miRNA display CGI


Results 1 - 20 of 119 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
17018 3' -58.6 NC_004333.2 + 159 0.72 0.22363
Target:  5'- cGCGAGCa---CACGAUCGGCGCCugGCGc -3'
miRNA:   3'- -UGCUUGagcgGUGCUAGCCGCGG--CGU- -5'
17018 3' -58.6 NC_004333.2 + 780 0.68 0.391734
Target:  5'- uGCGAuuGCUUGCgCGuCGGUCGGCGCUuucguuucaucggGCGg -3'
miRNA:   3'- -UGCU--UGAGCG-GU-GCUAGCCGCGG-------------CGU- -5'
17018 3' -58.6 NC_004333.2 + 1108 0.69 0.341498
Target:  5'- cACGucgcAgUCGCgCGCGAagUCGGUGCCGUg -3'
miRNA:   3'- -UGCu---UgAGCG-GUGCU--AGCCGCGGCGu -5'
17018 3' -58.6 NC_004333.2 + 1254 0.73 0.176462
Target:  5'- cGCGAGgcUUCGCgGCGcucgCGGCGCUGCAg -3'
miRNA:   3'- -UGCUU--GAGCGgUGCua--GCCGCGGCGU- -5'
17018 3' -58.6 NC_004333.2 + 2107 0.75 0.134617
Target:  5'- cGCGAGCaUCGCCuCGAacUCGGCGCguUGCAa -3'
miRNA:   3'- -UGCUUG-AGCGGuGCU--AGCCGCG--GCGU- -5'
17018 3' -58.6 NC_004333.2 + 3927 0.66 0.477999
Target:  5'- aGCGGcgGCagGCCGaccggcaGGUUGGCGCCGUu -3'
miRNA:   3'- -UGCU--UGagCGGUg------CUAGCCGCGGCGu -5'
17018 3' -58.6 NC_004333.2 + 4520 0.68 0.401618
Target:  5'- uCGAGCUUGUUGCGAUCcuGGUGgUGCAg -3'
miRNA:   3'- uGCUUGAGCGGUGCUAG--CCGCgGCGU- -5'
17018 3' -58.6 NC_004333.2 + 4886 0.71 0.267382
Target:  5'- cACGAGCgcauagccgGCCGgGAUCGGCGCCccuuGCGc -3'
miRNA:   3'- -UGCUUGag-------CGGUgCUAGCCGCGG----CGU- -5'
17018 3' -58.6 NC_004333.2 + 5176 0.69 0.317798
Target:  5'- gACGAAauaGCCAuCGGUCGagaGCGCCGCc -3'
miRNA:   3'- -UGCUUgagCGGU-GCUAGC---CGCGGCGu -5'
17018 3' -58.6 NC_004333.2 + 5485 0.69 0.324776
Target:  5'- cGCccGCUCGUCggccggcguggagACGAUCGGCGCUGUu -3'
miRNA:   3'- -UGcuUGAGCGG-------------UGCUAGCCGCGGCGu -5'
17018 3' -58.6 NC_004333.2 + 6580 0.67 0.447509
Target:  5'- cGCGAaagcccgcaucGC-CGCCACGGcgCGccgcccaGCGCCGCAg -3'
miRNA:   3'- -UGCU-----------UGaGCGGUGCUa-GC-------CGCGGCGU- -5'
17018 3' -58.6 NC_004333.2 + 6713 0.67 0.448476
Target:  5'- uCGAGCUCGCCAUGGaucacgaCGGCcgacucgcCCGCGu -3'
miRNA:   3'- uGCUUGAGCGGUGCUa------GCCGc-------GGCGU- -5'
17018 3' -58.6 NC_004333.2 + 6745 0.67 0.468049
Target:  5'- uCGAGCgccacggCGCCcCGGUCGcGCGCCuCGa -3'
miRNA:   3'- uGCUUGa------GCGGuGCUAGC-CGCGGcGU- -5'
17018 3' -58.6 NC_004333.2 + 6880 0.66 0.518782
Target:  5'- gGCGAGCUCgGCCuCG-UCGaaguCGCCGCc -3'
miRNA:   3'- -UGCUUGAG-CGGuGCuAGCc---GCGGCGu -5'
17018 3' -58.6 NC_004333.2 + 6968 0.66 0.477999
Target:  5'- gGCGAcagguagccCUCGCCACGAgUCGGUuaaaGuuGCGg -3'
miRNA:   3'- -UGCUu--------GAGCGGUGCU-AGCCG----CggCGU- -5'
17018 3' -58.6 NC_004333.2 + 7684 0.68 0.389954
Target:  5'- gGCGAACcCGaCCACGGcgucguagcggugaUCGGCGCgGaCAg -3'
miRNA:   3'- -UGCUUGaGC-GGUGCU--------------AGCCGCGgC-GU- -5'
17018 3' -58.6 NC_004333.2 + 7816 0.66 0.529196
Target:  5'- gACGAguaguuuagcucGCUCGCCA-GAUCGacgcggccuGCGCCGg- -3'
miRNA:   3'- -UGCU------------UGAGCGGUgCUAGC---------CGCGGCgu -5'
17018 3' -58.6 NC_004333.2 + 7937 0.72 0.235472
Target:  5'- uCGAAUUCGUCGauCGGUUGGCcgGCCGCGu -3'
miRNA:   3'- uGCUUGAGCGGU--GCUAGCCG--CGGCGU- -5'
17018 3' -58.6 NC_004333.2 + 8142 0.7 0.295358
Target:  5'- uGCGAGg-CGuCCGCGccgUGGCGCCGCGc -3'
miRNA:   3'- -UGCUUgaGC-GGUGCua-GCCGCGGCGU- -5'
17018 3' -58.6 NC_004333.2 + 8410 0.68 0.392626
Target:  5'- uCGAGCaaCGUCGcCGAUaCGGUGCCGCc -3'
miRNA:   3'- uGCUUGa-GCGGU-GCUA-GCCGCGGCGu -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.