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
3130 3' -62.3 NC_001493.1 + 32566 0.66 0.650059
Target:  5'- gACGAagaaGGGGUcuCGGGC-CGGACcGGUCg -3'
miRNA:   3'- -UGCU----CCCCAc-GCCUGuGCCUGcCCGG- -5'
3130 3' -62.3 NC_001493.1 + 87777 0.66 0.650059
Target:  5'- uCGAcGGGcacuacCGG-CGCGGACGGGUCu -3'
miRNA:   3'- uGCUcCCCac----GCCuGUGCCUGCCCGG- -5'
3130 3' -62.3 NC_001493.1 + 80960 0.66 0.650059
Target:  5'- ---cGGGGUccgcaacagcGCGGuucuucGCACGGuacCGGGCCu -3'
miRNA:   3'- ugcuCCCCA----------CGCC------UGUGCCu--GCCCGG- -5'
3130 3' -62.3 NC_001493.1 + 9364 0.66 0.649082
Target:  5'- uCGGGGGGUaGCuccaGGuACACgaagacgGGACGGGUg -3'
miRNA:   3'- uGCUCCCCA-CG----CC-UGUG-------CCUGCCCGg -5'
3130 3' -62.3 NC_001493.1 + 124918 0.66 0.649082
Target:  5'- uCGGGGGGUaGCuccaGGuACACgaagacgGGACGGGUg -3'
miRNA:   3'- uGCUCCCCA-CG----CC-UGUG-------CCUGCCCGg -5'
3130 3' -62.3 NC_001493.1 + 65992 0.66 0.620725
Target:  5'- -aGGGGGGUGgGGcguucguCGgGGACgugggguaggaGGGCCu -3'
miRNA:   3'- ugCUCCCCACgCCu------GUgCCUG-----------CCCGG- -5'
3130 3' -62.3 NC_001493.1 + 21391 0.66 0.610954
Target:  5'- cACcAGGGGcgGCGGcCugaaGGuCGGGCCu -3'
miRNA:   3'- -UGcUCCCCa-CGCCuGug--CCuGCCCGG- -5'
3130 3' -62.3 NC_001493.1 + 43704 0.66 0.610954
Target:  5'- cGCGAGGGcGguguuUGUGGGagagacCAUGGugGGGUUg -3'
miRNA:   3'- -UGCUCCC-C-----ACGCCU------GUGCCugCCCGG- -5'
3130 3' -62.3 NC_001493.1 + 30481 0.66 0.610954
Target:  5'- uCGGGGGGauCGGgu-CGGACGGGgCg -3'
miRNA:   3'- uGCUCCCCacGCCuguGCCUGCCCgG- -5'
3130 3' -62.3 NC_001493.1 + 118688 0.66 0.601197
Target:  5'- cGCGGGuucGGUGCGGACcuCGGAcuCGGGa- -3'
miRNA:   3'- -UGCUCc--CCACGCCUGu-GCCU--GCCCgg -5'
3130 3' -62.3 NC_001493.1 + 3134 0.66 0.601197
Target:  5'- cGCGGGuucGGUGCGGACcuCGGAcuCGGGa- -3'
miRNA:   3'- -UGCUCc--CCACGCCUGu-GCCU--GCCCgg -5'
3130 3' -62.3 NC_001493.1 + 89979 0.67 0.591461
Target:  5'- ---cGGGGU-CGcGCACGGACcGGCCg -3'
miRNA:   3'- ugcuCCCCAcGCcUGUGCCUGcCCGG- -5'
3130 3' -62.3 NC_001493.1 + 123879 0.67 0.581753
Target:  5'- cCGGGGGGU-CGGAgGCucGGAacaGGcGCCg -3'
miRNA:   3'- uGCUCCCCAcGCCUgUG--CCUg--CC-CGG- -5'
3130 3' -62.3 NC_001493.1 + 8325 0.67 0.581753
Target:  5'- cCGGGGGGU-CGGAgGCucGGAacaGGcGCCg -3'
miRNA:   3'- uGCUCCCCAcGCCUgUG--CCUg--CC-CGG- -5'
3130 3' -62.3 NC_001493.1 + 3229 0.68 0.533816
Target:  5'- cCGAGGuGGagucagagGCGGACGaggaccCGGACGaGGUCg -3'
miRNA:   3'- uGCUCC-CCa-------CGCCUGU------GCCUGC-CCGG- -5'
3130 3' -62.3 NC_001493.1 + 118783 0.68 0.533816
Target:  5'- cCGAGGuGGagucagagGCGGACGaggaccCGGACGaGGUCg -3'
miRNA:   3'- uGCUCC-CCa-------CGCCUGU------GCCUGC-CCGG- -5'
3130 3' -62.3 NC_001493.1 + 123611 0.68 0.533816
Target:  5'- cGCucGGGGUGCGGGCuCGGucucgcucaGGGUg -3'
miRNA:   3'- -UGcuCCCCACGCCUGuGCCug-------CCCGg -5'
3130 3' -62.3 NC_001493.1 + 8056 0.68 0.533816
Target:  5'- cGCucGGGGUGCGGGCuCGGucucgcucaGGGUg -3'
miRNA:   3'- -UGcuCCCCACGCCUGuGCCug-------CCCGg -5'
3130 3' -62.3 NC_001493.1 + 107802 0.68 0.515023
Target:  5'- gAUGAGGcugaccGCGGACACGGG-GGGUCc -3'
miRNA:   3'- -UGCUCCcca---CGCCUGUGCCUgCCCGG- -5'
3130 3' -62.3 NC_001493.1 + 51528 0.68 0.505728
Target:  5'- gACGAGGGGgaccUGGACcgccACGGGaggGGGUCa -3'
miRNA:   3'- -UGCUCCCCac--GCCUG----UGCCUg--CCCGG- -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.