miRNA display CGI


Results 1 - 20 of 85 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
12384 3' -60 NC_003324.1 + 1069 0.66 0.459478
Target:  5'- aCCAAGUCCUGGcggcugcgguACCGCuucgACGgCAAGGa -3'
miRNA:   3'- cGGUUCGGGGCC----------UGGCG----UGC-GUUCCg -5'
12384 3' -60 NC_003324.1 + 1708 0.69 0.321321
Target:  5'- uCCAcGCCuuGGACCGagcuCGaCGAGGUg -3'
miRNA:   3'- cGGUuCGGggCCUGGCgu--GC-GUUCCG- -5'
12384 3' -60 NC_003324.1 + 1719 0.68 0.352776
Target:  5'- gGCCGAGUUUCGuGACgGgAUGCGAuGGCg -3'
miRNA:   3'- -CGGUUCGGGGC-CUGgCgUGCGUU-CCG- -5'
12384 3' -60 NC_003324.1 + 2108 0.67 0.440492
Target:  5'- uGCgGAGCaCCUGGAgCGU-CGUAAGGa -3'
miRNA:   3'- -CGgUUCG-GGGCCUgGCGuGCGUUCCg -5'
12384 3' -60 NC_003324.1 + 4553 0.66 0.498695
Target:  5'- aGCCGcGCCgUGaucGAgCGCGCGCAgguccAGGCc -3'
miRNA:   3'- -CGGUuCGGgGC---CUgGCGUGCGU-----UCCG- -5'
12384 3' -60 NC_003324.1 + 4659 0.68 0.37776
Target:  5'- gGCCGacaucaugcGGgCCUGGACCuGCGCGCGcucgaucacGGCg -3'
miRNA:   3'- -CGGU---------UCgGGGCCUGG-CGUGCGUu--------CCG- -5'
12384 3' -60 NC_003324.1 + 4778 0.66 0.498695
Target:  5'- aGCCAGccGCCCUGG-UCGUuguuGCGCA-GGUc -3'
miRNA:   3'- -CGGUU--CGGGGCCuGGCG----UGCGUuCCG- -5'
12384 3' -60 NC_003324.1 + 4871 0.71 0.245826
Target:  5'- gGUCGAGCCCUguucauGGGCCGuCAgGCu-GGCg -3'
miRNA:   3'- -CGGUUCGGGG------CCUGGC-GUgCGuuCCG- -5'
12384 3' -60 NC_003324.1 + 5542 0.69 0.328984
Target:  5'- aUCAAGuUCCCGGuuGCCGC-CGCAaccuucgccgcGGGCg -3'
miRNA:   3'- cGGUUC-GGGGCC--UGGCGuGCGU-----------UCCG- -5'
12384 3' -60 NC_003324.1 + 7695 0.7 0.299138
Target:  5'- cGCCGA-CCCCGGAaacaCCgGCGCGaaCGAGGUc -3'
miRNA:   3'- -CGGUUcGGGGCCU----GG-CGUGC--GUUCCG- -5'
12384 3' -60 NC_003324.1 + 7865 0.68 0.37776
Target:  5'- cGCCGcggcggcaaAGCCCguUGcGAUCGCGCcucccuGCGAGGCg -3'
miRNA:   3'- -CGGU---------UCGGG--GC-CUGGCGUG------CGUUCCG- -5'
12384 3' -60 NC_003324.1 + 8177 0.66 0.488745
Target:  5'- gGCCAGuCCCUGcucacugcccGGCgGCGCGCGccuGGCa -3'
miRNA:   3'- -CGGUUcGGGGC----------CUGgCGUGCGUu--CCG- -5'
12384 3' -60 NC_003324.1 + 8543 0.67 0.447087
Target:  5'- cGCCAGcggauaCCCUGGACuacgacaucgauuuCGCGCGCu-GGCu -3'
miRNA:   3'- -CGGUUc-----GGGGCCUG--------------GCGUGCGuuCCG- -5'
12384 3' -60 NC_003324.1 + 9658 0.66 0.488745
Target:  5'- cGCCAAcGCgCUGGGCgGCGugggGCcGGGCg -3'
miRNA:   3'- -CGGUU-CGgGGCCUGgCGUg---CGuUCCG- -5'
12384 3' -60 NC_003324.1 + 9745 0.72 0.195527
Target:  5'- cGCCcGGCCCCacGCCGCccaGCGCGuuGGCg -3'
miRNA:   3'- -CGGuUCGGGGccUGGCG---UGCGUu-CCG- -5'
12384 3' -60 NC_003324.1 + 11934 0.68 0.352776
Target:  5'- uGUCAAuGCCCCGG-UUGgGCGCGgcaccuuaaGGGCa -3'
miRNA:   3'- -CGGUU-CGGGGCCuGGCgUGCGU---------UCCG- -5'
12384 3' -60 NC_003324.1 + 12284 0.68 0.386348
Target:  5'- -gCGAGCCCUaccGuCCGCAUGCGuGGCc -3'
miRNA:   3'- cgGUUCGGGGc--CuGGCGUGCGUuCCG- -5'
12384 3' -60 NC_003324.1 + 14497 0.66 0.508735
Target:  5'- aGCCGgugcAGCCaac-ACUGCGCGgCAGGGCg -3'
miRNA:   3'- -CGGU----UCGGggccUGGCGUGC-GUUCCG- -5'
12384 3' -60 NC_003324.1 + 14668 0.68 0.360972
Target:  5'- cGCCugcGCCgCCGG-CCGCuuGCGCcggcAGGCc -3'
miRNA:   3'- -CGGuu-CGG-GGCCuGGCG--UGCGu---UCCG- -5'
12384 3' -60 NC_003324.1 + 14694 0.66 0.478889
Target:  5'- gGCCGuAGCUCCGG-CCGcCACGCu---- -3'
miRNA:   3'- -CGGU-UCGGGGCCuGGC-GUGCGuuccg -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.