miRNA display CGI


Results 1 - 20 of 67 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
29133 3' -59.3 NC_006146.1 + 155088 1.08 0.001626
Target:  5'- cGAUGCCGGGCCAGAUCAGGGAGGUCAg -3'
miRNA:   3'- -CUACGGCCCGGUCUAGUCCCUCCAGU- -5'
29133 3' -59.3 NC_006146.1 + 145744 0.68 0.685354
Target:  5'- --gGCCGGGCaGGAUCu-GGAGGUa- -3'
miRNA:   3'- cuaCGGCCCGgUCUAGucCCUCCAgu -5'
29133 3' -59.3 NC_006146.1 + 138086 0.67 0.724578
Target:  5'- --cGCCGGGCCGGcUgGGGGuuGUgCAc -3'
miRNA:   3'- cuaCGGCCCGGUCuAgUCCCucCA-GU- -5'
29133 3' -59.3 NC_006146.1 + 170391 0.66 0.802312
Target:  5'- --gGCCGGGCCuccccugggggccucGGGggcggagGGGGGGGUCc -3'
miRNA:   3'- cuaCGGCCCGG---------------UCUag-----UCCCUCCAGu -5'
29133 3' -59.3 NC_006146.1 + 12887 0.69 0.575509
Target:  5'- --gGCCGGGUCucGGGUCuGGG-GGUCu -3'
miRNA:   3'- cuaCGGCCCGG--UCUAGuCCCuCCAGu -5'
29133 3' -59.3 NC_006146.1 + 19042 0.69 0.575509
Target:  5'- --gGCCGGGUCucGGGUCuGGG-GGUCu -3'
miRNA:   3'- cuaCGGCCCGG--UCUAGuCCCuCCAGu -5'
29133 3' -59.3 NC_006146.1 + 25198 0.69 0.575509
Target:  5'- --gGCCGGGUCucGGGUCuGGG-GGUCu -3'
miRNA:   3'- cuaCGGCCCGG--UCUAGuCCCuCCAGu -5'
29133 3' -59.3 NC_006146.1 + 28276 0.69 0.575509
Target:  5'- --gGCCGGGUCucGGGUCuGGG-GGUCu -3'
miRNA:   3'- cuaCGGCCCGG--UCUAGuCCCuCCAGu -5'
29133 3' -59.3 NC_006146.1 + 168341 0.68 0.645452
Target:  5'- cGggGCCuggcggGGGCCAGcgCGGGGucccggggcgggGGGUCGg -3'
miRNA:   3'- -CuaCGG------CCCGGUCuaGUCCC------------UCCAGU- -5'
29133 3' -59.3 NC_006146.1 + 117247 0.68 0.685354
Target:  5'- aGcgGCCGGGgC----CAGGGGGGUCGg -3'
miRNA:   3'- -CuaCGGCCCgGucuaGUCCCUCCAGU- -5'
29133 3' -59.3 NC_006146.1 + 170204 0.68 0.645452
Target:  5'- cGggGCCuggcggGGGCCAGcgCGGGGucccggggcgggGGGUCGg -3'
miRNA:   3'- -CuaCGG------CCCGGUCuaGUCCC------------UCCAGU- -5'
29133 3' -59.3 NC_006146.1 + 167409 0.68 0.645452
Target:  5'- cGggGCCuggcggGGGCCAGcgCGGGGucccggggcgggGGGUCGg -3'
miRNA:   3'- -CuaCGG------CCCGGUCuaGUCCC------------UCCAGU- -5'
29133 3' -59.3 NC_006146.1 + 110591 0.72 0.434137
Target:  5'- cGGU-CCGGGUCAGGUCGGuGGGGUCc -3'
miRNA:   3'- -CUAcGGCCCGGUCUAGUCcCUCCAGu -5'
29133 3' -59.3 NC_006146.1 + 54715 0.68 0.655462
Target:  5'- --cGgCGGGcCCGGGUCAGGGcGGcCGa -3'
miRNA:   3'- cuaCgGCCC-GGUCUAGUCCCuCCaGU- -5'
29133 3' -59.3 NC_006146.1 + 58432 0.72 0.460925
Target:  5'- --cGCCGGGgUGGGUCuGGG-GGUCAc -3'
miRNA:   3'- cuaCGGCCCgGUCUAGuCCCuCCAGU- -5'
29133 3' -59.3 NC_006146.1 + 48579 0.69 0.585438
Target:  5'- ---uCCgGGGCCucggGGGUCAGGGAGGcCAg -3'
miRNA:   3'- cuacGG-CCCGG----UCUAGUCCCUCCaGU- -5'
29133 3' -59.3 NC_006146.1 + 126246 0.68 0.665455
Target:  5'- -cUGCCGGGCgAGGugaguUCGGcGGGGG-CAa -3'
miRNA:   3'- cuACGGCCCGgUCU-----AGUC-CCUCCaGU- -5'
29133 3' -59.3 NC_006146.1 + 34256 0.67 0.724578
Target:  5'- --cGCCGGGCCGGcUgGGGGuuGUgCAc -3'
miRNA:   3'- cuaCGGCCCGGUCuAgUCCCucCA-GU- -5'
29133 3' -59.3 NC_006146.1 + 128214 0.71 0.466387
Target:  5'- --cGCCGGGCCAGAcgcucuuucggcgCGGGGAGcUCu -3'
miRNA:   3'- cuaCGGCCCGGUCUa------------GUCCCUCcAGu -5'
29133 3' -59.3 NC_006146.1 + 22120 0.69 0.575509
Target:  5'- --gGCCGGGUCucGGGUCuGGG-GGUCu -3'
miRNA:   3'- cuaCGGCCCGG--UCUAGuCCCuCCAGu -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.