miRNA display CGI


Results 1 - 20 of 43 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
17218 3' -53 NC_004333.2 + 46800 1.11 0.001093
Target:  5'- aGCGUGCCGUCUAUACCGUGCGCAACAc -3'
miRNA:   3'- -CGCACGGCAGAUAUGGCACGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 30062 0.68 0.706746
Target:  5'- cCGUGCCaaagcgcggGUCgAUGCCGUaGCGcCGACGg -3'
miRNA:   3'- cGCACGG---------CAGaUAUGGCA-CGC-GUUGU- -5'
17218 3' -53 NC_004333.2 + 18369 0.67 0.76488
Target:  5'- gGCGUGUCGUUUAaccucgccggcaucaUGCuCGUgccguccgaaGCGCAACGc -3'
miRNA:   3'- -CGCACGGCAGAU---------------AUG-GCA----------CGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 48073 0.66 0.78139
Target:  5'- uCGUGCUGcUCgGUGCCGacgagGCGCAggcgGCAa -3'
miRNA:   3'- cGCACGGC-AGaUAUGGCa----CGCGU----UGU- -5'
17218 3' -53 NC_004333.2 + 18180 0.71 0.485365
Target:  5'- gGCGUGCCGggugAUGCgcucguCGUGCGCGcgGCAu -3'
miRNA:   3'- -CGCACGGCaga-UAUG------GCACGCGU--UGU- -5'
17218 3' -53 NC_004333.2 + 32333 0.71 0.506543
Target:  5'- cGCGUGCacggcugccggGUCgcugcccgAUAgCGUGCGCAGCAc -3'
miRNA:   3'- -CGCACGg----------CAGa-------UAUgGCACGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 799 0.7 0.539014
Target:  5'- aGCGUGCCgGUC---GCCG-GCGCAGg- -3'
miRNA:   3'- -CGCACGG-CAGauaUGGCaCGCGUUgu -5'
17218 3' -53 NC_004333.2 + 35417 0.7 0.594535
Target:  5'- uUGUGCCGcCUGUGauguuggCGUGCGCAGu- -3'
miRNA:   3'- cGCACGGCaGAUAUg------GCACGCGUUgu -5'
17218 3' -53 NC_004333.2 + 38380 0.68 0.66213
Target:  5'- cGCGUGUCGggUGcGCCG-GCGUGACGc -3'
miRNA:   3'- -CGCACGGCagAUaUGGCaCGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 37429 0.68 0.684544
Target:  5'- gGCGUGCaCGU--GUACUGcgGCGUGACGa -3'
miRNA:   3'- -CGCACG-GCAgaUAUGGCa-CGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 11076 0.69 0.650874
Target:  5'- gGCGUGCgGcCcAUuccgggaaugAUCGUGCGCGACGa -3'
miRNA:   3'- -CGCACGgCaGaUA----------UGGCACGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 8961 0.81 0.137413
Target:  5'- cGCGUGCgCGggCUGgaucguggGCCGUGCGCGGCGg -3'
miRNA:   3'- -CGCACG-GCa-GAUa-------UGGCACGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 1119 0.68 0.684544
Target:  5'- cGCGcGCgaaGUCgGUGCCGUgcugcGCGCGACGu -3'
miRNA:   3'- -CGCaCGg--CAGaUAUGGCA-----CGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 27400 0.76 0.251912
Target:  5'- cCGUGCCGUCauguuUGCCGUaacccuGCGCGGCGa -3'
miRNA:   3'- cGCACGGCAGau---AUGGCA------CGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 5045 0.69 0.628318
Target:  5'- gGCG-GCCGgCUGUugGCCGacgucgGCGCGGCGc -3'
miRNA:   3'- -CGCaCGGCaGAUA--UGGCa-----CGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 29892 0.68 0.706746
Target:  5'- aGCGcUGCgCGaUCgg-GCCGcGCGCGGCAu -3'
miRNA:   3'- -CGC-ACG-GC-AGauaUGGCaCGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 35970 0.66 0.78139
Target:  5'- ---aGCCGUCgagcACCGUGCucGCGACc -3'
miRNA:   3'- cgcaCGGCAGaua-UGGCACG--CGUUGu -5'
17218 3' -53 NC_004333.2 + 18821 0.72 0.44836
Target:  5'- cGCGUGCUG-CUaucgaagcccgcgcgGcaguacgcaguUGCCGUGCGCAACGc -3'
miRNA:   3'- -CGCACGGCaGA---------------U-----------AUGGCACGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 10001 0.71 0.528105
Target:  5'- cGCGgGuuGUCg--GCCGUcuGCGCGACGu -3'
miRNA:   3'- -CGCaCggCAGauaUGGCA--CGCGUUGU- -5'
17218 3' -53 NC_004333.2 + 2278 0.68 0.673357
Target:  5'- cGCGUuuGCCGUCggcaagucgUGUACCGUG-GcCGGCAc -3'
miRNA:   3'- -CGCA--CGGCAG---------AUAUGGCACgC-GUUGU- -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.