miRNA display CGI


Results 1 - 20 of 28 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
1357 3' -56.5 NC_001335.1 + 32612 0.66 0.625395
Target:  5'- aGAAG-CGGUacuGCCaGCA-CGGCGAGAUg -3'
miRNA:   3'- -CUUCaGUCG---CGGcCGUaGUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 32890 0.66 0.614304
Target:  5'- aGGAGcCGGgGCCGGC-UCGgGCuGGGCa -3'
miRNA:   3'- -CUUCaGUCgCGGCCGuAGU-CGcUCUG- -5'
1357 3' -56.5 NC_001335.1 + 29861 0.66 0.585564
Target:  5'- uGAGUCGGuCGCUGGUgccguacgagcacaaGaUCAGUGAGAUc -3'
miRNA:   3'- cUUCAGUC-GCGGCCG---------------U-AGUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 46346 0.66 0.581162
Target:  5'- -cGGUCAGCGCgaCGGCcgCAacGCGGcGAUg -3'
miRNA:   3'- cuUCAGUCGCG--GCCGuaGU--CGCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 3093 0.66 0.580063
Target:  5'- cAAG-CAGCGCCucgccaaGGCGagCGGCGGGAg -3'
miRNA:   3'- cUUCaGUCGCGG-------CCGUa-GUCGCUCUg -5'
1357 3' -56.5 NC_001335.1 + 5613 0.66 0.57019
Target:  5'- cGAGGUCAGcCGCCGaC-UCAGCGucGAg -3'
miRNA:   3'- -CUUCAGUC-GCGGCcGuAGUCGCu-CUg -5'
1357 3' -56.5 NC_001335.1 + 16001 0.66 0.57019
Target:  5'- uGAAGUCGGCcuugGCCugGGCcgCAuCGAGAUg -3'
miRNA:   3'- -CUUCAGUCG----CGG--CCGuaGUcGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 2315 0.67 0.54516
Target:  5'- cGAGGUCGGCaaggagugagcuggGCCGGC-UCAGgcCGGcGACa -3'
miRNA:   3'- -CUUCAGUCG--------------CGGCCGuAGUC--GCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 12279 0.67 0.537611
Target:  5'- cGAGGUU-GUGCUGcCA-CAGCGAGACg -3'
miRNA:   3'- -CUUCAGuCGCGGCcGUaGUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 37527 0.67 0.52689
Target:  5'- cGAGGaUCGGCuuGUgGGUGUCAGUGAcGACg -3'
miRNA:   3'- -CUUC-AGUCG--CGgCCGUAGUCGCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 7875 0.67 0.505698
Target:  5'- --cGUCGGCuGCC-GUGUCAGCGAcGGCc -3'
miRNA:   3'- cuuCAGUCG-CGGcCGUAGUCGCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 41488 0.67 0.505698
Target:  5'- -uGGUCuGCGCCGGCccCGGCaccGGGAa -3'
miRNA:   3'- cuUCAGuCGCGGCCGuaGUCG---CUCUg -5'
1357 3' -56.5 NC_001335.1 + 34271 0.67 0.505698
Target:  5'- -cGGUguGCGCCGGU--CGGCGcGGAUg -3'
miRNA:   3'- cuUCAguCGCGGCCGuaGUCGC-UCUG- -5'
1357 3' -56.5 NC_001335.1 + 39607 0.68 0.495239
Target:  5'- -cAGUCGGCacCCGGCAcugCAuGCGAGAg -3'
miRNA:   3'- cuUCAGUCGc-GGCCGUa--GU-CGCUCUg -5'
1357 3' -56.5 NC_001335.1 + 3605 0.68 0.48488
Target:  5'- uGAAGuUCAGUGUCcacGCAgggaaCAGCGAGACc -3'
miRNA:   3'- -CUUC-AGUCGCGGc--CGUa----GUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 52092 0.68 0.48488
Target:  5'- --uGUCAGCGCgGGUAUgGGCGuGuauCg -3'
miRNA:   3'- cuuCAGUCGCGgCCGUAgUCGCuCu--G- -5'
1357 3' -56.5 NC_001335.1 + 20628 0.69 0.448487
Target:  5'- gGAGGUCAaucgcuccaccgaccGCGCCGaGCG-CGGCGAG-Cu -3'
miRNA:   3'- -CUUCAGU---------------CGCGGC-CGUaGUCGCUCuG- -5'
1357 3' -56.5 NC_001335.1 + 8311 0.69 0.434746
Target:  5'- -cAGUCuGCGCUGuccucGCGUUcggGGCGAGACa -3'
miRNA:   3'- cuUCAGuCGCGGC-----CGUAG---UCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 16665 0.69 0.415548
Target:  5'- cGAGUUcGCGCCGGCGUuggaCAGCGucaGGAa -3'
miRNA:   3'- cUUCAGuCGCGGCCGUA----GUCGC---UCUg -5'
1357 3' -56.5 NC_001335.1 + 16254 0.69 0.396877
Target:  5'- cGGAGcCGGCGCUGGCGuagucgcgcUCGGCauGGACg -3'
miRNA:   3'- -CUUCaGUCGCGGCCGU---------AGUCGc-UCUG- -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.