miRNA display CGI


Results 1 - 20 of 54 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
12488 3' -55.1 NC_003324.1 + 2779 0.68 0.605319
Target:  5'- --aCUGCCGCCGccGACA--UCGuGCc -3'
miRNA:   3'- cagGACGGCGGCuuCUGUugAGCuCG- -5'
12488 3' -55.1 NC_003324.1 + 5331 0.67 0.671179
Target:  5'- -gCCUGCCGCUGGugcGGCGgccaacugauGCUCGAa- -3'
miRNA:   3'- caGGACGGCGGCUu--CUGU----------UGAGCUcg -5'
12488 3' -55.1 NC_003324.1 + 6078 0.68 0.616293
Target:  5'- gGUCgaGaUCGCCGAGGGCAAgUCGguccaacuuGGCg -3'
miRNA:   3'- -CAGgaC-GGCGGCUUCUGUUgAGC---------UCG- -5'
12488 3' -55.1 NC_003324.1 + 6513 0.66 0.725137
Target:  5'- cGUCUcgGCCGCUGAGccacGGCAGgguCUgCGAGCu -3'
miRNA:   3'- -CAGGa-CGGCGGCUU----CUGUU---GA-GCUCG- -5'
12488 3' -55.1 NC_003324.1 + 7327 0.67 0.649262
Target:  5'- cGUUCcGCgCGCCGAGGGCAcGCUgaCGAuGCg -3'
miRNA:   3'- -CAGGaCG-GCGGCUUCUGU-UGA--GCU-CG- -5'
12488 3' -55.1 NC_003324.1 + 7554 0.7 0.477707
Target:  5'- -aCCUGCC-CCGAGGuCGGgauuuuggcuCUCGGGCa -3'
miRNA:   3'- caGGACGGcGGCUUCuGUU----------GAGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 10937 0.66 0.735697
Target:  5'- -gCCaacaCCGCCGggGugAAggcUUCGGGCa -3'
miRNA:   3'- caGGac--GGCGGCuuCugUU---GAGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 13791 0.66 0.725137
Target:  5'- -gCCUGCCGCCGuccGACGcgacACUUacccAGCa -3'
miRNA:   3'- caGGACGGCGGCuu-CUGU----UGAGc---UCG- -5'
12488 3' -55.1 NC_003324.1 + 15615 0.67 0.682088
Target:  5'- uUCCaUGUCGCCGuuggaAAGAUAggucugcuuaaGCUUGGGCa -3'
miRNA:   3'- cAGG-ACGGCGGC-----UUCUGU-----------UGAGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 17473 0.67 0.649262
Target:  5'- aGUCCUGCCGUCGc-----GC-CGAGCg -3'
miRNA:   3'- -CAGGACGGCGGCuucuguUGaGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 17629 0.67 0.692949
Target:  5'- ---aUGCCGCCGA-----GCUCGGGCc -3'
miRNA:   3'- caggACGGCGGCUucuguUGAGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 18960 0.66 0.714485
Target:  5'- cGUCCguggcgaaguaGCgGCCGAA-ACGAC-CGAGCg -3'
miRNA:   3'- -CAGGa----------CGgCGGCUUcUGUUGaGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 19514 0.68 0.616293
Target:  5'- uUCUUGCCGCgGAAGGCGuccaUC-AGCc -3'
miRNA:   3'- cAGGACGGCGgCUUCUGUug--AGcUCG- -5'
12488 3' -55.1 NC_003324.1 + 21218 0.71 0.447793
Target:  5'- uUCgaGCUGCCGAAGGCGACggCGcGUu -3'
miRNA:   3'- cAGgaCGGCGGCUUCUGUUGa-GCuCG- -5'
12488 3' -55.1 NC_003324.1 + 22950 0.66 0.735697
Target:  5'- cGUCCaGUCuCCGguGGCGAUgCGAGCg -3'
miRNA:   3'- -CAGGaCGGcGGCuuCUGUUGaGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 24620 0.67 0.649262
Target:  5'- cGUCCcauaGgCGCCGAAGucaccgagcauCAugUCGGGCu -3'
miRNA:   3'- -CAGGa---CgGCGGCUUCu----------GUugAGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 25136 0.71 0.438054
Target:  5'- ---aUGCCGCCGguGACGcgaUCGAGCu -3'
miRNA:   3'- caggACGGCGGCuuCUGUug-AGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 25219 0.75 0.271706
Target:  5'- -gCCUG-CGCCGAcuGACggUUCGAGCa -3'
miRNA:   3'- caGGACgGCGGCUu-CUGuuGAGCUCG- -5'
12488 3' -55.1 NC_003324.1 + 25659 0.73 0.331469
Target:  5'- uGUCaucaCCGCCGAGGACAAuCUCG-GCg -3'
miRNA:   3'- -CAGgac-GGCGGCUUCUGUU-GAGCuCG- -5'
12488 3' -55.1 NC_003324.1 + 26293 0.67 0.649262
Target:  5'- uUgCUGCUGCCGAgcgaggGGACGACgcaGAcGCa -3'
miRNA:   3'- cAgGACGGCGGCU------UCUGUUGag-CU-CG- -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.