miRNA display CGI


Results 1 - 20 of 236 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
19112 5' -57 NC_004684.1 + 8439 0.66 0.689142
Target:  5'- cCGCCGggccagGgaaccugacucCCCGGUgcgcgccaACCUGGACaGCCu -3'
miRNA:   3'- -GCGGCaa----U-----------GGGCCA--------UGGACCUGgUGG- -5'
19112 5' -57 NC_004684.1 + 38748 0.66 0.720237
Target:  5'- aCGCCaacacGCUCGGUGagcaUUGGACCAgCa -3'
miRNA:   3'- -GCGGcaa--UGGGCCAUg---GACCUGGUgG- -5'
19112 5' -57 NC_004684.1 + 6859 0.66 0.686003
Target:  5'- aCGCCGUgguggugcugcacugGCuCUGGggcgaggucgucaACCUGGugCGCCu -3'
miRNA:   3'- -GCGGCAa--------------UG-GGCCa------------UGGACCugGUGG- -5'
19112 5' -57 NC_004684.1 + 20017 0.66 0.720237
Target:  5'- -aCCGgagGCCgUGGUGCCUGaaGACCccGCCa -3'
miRNA:   3'- gcGGCaa-UGG-GCCAUGGAC--CUGG--UGG- -5'
19112 5' -57 NC_004684.1 + 59423 0.66 0.689142
Target:  5'- gCGCaCGUgccGCCUGGcgGCCUuGcCCACCg -3'
miRNA:   3'- -GCG-GCAa--UGGGCCa-UGGAcCuGGUGG- -5'
19112 5' -57 NC_004684.1 + 37322 0.66 0.709939
Target:  5'- gGCCaUUGCCU---ACCUGGAaagcCCGCCg -3'
miRNA:   3'- gCGGcAAUGGGccaUGGACCU----GGUGG- -5'
19112 5' -57 NC_004684.1 + 2273 0.66 0.709939
Target:  5'- gGCgGgcaUugCCGccaGCCUGGGCCACg -3'
miRNA:   3'- gCGgCa--AugGGCca-UGGACCUGGUGg -5'
19112 5' -57 NC_004684.1 + 61702 0.66 0.689142
Target:  5'- uGCCGUgggcaGgCCGGgcCCcGG-CCACCu -3'
miRNA:   3'- gCGGCAa----UgGGCCauGGaCCuGGUGG- -5'
19112 5' -57 NC_004684.1 + 53804 0.66 0.730454
Target:  5'- gGCCa--GCCCuGGU-CCUGGAgaaugcCCGCCu -3'
miRNA:   3'- gCGGcaaUGGG-CCAuGGACCU------GGUGG- -5'
19112 5' -57 NC_004684.1 + 23558 0.66 0.699571
Target:  5'- gGUCGcgGCCUGGacaGCCUgccGGGCCGCg -3'
miRNA:   3'- gCGGCaaUGGGCCa--UGGA---CCUGGUGg -5'
19112 5' -57 NC_004684.1 + 64194 0.66 0.699571
Target:  5'- uCGgCGUUGCCgGuGUGCC-GGAUcgaCACCu -3'
miRNA:   3'- -GCgGCAAUGGgC-CAUGGaCCUG---GUGG- -5'
19112 5' -57 NC_004684.1 + 4479 0.66 0.703726
Target:  5'- cCGUCGUUGgCCGcUACCguaaccccgccgagcUGGcgGCCACCg -3'
miRNA:   3'- -GCGGCAAUgGGCcAUGG---------------ACC--UGGUGG- -5'
19112 5' -57 NC_004684.1 + 60282 0.66 0.720237
Target:  5'- gGCgGUUgcgugGCCCGGU-CCUcGGCgGCCu -3'
miRNA:   3'- gCGgCAA-----UGGGCCAuGGAcCUGgUGG- -5'
19112 5' -57 NC_004684.1 + 26330 0.66 0.720237
Target:  5'- cCGCCGaUUGCCgacgCGGUGCgCUcGGCCAuuCCg -3'
miRNA:   3'- -GCGGC-AAUGG----GCCAUG-GAcCUGGU--GG- -5'
19112 5' -57 NC_004684.1 + 39948 0.66 0.699571
Target:  5'- uGUgGUUAUggCGGUGCCcGGAgCGCCa -3'
miRNA:   3'- gCGgCAAUGg-GCCAUGGaCCUgGUGG- -5'
19112 5' -57 NC_004684.1 + 52451 0.66 0.720237
Target:  5'- gGCCGccACCgGGaUGCCcgacggcaUGGccGCCACCa -3'
miRNA:   3'- gCGGCaaUGGgCC-AUGG--------ACC--UGGUGG- -5'
19112 5' -57 NC_004684.1 + 15169 0.66 0.720237
Target:  5'- cCGCCGccacgcACCUGGga-CUGGugCugCg -3'
miRNA:   3'- -GCGGCaa----UGGGCCaugGACCugGugG- -5'
19112 5' -57 NC_004684.1 + 11455 0.66 0.720237
Target:  5'- gGCCGacgcgcACCaCGGUcACCgaGGACgGCCg -3'
miRNA:   3'- gCGGCaa----UGG-GCCA-UGGa-CCUGgUGG- -5'
19112 5' -57 NC_004684.1 + 20396 0.66 0.699571
Target:  5'- gCGCaCGagGCCgaGGUcaGCCUGGACgACUc -3'
miRNA:   3'- -GCG-GCaaUGGg-CCA--UGGACCUGgUGG- -5'
19112 5' -57 NC_004684.1 + 19907 0.66 0.689142
Target:  5'- aCGCCaccaagcuCCUGG-ACCUGGGauaCACCg -3'
miRNA:   3'- -GCGGcaau----GGGCCaUGGACCUg--GUGG- -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.