miRNA display CGI


Results 1 - 20 of 24 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
3026 3' -57.4 NC_001493.1 + 108919 0.66 0.826597
Target:  5'- cGCCcGCugUCCGCGUCGuGAGcaacGCGGUg -3'
miRNA:   3'- -UGGuCG--AGGCGUAGCuCUCac--CGUCG- -5'
3026 3' -57.4 NC_001493.1 + 36165 0.66 0.825746
Target:  5'- --gGGCUCCuguggagcgaggGguUCGGGAacgggcuGUGGCAGCg -3'
miRNA:   3'- uggUCGAGG------------CguAGCUCU-------CACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 13493 0.67 0.772673
Target:  5'- gAUCGcCUCUGCAUCGGGGGggGGaggaGGCu -3'
miRNA:   3'- -UGGUcGAGGCGUAGCUCUCa-CCg---UCG- -5'
3026 3' -57.4 NC_001493.1 + 57784 0.67 0.772673
Target:  5'- cCCGGUUCaGUAUCGAGGG-GGCGu- -3'
miRNA:   3'- uGGUCGAGgCGUAGCUCUCaCCGUcg -5'
3026 3' -57.4 NC_001493.1 + 129047 0.67 0.772673
Target:  5'- gAUCGcCUCUGCAUCGGGGGggGGaggaGGCu -3'
miRNA:   3'- -UGGUcGAGGCGUAGCUCUCa-CCg---UCG- -5'
3026 3' -57.4 NC_001493.1 + 87669 0.67 0.763189
Target:  5'- aGCCGGCUCCucguacGCcgCGGG-G-GGCAGg -3'
miRNA:   3'- -UGGUCGAGG------CGuaGCUCuCaCCGUCg -5'
3026 3' -57.4 NC_001493.1 + 30969 0.67 0.743878
Target:  5'- cACCGGC-CCGUcgacaaacuucGUCG-GGGUGGC-GCu -3'
miRNA:   3'- -UGGUCGaGGCG-----------UAGCuCUCACCGuCG- -5'
3026 3' -57.4 NC_001493.1 + 29703 0.67 0.734069
Target:  5'- --gAGCUCCGCAacgCGAcucucGAGcUGGCGGUu -3'
miRNA:   3'- uggUCGAGGCGUa--GCU-----CUC-ACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 19513 0.68 0.724171
Target:  5'- uAUCAGCUCC-CAcUUGaAGAGgcgcggGGCGGCg -3'
miRNA:   3'- -UGGUCGAGGcGU-AGC-UCUCa-----CCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 123818 0.69 0.663424
Target:  5'- cCCGcGCUCCaGCAcCGAuGGGUGGgAGCc -3'
miRNA:   3'- uGGU-CGAGG-CGUaGCU-CUCACCgUCG- -5'
3026 3' -57.4 NC_001493.1 + 8264 0.69 0.663424
Target:  5'- cCCGcGCUCCaGCAcCGAuGGGUGGgAGCc -3'
miRNA:   3'- uGGU-CGAGG-CGUaGCU-CUCACCgUCG- -5'
3026 3' -57.4 NC_001493.1 + 66023 0.69 0.631556
Target:  5'- uGCaCGGCgaccgCCGCGUCGAuaaacuccggaggGAGUgggacaccGGCAGCa -3'
miRNA:   3'- -UG-GUCGa----GGCGUAGCU-------------CUCA--------CCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 2885 0.7 0.612009
Target:  5'- gGCCAGagugggcagaguCUUCGagaaGAGGGUGGCGGCg -3'
miRNA:   3'- -UGGUC------------GAGGCguagCUCUCACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 118439 0.7 0.612009
Target:  5'- gGCCAGagugggcagaguCUUCGagaaGAGGGUGGCGGCg -3'
miRNA:   3'- -UGGUC------------GAGGCguagCUCUCACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 55086 0.7 0.60174
Target:  5'- aGCgAGCUCCGggcuggucggcuCAUcCGAGAacugugaugGUGGCGGCg -3'
miRNA:   3'- -UGgUCGAGGC------------GUA-GCUCU---------CACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 90079 0.71 0.550878
Target:  5'- uACgAGCUCCcCca-GAGGGUGGUAGCc -3'
miRNA:   3'- -UGgUCGAGGcGuagCUCUCACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 60079 0.71 0.518025
Target:  5'- aACCGGUgaCCGUgacggguuggcgagGUCGAGGGUGGUGGUu -3'
miRNA:   3'- -UGGUCGa-GGCG--------------UAGCUCUCACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 90992 0.74 0.367089
Target:  5'- cGCCGGCUCCGaGUCGAGAGgccGUucgAGCa -3'
miRNA:   3'- -UGGUCGAGGCgUAGCUCUCac-CG---UCG- -5'
3026 3' -57.4 NC_001493.1 + 121348 1.04 0.00351
Target:  5'- cCCAGCUCCGCAUCGAGAGUGGUAGCu -3'
miRNA:   3'- uGGUCGAGGCGUAGCUCUCACCGUCG- -5'
3026 3' -57.4 NC_001493.1 + 5794 1.04 0.00351
Target:  5'- cCCAGCUCCGCAUCGAGAGUGGUAGCu -3'
miRNA:   3'- uGGUCGAGGCGUAGCUCUCACCGUCG- -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.