miRNA display CGI


Results 1 - 20 of 53 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
13351 3' -62.1 NC_003409.1 + 77617 0.74 0.194672
Target:  5'- -cCCAGuaCGGCUGgGCuCAGCGCCAGg -3'
miRNA:   3'- acGGUCcgGUCGAUgCG-GUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 107885 0.67 0.504651
Target:  5'- uUGUC-GGCCAGCgcucGCaCCAGCGgCAGc -3'
miRNA:   3'- -ACGGuCCGGUCGa---UGcGGUCGCgGUC- -5'
13351 3' -62.1 NC_003409.1 + 27859 0.67 0.495165
Target:  5'- aGCCcacaaAGGCgccaCAGCgACGCCGGCG-CAGg -3'
miRNA:   3'- aCGG-----UCCG----GUCGaUGCGGUCGCgGUC- -5'
13351 3' -62.1 NC_003409.1 + 108910 0.68 0.458079
Target:  5'- aGCUcGGCCAGCUuuuccugcAgGCCAGCuaGCUGGg -3'
miRNA:   3'- aCGGuCCGGUCGA--------UgCGGUCG--CGGUC- -5'
13351 3' -62.1 NC_003409.1 + 132485 0.68 0.422531
Target:  5'- gGCCcuGCCccaggAGCUGCuuCCAGUGCCAGc -3'
miRNA:   3'- aCGGucCGG-----UCGAUGc-GGUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 84569 0.71 0.319339
Target:  5'- uUGCCAGGCgAGauuguaACGCCcGUGCCAu -3'
miRNA:   3'- -ACGGUCCGgUCga----UGCGGuCGCGGUc -5'
13351 3' -62.1 NC_003409.1 + 51981 0.71 0.298379
Target:  5'- gUGCCGGGuCCGGCguaGCaC-GCGCCAGc -3'
miRNA:   3'- -ACGGUCC-GGUCGaugCG-GuCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 74072 0.71 0.285008
Target:  5'- cGCCcgAGGCUucuGGUUGgGCgAGCGCCGGg -3'
miRNA:   3'- aCGG--UCCGG---UCGAUgCGgUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 112155 0.72 0.241935
Target:  5'- gGCCAGGCCcugcauccGGCaccACGCCcgGGgGCCAGg -3'
miRNA:   3'- aCGGUCCGG--------UCGa--UGCGG--UCgCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 131445 0.67 0.52385
Target:  5'- gUGCCuugGGaGUCAGCUGCGCCuguuuucGUGCCc- -3'
miRNA:   3'- -ACGG---UC-CGGUCGAUGCGGu------CGCGGuc -5'
13351 3' -62.1 NC_003409.1 + 110039 0.67 0.52385
Target:  5'- gGCCGuagggguacgguGGCaguGUUGCGCCGGgCGCCAc -3'
miRNA:   3'- aCGGU------------CCGgu-CGAUGCGGUC-GCGGUc -5'
13351 3' -62.1 NC_003409.1 + 84362 0.66 0.533554
Target:  5'- gGCCAGGUaUGGCUAC-CCAauGUGCCAa -3'
miRNA:   3'- aCGGUCCG-GUCGAUGcGGU--CGCGGUc -5'
13351 3' -62.1 NC_003409.1 + 22559 0.66 0.591914
Target:  5'- cUGCCAccaucauGGCCucggauuGUUGCGagaauucccuguCCAGUGCCAGa -3'
miRNA:   3'- -ACGGU-------CCGGu------CGAUGC------------GGUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 31672 0.66 0.582916
Target:  5'- gGCCAGGCCuaauGggGUGUgGGgGCCAGa -3'
miRNA:   3'- aCGGUCCGGu---CgaUGCGgUCgCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 93556 0.66 0.57295
Target:  5'- cGCCAGGaaacaGGCgGCGgCAGuCGCCAc -3'
miRNA:   3'- aCGGUCCgg---UCGaUGCgGUC-GCGGUc -5'
13351 3' -62.1 NC_003409.1 + 110071 0.66 0.553148
Target:  5'- cGCCuGGCCgaccaGGCgcuCGCCGGUGgCAa -3'
miRNA:   3'- aCGGuCCGG-----UCGau-GCGGUCGCgGUc -5'
13351 3' -62.1 NC_003409.1 + 109096 0.66 0.553148
Target:  5'- -cCCGGaGCCGGCUGCGUCuG-GCCGa -3'
miRNA:   3'- acGGUC-CGGUCGAUGCGGuCgCGGUc -5'
13351 3' -62.1 NC_003409.1 + 119967 0.66 0.543322
Target:  5'- aGCaCGcGCgCGGCgcccACGCCGGCGCCuGg -3'
miRNA:   3'- aCG-GUcCG-GUCGa---UGCGGUCGCGGuC- -5'
13351 3' -62.1 NC_003409.1 + 99657 0.66 0.543322
Target:  5'- cUGCgCAGcacGUguGCUGCGCCA-CGCCAa -3'
miRNA:   3'- -ACG-GUC---CGguCGAUGCGGUcGCGGUc -5'
13351 3' -62.1 NC_003409.1 + 53243 0.66 0.543322
Target:  5'- gGUCAGGUCAGgUACGUguucgcgcgaCGGCGgCGGa -3'
miRNA:   3'- aCGGUCCGGUCgAUGCG----------GUCGCgGUC- -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.