miRNA display CGI


Results 1 - 20 of 25 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
612 3' -53.4 AC_000017.1 + 13975 0.66 0.67016
Target:  5'- gACGaCGGGUG-GGCGGGCgCGggccgGGCa -3'
miRNA:   3'- -UGC-GUCCACgUCGUCCG-GUauaa-UCG- -5'
612 3' -53.4 AC_000017.1 + 26085 0.66 0.668996
Target:  5'- gACGCAGGcgGUaagcuccgcauugGGCGGGCgGgAUUGGUc -3'
miRNA:   3'- -UGCGUCCa-CG-------------UCGUCCGgUaUAAUCG- -5'
612 3' -53.4 AC_000017.1 + 12169 0.66 0.658498
Target:  5'- cGCGCccuGGagGCAGCugGGGCCGgaccugGGCu -3'
miRNA:   3'- -UGCGu--CCa-CGUCG--UCCGGUauaa--UCG- -5'
612 3' -53.4 AC_000017.1 + 3868 0.66 0.658498
Target:  5'- gGCGguGGcUGCAGC-GGCUgaAgcGGCg -3'
miRNA:   3'- -UGCguCC-ACGUCGuCCGGuaUaaUCG- -5'
612 3' -53.4 AC_000017.1 + 12689 0.66 0.635104
Target:  5'- gGCGCAGcGUgagcgcgcgcaGCAGCAGGgCAaccugGGCu -3'
miRNA:   3'- -UGCGUC-CA-----------CGUCGUCCgGUauaa-UCG- -5'
612 3' -53.4 AC_000017.1 + 10011 0.66 0.623397
Target:  5'- cUGCGGcG-GCGGCGgaguuuGGCCGUAggUGGCg -3'
miRNA:   3'- uGCGUC-CaCGUCGU------CCGGUAUa-AUCG- -5'
612 3' -53.4 AC_000017.1 + 16498 0.67 0.600019
Target:  5'- -gGCGGGUGCGcacgggcacgcGCAGGCCGcuaaccgAGUc -3'
miRNA:   3'- ugCGUCCACGU-----------CGUCCGGUauaa---UCG- -5'
612 3' -53.4 AC_000017.1 + 9496 0.67 0.598852
Target:  5'- gGCGCAuggucucGGUGaCGGCGcGGCCGUucucgcgggGGCg -3'
miRNA:   3'- -UGCGU-------CCAC-GUCGU-CCGGUAuaa------UCG- -5'
612 3' -53.4 AC_000017.1 + 9749 0.67 0.58837
Target:  5'- -gGCGGGcgGCAGCGGGCgGcggucgggguUGUuucUGGCg -3'
miRNA:   3'- ugCGUCCa-CGUCGUCCGgU----------AUA---AUCG- -5'
612 3' -53.4 AC_000017.1 + 24241 0.67 0.581401
Target:  5'- aGCGgGGGUGCcucgacggggaagguGGUAGGCgc-GUUGGCg -3'
miRNA:   3'- -UGCgUCCACG---------------UCGUCCGguaUAAUCG- -5'
612 3' -53.4 AC_000017.1 + 8940 0.67 0.561754
Target:  5'- cACGguGGcgGCGaggucguuggagauGCGGGCCAUG--AGCu -3'
miRNA:   3'- -UGCguCCa-CGU--------------CGUCCGGUAUaaUCG- -5'
612 3' -53.4 AC_000017.1 + 6694 0.67 0.553716
Target:  5'- cGCGCAuG-GCAGCAGGCguUAgacuuGCa -3'
miRNA:   3'- -UGCGUcCaCGUCGUCCGguAUaau--CG- -5'
612 3' -53.4 AC_000017.1 + 22726 0.67 0.553716
Target:  5'- cGCGCAGG-GCGG-AGGCCccaacuGCg -3'
miRNA:   3'- -UGCGUCCaCGUCgUCCGGuauaauCG- -5'
612 3' -53.4 AC_000017.1 + 11393 0.67 0.549137
Target:  5'- cAUGCAGGgcgcgaguUGCGGCAuGGCCugaaccgcgAGCg -3'
miRNA:   3'- -UGCGUCC--------ACGUCGU-CCGGuauaa----UCG- -5'
612 3' -53.4 AC_000017.1 + 23698 0.68 0.532079
Target:  5'- aGCGCAcGGUGCGGCGGcugaaugaagacgacCCAg--UGGCg -3'
miRNA:   3'- -UGCGU-CCACGUCGUCc--------------GGUauaAUCG- -5'
612 3' -53.4 AC_000017.1 + 26796 0.68 0.530949
Target:  5'- cCGCcGGUGCAGUagGGGCUGUAgagaugacggUAGUa -3'
miRNA:   3'- uGCGuCCACGUCG--UCCGGUAUa---------AUCG- -5'
612 3' -53.4 AC_000017.1 + 3171 0.68 0.530949
Target:  5'- -aGCAGGUGaCAGUu-GCCGUccgagcagGUUAGCa -3'
miRNA:   3'- ugCGUCCAC-GUCGucCGGUA--------UAAUCG- -5'
612 3' -53.4 AC_000017.1 + 15848 0.68 0.530949
Target:  5'- -gGCAGGUGCGGCGucuGGCgucaGUAaUGGUc -3'
miRNA:   3'- ugCGUCCACGUCGU---CCGg---UAUaAUCG- -5'
612 3' -53.4 AC_000017.1 + 27469 0.68 0.50853
Target:  5'- cAC-CAGG-GCAGCGGGCCAa------ -3'
miRNA:   3'- -UGcGUCCaCGUCGUCCGGUauaaucg -5'
612 3' -53.4 AC_000017.1 + 17739 0.68 0.497471
Target:  5'- aACGgAGGcgGCAGgugaGGGCCAUAUcuGCa -3'
miRNA:   3'- -UGCgUCCa-CGUCg---UCCGGUAUAauCG- -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.