miRNA display CGI


Results 1 - 14 of 14 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
12228 5' -56.7 NC_003309.1 + 7201 0.66 0.673991
Target:  5'- uACCGcCGUGAuGUCGUAaaGCCuGCCg -3'
miRNA:   3'- -UGGCaGCGCUuCAGCAUg-CGGcUGGa -5'
12228 5' -56.7 NC_003309.1 + 22475 0.66 0.652437
Target:  5'- cGCCGaCGCGgcGgcaUCGUGCGCggCGAUCg -3'
miRNA:   3'- -UGGCaGCGCuuC---AGCAUGCG--GCUGGa -5'
12228 5' -56.7 NC_003309.1 + 34385 0.66 0.641628
Target:  5'- aGCCuuggagCGCGAGGUCaaggaacUGCGCCgGACCa -3'
miRNA:   3'- -UGGca----GCGCUUCAGc------AUGCGG-CUGGa -5'
12228 5' -56.7 NC_003309.1 + 19494 0.67 0.619994
Target:  5'- gUCGUCGCGAuucGG-CGUGCgGCUGuACCa -3'
miRNA:   3'- uGGCAGCGCU---UCaGCAUG-CGGC-UGGa -5'
12228 5' -56.7 NC_003309.1 + 8266 0.67 0.619994
Target:  5'- gUCGcUCGCGAAuGUCGUcGCGUCGAUUUc -3'
miRNA:   3'- uGGC-AGCGCUU-CAGCA-UGCGGCUGGA- -5'
12228 5' -56.7 NC_003309.1 + 16834 0.68 0.52723
Target:  5'- cUCGUCGCGccccaccggaugcucGAGcUCGUccucgccgagauuGCGCCGGCCg -3'
miRNA:   3'- uGGCAGCGC---------------UUC-AGCA-------------UGCGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 4044 0.68 0.524109
Target:  5'- cAUCGgcUCGCaGggGUucaUGUGCGCCGAUCg -3'
miRNA:   3'- -UGGC--AGCG-CuuCA---GCAUGCGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 12850 0.69 0.4923
Target:  5'- aACCG-CGCGAGGUCGgcgaucaUGCuGUCGAUCa -3'
miRNA:   3'- -UGGCaGCGCUUCAGC-------AUG-CGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 5555 0.7 0.44395
Target:  5'- cGCCGaUCGCGGcgguGagGU-CGCCGACCa -3'
miRNA:   3'- -UGGC-AGCGCUu---CagCAuGCGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 578 0.7 0.43063
Target:  5'- uGCCGagcagcuUCGCGAAaggguuGUCGgguguuuucggcuuUGCGCCGACCa -3'
miRNA:   3'- -UGGC-------AGCGCUU------CAGC--------------AUGCGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 45281 0.71 0.388574
Target:  5'- uGCCGguacaGCGGauuuGGUCGaAUGCCGGCCg -3'
miRNA:   3'- -UGGCag---CGCU----UCAGCaUGCGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 7497 0.71 0.346028
Target:  5'- uUCGUC-CGGAccCGUACGCCGGCCg -3'
miRNA:   3'- uGGCAGcGCUUcaGCAUGCGGCUGGa -5'
12228 5' -56.7 NC_003309.1 + 10591 0.72 0.306926
Target:  5'- uGCCGUCGCGAcaugCGcuUGCGCCGccGCCUc -3'
miRNA:   3'- -UGGCAGCGCUuca-GC--AUGCGGC--UGGA- -5'
12228 5' -56.7 NC_003309.1 + 16203 0.76 0.179384
Target:  5'- gGCCGgCGCGAacucgcaccAGUCGUcgACGCCGAUCg -3'
miRNA:   3'- -UGGCaGCGCU---------UCAGCA--UGCGGCUGGa -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.