miRNA display CGI


Results 1 - 20 of 36 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
21303 5' -55.8 NC_004778.3 + 127497 0.67 0.789549
Target:  5'- cUGCCGUUgacaacuuuggGCGCaaUAAcgGUGCUGUCGu -3'
miRNA:   3'- -ACGGCGAa----------CGCG--GUUuaCACGACGGU- -5'
21303 5' -55.8 NC_004778.3 + 121683 0.66 0.851371
Target:  5'- cGCUGCgcgUGCGCUucacGUGCagGCCc -3'
miRNA:   3'- aCGGCGa--ACGCGGuuuaCACGa-CGGu -5'
21303 5' -55.8 NC_004778.3 + 118953 0.67 0.780037
Target:  5'- cGCCGC-UGgGCCucguaauUGUGCgcGCCGg -3'
miRNA:   3'- aCGGCGaACgCGGuuu----ACACGa-CGGU- -5'
21303 5' -55.8 NC_004778.3 + 115406 0.68 0.710042
Target:  5'- cGCuCGCUUuuuaaaGC-CCAAAgaGUGCUGCCAg -3'
miRNA:   3'- aCG-GCGAA------CGcGGUUUa-CACGACGGU- -5'
21303 5' -55.8 NC_004778.3 + 115105 0.67 0.795185
Target:  5'- aUGCCGCgcgcguuaucgagUGCGUCAAGaGUGUggaaaccGCCAg -3'
miRNA:   3'- -ACGGCGa------------ACGCGGUUUaCACGa------CGGU- -5'
21303 5' -55.8 NC_004778.3 + 113007 0.69 0.657714
Target:  5'- cGCCGUUUGCGuCCAuaacgacgaGUGCUGUa- -3'
miRNA:   3'- aCGGCGAACGC-GGUuua------CACGACGgu -5'
21303 5' -55.8 NC_004778.3 + 112356 0.66 0.825988
Target:  5'- gGCCGCUaugcgcgaggGCGCCGAGaacgaaGUGCagucgGCCGa -3'
miRNA:   3'- aCGGCGAa---------CGCGGUUUa-----CACGa----CGGU- -5'
21303 5' -55.8 NC_004778.3 + 95288 0.66 0.851371
Target:  5'- cGCgUGCUUGCaGCCGuucAAUGUGCacaUGCUc -3'
miRNA:   3'- aCG-GCGAACG-CGGU---UUACACG---ACGGu -5'
21303 5' -55.8 NC_004778.3 + 95005 0.67 0.80811
Target:  5'- cGCgCGCgccgUGCGCCGAcgggcagGUGC-GCCu -3'
miRNA:   3'- aCG-GCGa---ACGCGGUUua-----CACGaCGGu -5'
21303 5' -55.8 NC_004778.3 + 90038 0.76 0.309046
Target:  5'- aGCCGCUUGCGCCcaccacGCUGCaCAg -3'
miRNA:   3'- aCGGCGAACGCGGuuuacaCGACG-GU- -5'
21303 5' -55.8 NC_004778.3 + 83192 0.67 0.780994
Target:  5'- cUGCCGUcugUGCGCCGuucauguUGUGCaacauuucagcggcgGCCAg -3'
miRNA:   3'- -ACGGCGa--ACGCGGUuu-----ACACGa--------------CGGU- -5'
21303 5' -55.8 NC_004778.3 + 82479 0.71 0.583766
Target:  5'- cGCUGCUU-UGCCAGuccUGUGCUGCg- -3'
miRNA:   3'- aCGGCGAAcGCGGUUu--ACACGACGgu -5'
21303 5' -55.8 NC_004778.3 + 77883 0.72 0.501557
Target:  5'- aGUCGCUcggUGCGCgCGGGUGUGCUGa-- -3'
miRNA:   3'- aCGGCGA---ACGCG-GUUUACACGACggu -5'
21303 5' -55.8 NC_004778.3 + 64806 0.72 0.531887
Target:  5'- cGCCGUUgaaaGCGCaCGGAUGUGCaUGCa- -3'
miRNA:   3'- aCGGCGAa---CGCG-GUUUACACG-ACGgu -5'
21303 5' -55.8 NC_004778.3 + 63972 0.67 0.787659
Target:  5'- cGCCGacaaaccuaCGCCGGAUGUGUuggGCCAu -3'
miRNA:   3'- aCGGCgaac-----GCGGUUUACACGa--CGGU- -5'
21303 5' -55.8 NC_004778.3 + 60415 0.69 0.689254
Target:  5'- gGCugCGCUUGCGCUucaggccGAUcGUGCUGCUg -3'
miRNA:   3'- aCG--GCGAACGCGGu------UUA-CACGACGGu -5'
21303 5' -55.8 NC_004778.3 + 60082 0.68 0.710042
Target:  5'- gGuuGUUUGCGCCAAGcuccucGUcGCUGCUg -3'
miRNA:   3'- aCggCGAACGCGGUUUa-----CA-CGACGGu -5'
21303 5' -55.8 NC_004778.3 + 58178 0.68 0.709008
Target:  5'- cGCCGCcgcCGCCGuguccgaaugcaaAGUGUGCUucGCCAa -3'
miRNA:   3'- aCGGCGaacGCGGU-------------UUACACGA--CGGU- -5'
21303 5' -55.8 NC_004778.3 + 56966 0.7 0.600607
Target:  5'- gUGCCGCggcgugaacacgGCGCUGGAccUGUGCggcggGCCAg -3'
miRNA:   3'- -ACGGCGaa----------CGCGGUUU--ACACGa----CGGU- -5'
21303 5' -55.8 NC_004778.3 + 52321 0.72 0.501557
Target:  5'- cGCCGCUgccuuuuCGCCAAAcGaGCUGCCGu -3'
miRNA:   3'- aCGGCGAac-----GCGGUUUaCaCGACGGU- -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.