miRNA display CGI


Results 1 - 20 of 39 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
8173 3' -55.5 NC_001978.2 + 5940 0.66 0.608936
Target:  5'- uCGGCGaacaGAAcCUUGUCGGCAg-GCa -3'
miRNA:   3'- uGCCGUg---CUUcGAACAGCCGUagCGa -5'
8173 3' -55.5 NC_001978.2 + 8944 0.66 0.608936
Target:  5'- -aGGCGucCGAAGaagUGUCGGCGUUcgGCg -3'
miRNA:   3'- ugCCGU--GCUUCga-ACAGCCGUAG--CGa -5'
8173 3' -55.5 NC_001978.2 + 4852 0.66 0.608936
Target:  5'- cCGGCugGGAaucgcGCUcuucaGUCGGCggCGCg -3'
miRNA:   3'- uGCCGugCUU-----CGAa----CAGCCGuaGCGa -5'
8173 3' -55.5 NC_001978.2 + 39412 0.66 0.597672
Target:  5'- cCGGC-CGGAGCgUGaUCGG-GUCGCg -3'
miRNA:   3'- uGCCGuGCUUCGaAC-AGCCgUAGCGa -5'
8173 3' -55.5 NC_001978.2 + 5204 0.66 0.597672
Target:  5'- aACGGCGuCGucGUcgugGUCGGCGgaaCGCUg -3'
miRNA:   3'- -UGCCGU-GCuuCGaa--CAGCCGUa--GCGA- -5'
8173 3' -55.5 NC_001978.2 + 15062 0.66 0.589805
Target:  5'- uGCGGCugaagugGCGGAGCUg--CGGCGugagaaucgugagcuUCGCg -3'
miRNA:   3'- -UGCCG-------UGCUUCGAacaGCCGU---------------AGCGa -5'
8173 3' -55.5 NC_001978.2 + 8605 0.66 0.586438
Target:  5'- cAUGGCGCGAAGCaucggGGCAcggCGCg -3'
miRNA:   3'- -UGCCGUGCUUCGaacagCCGUa--GCGa -5'
8173 3' -55.5 NC_001978.2 + 10693 0.66 0.586438
Target:  5'- aACGGUcuuuCGAAGCUgggCGGCuuugcgucGUCGCUu -3'
miRNA:   3'- -UGCCGu---GCUUCGAacaGCCG--------UAGCGA- -5'
8173 3' -55.5 NC_001978.2 + 6810 0.66 0.586438
Target:  5'- cACGGCGCGcucAGCgucgaccggaUUGccCGGCGUCGUg -3'
miRNA:   3'- -UGCCGUGCu--UCG----------AACa-GCCGUAGCGa -5'
8173 3' -55.5 NC_001978.2 + 13203 0.66 0.575245
Target:  5'- -aGGC-UGAAGCgUGUCGGgGUCGg- -3'
miRNA:   3'- ugCCGuGCUUCGaACAGCCgUAGCga -5'
8173 3' -55.5 NC_001978.2 + 18364 0.66 0.575245
Target:  5'- cCGuCGuCGucGCccUUGUCGGCGUCGCUa -3'
miRNA:   3'- uGCcGU-GCuuCG--AACAGCCGUAGCGA- -5'
8173 3' -55.5 NC_001978.2 + 4471 0.66 0.575245
Target:  5'- cCGGCACGcuGCgaGUCGGCGaagacCGUg -3'
miRNA:   3'- uGCCGUGCuuCGaaCAGCCGUa----GCGa -5'
8173 3' -55.5 NC_001978.2 + 26307 0.67 0.564101
Target:  5'- -gGGCGCGgcGCUUGUgcucgcCGGUugccugccggaGUCGCg -3'
miRNA:   3'- ugCCGUGCuuCGAACA------GCCG-----------UAGCGa -5'
8173 3' -55.5 NC_001978.2 + 12014 0.67 0.564101
Target:  5'- uAUGGCGCGucucAGCUUGccgacUGGCAggugaUCGCUa -3'
miRNA:   3'- -UGCCGUGCu---UCGAACa----GCCGU-----AGCGA- -5'
8173 3' -55.5 NC_001978.2 + 20907 0.67 0.564101
Target:  5'- uACGGCcggACGGAGCUUGccCGGUAcgacCGCc -3'
miRNA:   3'- -UGCCG---UGCUUCGAACa-GCCGUa---GCGa -5'
8173 3' -55.5 NC_001978.2 + 26251 0.67 0.553015
Target:  5'- gACGGCGUGAccugGGUgaaGUCGGCAaCGCg -3'
miRNA:   3'- -UGCCGUGCU----UCGaa-CAGCCGUaGCGa -5'
8173 3' -55.5 NC_001978.2 + 27419 0.67 0.541995
Target:  5'- -gGGUAUugcGCUUGUCGGCGugaaguUCGCUg -3'
miRNA:   3'- ugCCGUGcuuCGAACAGCCGU------AGCGA- -5'
8173 3' -55.5 NC_001978.2 + 21193 0.67 0.531049
Target:  5'- -gGGCGCGAaucaccuucAGCgcGUCGGCcgucuucucggcGUCGCUc -3'
miRNA:   3'- ugCCGUGCU---------UCGaaCAGCCG------------UAGCGA- -5'
8173 3' -55.5 NC_001978.2 + 23867 0.67 0.509408
Target:  5'- cCGGguCGAGcGCUgccacuaGUCGGCaAUCGCg -3'
miRNA:   3'- uGCCguGCUU-CGAa------CAGCCG-UAGCGa -5'
8173 3' -55.5 NC_001978.2 + 37270 0.67 0.506193
Target:  5'- cAUGGCGCguucggaagGAAGCUUGucgcccgguccguaUCGGCcgGUCGCa -3'
miRNA:   3'- -UGCCGUG---------CUUCGAAC--------------AGCCG--UAGCGa -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.