miRNA display CGI


Results 1 - 19 of 19 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
30479 5' -55.3 NC_006548.1 + 7766 0.66 0.643443
Target:  5'- cUCGcggcaGCuCAuGCGCUCGAUGUCGu -3'
miRNA:   3'- cAGCuag--CG-GUuCGCGAGCUGCAGCu -5'
30479 5' -55.3 NC_006548.1 + 1474 0.66 0.597507
Target:  5'- --gGAUCGCCGgcaguggagugguAGCGCUCcAUGUCa- -3'
miRNA:   3'- cagCUAGCGGU-------------UCGCGAGcUGCAGcu -5'
30479 5' -55.3 NC_006548.1 + 4138 0.67 0.576353
Target:  5'- ----cUCGUC-AGCcuGCUCGGCGUCGAu -3'
miRNA:   3'- cagcuAGCGGuUCG--CGAGCUGCAGCU- -5'
30479 5' -55.3 NC_006548.1 + 2851 0.67 0.561974
Target:  5'- cGUCGAUCaGCgccuuggccgccugCAGGCGCUCGuCGaaggCGAu -3'
miRNA:   3'- -CAGCUAG-CG--------------GUUCGCGAGCuGCa---GCU- -5'
30479 5' -55.3 NC_006548.1 + 31248 0.68 0.500322
Target:  5'- gGUCGGUgacccaGCCGAGCGaCUCuGCGUgGAc -3'
miRNA:   3'- -CAGCUAg-----CGGUUCGC-GAGcUGCAgCU- -5'
30479 5' -55.3 NC_006548.1 + 21349 0.68 0.500322
Target:  5'- cUCGAccggCGCCAGGCcggaacGgaUGACGUCGAa -3'
miRNA:   3'- cAGCUa---GCGGUUCG------CgaGCUGCAGCU- -5'
30479 5' -55.3 NC_006548.1 + 33956 0.69 0.429048
Target:  5'- --aGGUUGCgCAgcuguaccguGGCGCUCGGcCGUCGAa -3'
miRNA:   3'- cagCUAGCG-GU----------UCGCGAGCU-GCAGCU- -5'
30479 5' -55.3 NC_006548.1 + 9597 0.69 0.419358
Target:  5'- aUCGAgcgcggcgCGCCAGGUGUccaUCGGgGUCGGg -3'
miRNA:   3'- cAGCUa-------GCGGUUCGCG---AGCUgCAGCU- -5'
30479 5' -55.3 NC_006548.1 + 27267 0.7 0.409801
Target:  5'- cUCGGUCGCCGccUGCUgGACG-CGAg -3'
miRNA:   3'- cAGCUAGCGGUucGCGAgCUGCaGCU- -5'
30479 5' -55.3 NC_006548.1 + 9203 0.7 0.372966
Target:  5'- cUUGAUgCGUCGAuGCGCUCGGCGUUu- -3'
miRNA:   3'- cAGCUA-GCGGUU-CGCGAGCUGCAGcu -5'
30479 5' -55.3 NC_006548.1 + 12562 0.71 0.346854
Target:  5'- cGUCGAgcgcuucaaCGCCGGGCGCUCGGCc---- -3'
miRNA:   3'- -CAGCUa--------GCGGUUCGCGAGCUGcagcu -5'
30479 5' -55.3 NC_006548.1 + 20435 0.71 0.338446
Target:  5'- uUCGG-CGCCuucGCGCUCGACGaaGAa -3'
miRNA:   3'- cAGCUaGCGGuu-CGCGAGCUGCagCU- -5'
30479 5' -55.3 NC_006548.1 + 794 0.71 0.322077
Target:  5'- --aGAUCGCCAAGCagauGUUCGGCGUgGc -3'
miRNA:   3'- cagCUAGCGGUUCG----CGAGCUGCAgCu -5'
30479 5' -55.3 NC_006548.1 + 37775 0.72 0.291135
Target:  5'- -cCGGUCGCCGgcacugugaugAGCGUguucgaugcagCGACGUCGAu -3'
miRNA:   3'- caGCUAGCGGU-----------UCGCGa----------GCUGCAGCU- -5'
30479 5' -55.3 NC_006548.1 + 12636 0.75 0.190433
Target:  5'- aGUUGGcgGCCGAGCGCcCGGCGUUGAa -3'
miRNA:   3'- -CAGCUagCGGUUCGCGaGCUGCAGCU- -5'
30479 5' -55.3 NC_006548.1 + 22736 0.76 0.16133
Target:  5'- cUCGAUCGCC-AGCGUggCGGCGUCc- -3'
miRNA:   3'- cAGCUAGCGGuUCGCGa-GCUGCAGcu -5'
30479 5' -55.3 NC_006548.1 + 33558 0.82 0.060488
Target:  5'- cGUCGA-CGUCGAGCGCUUGGCGaUCGAc -3'
miRNA:   3'- -CAGCUaGCGGUUCGCGAGCUGC-AGCU- -5'
30479 5' -55.3 NC_006548.1 + 8939 0.84 0.046314
Target:  5'- gGUCGAUgGCCAGGCGCUCGACcccgCGGu -3'
miRNA:   3'- -CAGCUAgCGGUUCGCGAGCUGca--GCU- -5'
30479 5' -55.3 NC_006548.1 + 33623 1.08 0.000797
Target:  5'- uGUCGAUCGCCAAGCGCUCGACGUCGAc -3'
miRNA:   3'- -CAGCUAGCGGUUCGCGAGCUGCAGCU- -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.