miRNA display CGI


Results 1 - 20 of 131 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
21716 3' -58.5 NC_004812.1 + 2298 0.66 0.814163
Target:  5'- gGCGUCGGGGuCCgGCUCgagcaggGCGCGCgCGcAGa -3'
miRNA:   3'- -UGCAGUCCU-GG-CGAG-------CGCGUGaGC-UC- -5'
21716 3' -58.5 NC_004812.1 + 2358 0.68 0.742763
Target:  5'- gGCGUCGGGcCCGg-CGCGCGCggcgucgCGGu -3'
miRNA:   3'- -UGCAGUCCuGGCgaGCGCGUGa------GCUc -5'
21716 3' -58.5 NC_004812.1 + 3053 0.66 0.823414
Target:  5'- cGCGgcgagCAGGaaggagagGCCGC-CGCGCGCgUCGGu -3'
miRNA:   3'- -UGCa----GUCC--------UGGCGaGCGCGUG-AGCUc -5'
21716 3' -58.5 NC_004812.1 + 3484 0.68 0.693349
Target:  5'- cCGUCAgcgcggcGGGCCGCgggCGCGgGCcCGGGg -3'
miRNA:   3'- uGCAGU-------CCUGGCGa--GCGCgUGaGCUC- -5'
21716 3' -58.5 NC_004812.1 + 4204 0.7 0.624669
Target:  5'- aACGgcgGGGACCGCggcggCGuCGgGCUCGGGg -3'
miRNA:   3'- -UGCag-UCCUGGCGa----GC-GCgUGAGCUC- -5'
21716 3' -58.5 NC_004812.1 + 5248 0.66 0.838915
Target:  5'- cCGUCGGGGCgCGCcgagUCGgccgccgcggcccCGCGCUCGGc -3'
miRNA:   3'- uGCAGUCCUG-GCG----AGC-------------GCGUGAGCUc -5'
21716 3' -58.5 NC_004812.1 + 5826 0.67 0.779897
Target:  5'- gGCGggcUCugcGGGCCgGCg-GCGCGCUCGGGa -3'
miRNA:   3'- -UGC---AGu--CCUGG-CGagCGCGUGAGCUC- -5'
21716 3' -58.5 NC_004812.1 + 7063 0.72 0.497574
Target:  5'- cGCGcCAGGGCCGCUCcagGCGCcCUCu-- -3'
miRNA:   3'- -UGCaGUCCUGGCGAG---CGCGuGAGcuc -5'
21716 3' -58.5 NC_004812.1 + 7916 0.68 0.742763
Target:  5'- gUGUCgGGGGCUGCggCGCGCGC-CGGc -3'
miRNA:   3'- uGCAG-UCCUGGCGa-GCGCGUGaGCUc -5'
21716 3' -58.5 NC_004812.1 + 10856 0.74 0.37531
Target:  5'- gACGUCGGGucgcuCCGCcCGCGCGCccCGGGu -3'
miRNA:   3'- -UGCAGUCCu----GGCGaGCGCGUGa-GCUC- -5'
21716 3' -58.5 NC_004812.1 + 12981 0.71 0.565047
Target:  5'- cGCGccCGGGGCCGCgcUCGCGCuCUCGc- -3'
miRNA:   3'- -UGCa-GUCCUGGCG--AGCGCGuGAGCuc -5'
21716 3' -58.5 NC_004812.1 + 13064 0.71 0.526105
Target:  5'- cGCGcCAGGGCCGcCUCGUucacgGCggaaauGCUCGAGg -3'
miRNA:   3'- -UGCaGUCCUGGC-GAGCG-----CG------UGAGCUC- -5'
21716 3' -58.5 NC_004812.1 + 13271 0.67 0.778991
Target:  5'- gACGUCGGGGCgGCggaggccUCG-GCGCggCGGGg -3'
miRNA:   3'- -UGCAGUCCUGgCG-------AGCgCGUGa-GCUC- -5'
21716 3' -58.5 NC_004812.1 + 15027 0.67 0.761548
Target:  5'- gGCGcccaGGGGCCGgUCGUacggGCACUCGGc -3'
miRNA:   3'- -UGCag--UCCUGGCgAGCG----CGUGAGCUc -5'
21716 3' -58.5 NC_004812.1 + 15378 0.67 0.779897
Target:  5'- -aGUCAgGGACCGCUCcaccggcaCGUACUCGc- -3'
miRNA:   3'- ugCAGU-CCUGGCGAGc-------GCGUGAGCuc -5'
21716 3' -58.5 NC_004812.1 + 19434 0.72 0.460662
Target:  5'- cGCGgccgCAGGACCGcCUCcCGCACcUCGAa -3'
miRNA:   3'- -UGCa---GUCCUGGC-GAGcGCGUG-AGCUc -5'
21716 3' -58.5 NC_004812.1 + 19558 0.67 0.779897
Target:  5'- cCGUCAGcgacgcGGCCGa-CGCGCACUgGGGu -3'
miRNA:   3'- uGCAGUC------CUGGCgaGCGCGUGAgCUC- -5'
21716 3' -58.5 NC_004812.1 + 19793 0.67 0.752206
Target:  5'- gGCGaagAGGGCCGCUCGgcccaccuCGCGCUCcAGg -3'
miRNA:   3'- -UGCag-UCCUGGCGAGC--------GCGUGAGcUC- -5'
21716 3' -58.5 NC_004812.1 + 20998 0.68 0.723607
Target:  5'- gACGUCGucGCCGC-CGCGC-CUCGGc -3'
miRNA:   3'- -UGCAGUccUGGCGaGCGCGuGAGCUc -5'
21716 3' -58.5 NC_004812.1 + 25089 0.66 0.83165
Target:  5'- gACGgggCGGcGCCGC-CGCGCGC-CGAc -3'
miRNA:   3'- -UGCa--GUCcUGGCGaGCGCGUGaGCUc -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.