miRNA display CGI


Results 1 - 17 of 17 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
1284 5' -60.5 NC_001317.1 + 2801 0.66 0.29691
Target:  5'- cGCGCUcGCCG-GUGGCcaGCuCUGCGaCGAu -3'
miRNA:   3'- -CGUGAaCGGCgCGUCG--CG-GACGC-GCU- -5'
1284 5' -60.5 NC_001317.1 + 10991 0.66 0.289455
Target:  5'- gGCAUaaGCCa-GCA-UGCCUGCGCGAg -3'
miRNA:   3'- -CGUGaaCGGcgCGUcGCGGACGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 9484 0.66 0.289455
Target:  5'- uUACcgGCaagGUGCAGCGCaugGCGCGGg -3'
miRNA:   3'- cGUGaaCGg--CGCGUCGCGga-CGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 27366 0.66 0.282148
Target:  5'- gGCGCg-GCCGCuugcgacgcauuGCGGCuGCaugGCGCGAa -3'
miRNA:   3'- -CGUGaaCGGCG------------CGUCG-CGga-CGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 6492 0.66 0.274987
Target:  5'- cGCGCUgaaaCUGCGcCAGCGCCUcUGCa- -3'
miRNA:   3'- -CGUGAac--GGCGC-GUCGCGGAcGCGcu -5'
1284 5' -60.5 NC_001317.1 + 17226 0.66 0.270062
Target:  5'- cGCGCUUGCUGCaucaucuGCAGaggcugcaguauuguCGCCgacgugGCGCGc -3'
miRNA:   3'- -CGUGAACGGCG-------CGUC---------------GCGGa-----CGCGCu -5'
1284 5' -60.5 NC_001317.1 + 16967 0.66 0.261104
Target:  5'- -aGCUUGCCGguaacauggcCGCAGCagGCgCUGCGgGGu -3'
miRNA:   3'- cgUGAACGGC----------GCGUCG--CG-GACGCgCU- -5'
1284 5' -60.5 NC_001317.1 + 1806 0.66 0.261104
Target:  5'- -----aGCUGCGUuGCGCCaaucugGCGCGAu -3'
miRNA:   3'- cgugaaCGGCGCGuCGCGGa-----CGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 6636 0.66 0.261104
Target:  5'- cGCGCuUUGCUGCcgguuuggugGCAGguuuaCGCgUGCGCGGu -3'
miRNA:   3'- -CGUG-AACGGCG----------CGUC-----GCGgACGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 6340 0.67 0.247797
Target:  5'- uCACcgGCauCGCGCAG-GCgCUGCGCGGc -3'
miRNA:   3'- cGUGaaCG--GCGCGUCgCG-GACGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 17533 0.68 0.210658
Target:  5'- gGCACggguaGCCGCGCcauucucAGcCGCCUGCaGCu- -3'
miRNA:   3'- -CGUGaa---CGGCGCG-------UC-GCGGACG-CGcu -5'
1284 5' -60.5 NC_001317.1 + 17049 0.69 0.179397
Target:  5'- ----gUGUCGCgauaccgaccccGCAGCGCCUGCuGCGGc -3'
miRNA:   3'- cgugaACGGCG------------CGUCGCGGACG-CGCU- -5'
1284 5' -60.5 NC_001317.1 + 6011 0.69 0.179397
Target:  5'- gGCGgUUGCaugGCGCAGCGgggcuuguuccCgCUGCGCGGc -3'
miRNA:   3'- -CGUgAACGg--CGCGUCGC-----------G-GACGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 16145 0.73 0.083336
Target:  5'- -gACUgacGCCGCGCagGGUGCCUGCGUu- -3'
miRNA:   3'- cgUGAa--CGGCGCG--UCGCGGACGCGcu -5'
1284 5' -60.5 NC_001317.1 + 16757 0.77 0.044784
Target:  5'- cGC-CUUGCCGCuucaaguGCcuGCGCCUGCGCGc -3'
miRNA:   3'- -CGuGAACGGCG-------CGu-CGCGGACGCGCu -5'
1284 5' -60.5 NC_001317.1 + 8478 0.82 0.018129
Target:  5'- uGCACUUGCCuuugcgagcuguucGCGCAGUGucaCCUGCGCGGa -3'
miRNA:   3'- -CGUGAACGG--------------CGCGUCGC---GGACGCGCU- -5'
1284 5' -60.5 NC_001317.1 + 6275 1.1 0.000108
Target:  5'- gGCACUUGCCGCGCAGCGCCUGCGCGAu -3'
miRNA:   3'- -CGUGAACGGCGCGUCGCGGACGCGCU- -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.