387.1 + 24349 0.66 0.700707
Target:  5'- -cAGCC-ACGAGuuGCGCCCgCCcugcGACa -3'
miRNA:   3'- ucUCGGuUGCUCuuUGCGGG-GG----CUGg -5'
12945 3' -55.9 NC_003387.1 + 7785 0.66 0.700707
Target:  5'- uGAGCCuucGCGAGcgccucguCGCCCCa-GCCc -3'
miRNA:   3'- uCUCGGu--UGCUCuuu-----GCGGGGgcUGG- -5'
12945 3' -55.9 NC_003387.1 + 7137 0.66 0.700707
Target:  5'- -cAGCCAcGCGAGGcccgGCuCCUCGGCCg -3'
miRNA:   3'- ucUCGGU-UGCUCUuug-CG-GGGGCUGG- -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.