miRNA display CGI


Results 1 - 20 of 29 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
29029 3' -53.1 NC_006146.1 + 123405 0.66 0.979154
Target:  5'- aGUCCccgGCCUUG-GGGUAgccgacgGUGaGCAGUc -3'
miRNA:   3'- aCAGG---UGGAACaUCCAUa------CGC-CGUCG- -5'
29029 3' -53.1 NC_006146.1 + 89862 0.66 0.976772
Target:  5'- cGUCCucgauuGCCUcaGUGGGgggcgauUGgGGCGGCu -3'
miRNA:   3'- aCAGG------UGGAa-CAUCCau-----ACgCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 86540 0.66 0.976772
Target:  5'- gGUCCacGCCUagcaccuugcUGUAGGUGUa-GGCAcGCa -3'
miRNA:   3'- aCAGG--UGGA----------ACAUCCAUAcgCCGU-CG- -5'
29029 3' -53.1 NC_006146.1 + 56076 0.66 0.976772
Target:  5'- cGUCCcACCgggccaaGUAGGUGU-CGGCcaccAGCu -3'
miRNA:   3'- aCAGG-UGGaa-----CAUCCAUAcGCCG----UCG- -5'
29029 3' -53.1 NC_006146.1 + 155505 0.66 0.976772
Target:  5'- aGgCCACCUggcGUAGGUAcugcuccuUGCGcuuCAGCg -3'
miRNA:   3'- aCaGGUGGAa--CAUCCAU--------ACGCc--GUCG- -5'
29029 3' -53.1 NC_006146.1 + 69051 0.66 0.974195
Target:  5'- cG-CCACCc-GUGG---UGCGGCAGCc -3'
miRNA:   3'- aCaGGUGGaaCAUCcauACGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 39982 0.66 0.974195
Target:  5'- aGUCacuCCUagugaGUGGGUGgccCGGCAGCc -3'
miRNA:   3'- aCAGgu-GGAa----CAUCCAUac-GCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 69627 0.66 0.971417
Target:  5'- cGUCC-CCg---GGGUAcugGgGGCGGCu -3'
miRNA:   3'- aCAGGuGGaacaUCCAUa--CgCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 66565 0.66 0.971417
Target:  5'- aGUCCGCCa---AGGgc--CGGCAGCu -3'
miRNA:   3'- aCAGGUGGaacaUCCauacGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 163742 0.67 0.965227
Target:  5'- ----gACCUUGUGGGguccugGCGGguGUa -3'
miRNA:   3'- acaggUGGAACAUCCaua---CGCCguCG- -5'
29029 3' -53.1 NC_006146.1 + 99202 0.67 0.965227
Target:  5'- cGUCCGCCUccagGgAGGcc-GCGGCcucGGCg -3'
miRNA:   3'- aCAGGUGGAa---CaUCCauaCGCCG---UCG- -5'
29029 3' -53.1 NC_006146.1 + 50216 0.67 0.961804
Target:  5'- cGUCCGCCc-GUGcacccgcgagauGGUG-GCGGUGGCu -3'
miRNA:   3'- aCAGGUGGaaCAU------------CCAUaCGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 81796 0.67 0.95427
Target:  5'- gGUgCCACCUg--GGGcaGUGCcGGUAGCa -3'
miRNA:   3'- aCA-GGUGGAacaUCCa-UACG-CCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 86233 0.67 0.953868
Target:  5'- gUGUCCaccGCCUUGggcuuGGUugacagcaggcacGUG-GGCAGCa -3'
miRNA:   3'- -ACAGG---UGGAACau---CCA-------------UACgCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 48313 0.67 0.95015
Target:  5'- -cUCCACCgucggAGGUGcugGCGGUGGUg -3'
miRNA:   3'- acAGGUGGaaca-UCCAUa--CGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 146212 0.67 0.95015
Target:  5'- -cUCCuCCg---GGGUAaGCGGCGGCc -3'
miRNA:   3'- acAGGuGGaacaUCCAUaCGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 159930 0.68 0.931243
Target:  5'- cG-CCGCCUgcuuUAGGUGcacUGUGGCAGg -3'
miRNA:   3'- aCaGGUGGAac--AUCCAU---ACGCCGUCg -5'
29029 3' -53.1 NC_006146.1 + 90136 0.68 0.925899
Target:  5'- -cUCCauGCCUgGUGcGGUGUaCGGCAGCu -3'
miRNA:   3'- acAGG--UGGAaCAU-CCAUAcGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 137903 0.68 0.920307
Target:  5'- -aUCCcCCgg--GGGUA-GCGGCGGCa -3'
miRNA:   3'- acAGGuGGaacaUCCAUaCGCCGUCG- -5'
29029 3' -53.1 NC_006146.1 + 95381 0.68 0.920307
Target:  5'- aGUCCAUCgUGU-GGUGaa-GGCAGCu -3'
miRNA:   3'- aCAGGUGGaACAuCCAUacgCCGUCG- -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.