miRNA display CGI


Results 1 - 20 of 37 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
29458 5' -53.1 NC_006151.1 + 63216 1.09 0.00569
Target:  5'- cGAGCUCAAAGUCCUCGAACGCGUCCGc -3'
miRNA:   3'- -CUCGAGUUUCAGGAGCUUGCGCAGGC- -5'
29458 5' -53.1 NC_006151.1 + 96153 0.78 0.450691
Target:  5'- -cGCgUCAAAGaCCUCGGgccACGCGUCCGa -3'
miRNA:   3'- cuCG-AGUUUCaGGAGCU---UGCGCAGGC- -5'
29458 5' -53.1 NC_006151.1 + 2883 0.76 0.538566
Target:  5'- cGGGC-C--AGUCCUCGAugGUGUCCa -3'
miRNA:   3'- -CUCGaGuuUCAGGAGCUugCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 74921 0.72 0.754272
Target:  5'- uGAGCUCGAAG-CCgc--GCGCGUCCc -3'
miRNA:   3'- -CUCGAGUUUCaGGagcuUGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 68844 0.72 0.754272
Target:  5'- -uGCUCGAGGcgCCgCGcGACGCGUCCa -3'
miRNA:   3'- cuCGAGUUUCa-GGaGC-UUGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 114673 0.72 0.773609
Target:  5'- uGAGCgccgCGAAGgCCUCGugcucgaagGGCGCGUCCc -3'
miRNA:   3'- -CUCGa---GUUUCaGGAGC---------UUGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 63354 0.72 0.773609
Target:  5'- -cGCcCGcAGGUCCUCGAACGCcUCCu -3'
miRNA:   3'- cuCGaGU-UUCAGGAGCUUGCGcAGGc -5'
29458 5' -53.1 NC_006151.1 + 53286 0.71 0.79242
Target:  5'- -uGCUCGAAGcgcgaCUCGAGCGaGUCCGu -3'
miRNA:   3'- cuCGAGUUUCag---GAGCUUGCgCAGGC- -5'
29458 5' -53.1 NC_006151.1 + 59948 0.71 0.79242
Target:  5'- cGGCUCGcAGcCCUCGAGCGCcacCCGc -3'
miRNA:   3'- cUCGAGUuUCaGGAGCUUGCGca-GGC- -5'
29458 5' -53.1 NC_006151.1 + 65957 0.71 0.819486
Target:  5'- cGAGCgcggccgcgucgUCGAgccGGUCCUcgccggccgCGAGCGCGUCCu -3'
miRNA:   3'- -CUCG------------AGUU---UCAGGA---------GCUUGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 15307 0.69 0.883312
Target:  5'- cGAGCUCAacgagcgcGAcGUCUaCGAcccGCGCGUCCu -3'
miRNA:   3'- -CUCGAGU--------UU-CAGGaGCU---UGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 88786 0.69 0.886138
Target:  5'- -cGCUCGc---CCUCGAcgacgacgggcgcgaGCGCGUCCGg -3'
miRNA:   3'- cuCGAGUuucaGGAGCU---------------UGCGCAGGC- -5'
29458 5' -53.1 NC_006151.1 + 133167 0.69 0.897069
Target:  5'- cGGGCgu-GGG-CCUCGGccACGCGUCCc -3'
miRNA:   3'- -CUCGaguUUCaGGAGCU--UGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 56954 0.68 0.908631
Target:  5'- -cGCUCAgcG-CCUCGAGCGCGcgguuguacaugCCGa -3'
miRNA:   3'- cuCGAGUuuCaGGAGCUUGCGCa-----------GGC- -5'
29458 5' -53.1 NC_006151.1 + 96647 0.68 0.909867
Target:  5'- cGAGCUCGgcggcGAGggCC-CGGGCGaCGUCCu -3'
miRNA:   3'- -CUCGAGU-----UUCa-GGaGCUUGC-GCAGGc -5'
29458 5' -53.1 NC_006151.1 + 88106 0.68 0.909867
Target:  5'- cGGGCccgUCGAGGUCCgacagcgggCGGGCGC-UCCGc -3'
miRNA:   3'- -CUCG---AGUUUCAGGa--------GCUUGCGcAGGC- -5'
29458 5' -53.1 NC_006151.1 + 83168 0.68 0.915899
Target:  5'- gGAGCUCGGGGUCgUC--GCGCGggCGg -3'
miRNA:   3'- -CUCGAGUUUCAGgAGcuUGCGCagGC- -5'
29458 5' -53.1 NC_006151.1 + 71208 0.68 0.921684
Target:  5'- gGAGCUCGu-GUCCgugaccgUGGGCGCGcgcgCCGa -3'
miRNA:   3'- -CUCGAGUuuCAGGa------GCUUGCGCa---GGC- -5'
29458 5' -53.1 NC_006151.1 + 83064 0.68 0.921684
Target:  5'- cAGCUU--GG-CCaCGAGCGCGUCCa -3'
miRNA:   3'- cUCGAGuuUCaGGaGCUUGCGCAGGc -5'
29458 5' -53.1 NC_006151.1 + 17295 0.68 0.92722
Target:  5'- gGGGCUCcccGGG-CUUCGAGC-CGUCCGc -3'
miRNA:   3'- -CUCGAGu--UUCaGGAGCUUGcGCAGGC- -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.