miRNA display CGI


Results 1 - 20 of 39 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
18967 3' -50.5 NC_004683.1 + 54519 1.09 0.003713
Target:  5'- gUGAUCGAAGUGAUCAUCGACGGCGAGc -3'
miRNA:   3'- -ACUAGCUUCACUAGUAGCUGCCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 53707 0.68 0.886798
Target:  5'- aGGUCGcGGcgggccUGAUCGcgccgcagcUCGGCGGCGAa -3'
miRNA:   3'- aCUAGCuUC------ACUAGU---------AGCUGCCGCUc -5'
18967 3' -50.5 NC_004683.1 + 52892 0.66 0.943319
Target:  5'- aGAUCGcugaugcugaacGAGUacUCGUCGGCcucGGCGAGc -3'
miRNA:   3'- aCUAGC------------UUCAcuAGUAGCUG---CCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 51385 0.66 0.938191
Target:  5'- -cGUUGAGGU--UCAUCGGCGGCc-- -3'
miRNA:   3'- acUAGCUUCAcuAGUAGCUGCCGcuc -5'
18967 3' -50.5 NC_004683.1 + 49785 0.67 0.894217
Target:  5'- cGAUCGcuG-GGUCGUUGACGaCGAGc -3'
miRNA:   3'- aCUAGCuuCaCUAGUAGCUGCcGCUC- -5'
18967 3' -50.5 NC_004683.1 + 49526 0.69 0.835887
Target:  5'- aGGUCGGauggaacGGUG-UCAgCGGCGGCGGa -3'
miRNA:   3'- aCUAGCU-------UCACuAGUaGCUGCCGCUc -5'
18967 3' -50.5 NC_004683.1 + 49123 0.67 0.921074
Target:  5'- uUGGUCGAcGUGcAUCAgUCGGCGccguucugcugcGCGAGc -3'
miRNA:   3'- -ACUAGCUuCAC-UAGU-AGCUGC------------CGCUC- -5'
18967 3' -50.5 NC_004683.1 + 48557 0.87 0.099604
Target:  5'- -cGUCGGgcugcacugGGUGAUCGUCGGCGGCGAGa -3'
miRNA:   3'- acUAGCU---------UCACUAGUAGCUGCCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 46600 0.67 0.901358
Target:  5'- cGGUCGAGGg---CcgCGACGGCaAGg -3'
miRNA:   3'- aCUAGCUUCacuaGuaGCUGCCGcUC- -5'
18967 3' -50.5 NC_004683.1 + 45927 0.68 0.86293
Target:  5'- -cGUCGggGUGAuUCGuguugugcgucUCGACGGCcAGg -3'
miRNA:   3'- acUAGCuuCACU-AGU-----------AGCUGCCGcUC- -5'
18967 3' -50.5 NC_004683.1 + 44672 0.68 0.854459
Target:  5'- -cGUCGAAcGUGAg-GUCGGCGGCGc- -3'
miRNA:   3'- acUAGCUU-CACUagUAGCUGCCGCuc -5'
18967 3' -50.5 NC_004683.1 + 41831 0.68 0.874363
Target:  5'- gGuAUCGAcgcgcgGGUaGGUCAUCGgcucgggcaggucucGCGGCGAGg -3'
miRNA:   3'- aC-UAGCU------UCA-CUAGUAGC---------------UGCCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 41711 0.7 0.798841
Target:  5'- aGAUCGcGGUGGUCAccUCG-CcGCGAGa -3'
miRNA:   3'- aCUAGCuUCACUAGU--AGCuGcCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 41139 0.68 0.886798
Target:  5'- gUGAUgCGAAagcugcUGAUCAgcUCGcCGGCGAGg -3'
miRNA:   3'- -ACUA-GCUUc-----ACUAGU--AGCuGCCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 36112 0.67 0.914789
Target:  5'- aGGUCG-GGcGAucUCGUCGAuCGGCGAu -3'
miRNA:   3'- aCUAGCuUCaCU--AGUAGCU-GCCGCUc -5'
18967 3' -50.5 NC_004683.1 + 34576 0.68 0.86293
Target:  5'- ---cCGGAGuUGAggcUGUCGACGGUGAGa -3'
miRNA:   3'- acuaGCUUC-ACUa--GUAGCUGCCGCUC- -5'
18967 3' -50.5 NC_004683.1 + 33884 0.75 0.493407
Target:  5'- cUGGUCGAAuGUGAUCAgccucCGuGCGGCGAu -3'
miRNA:   3'- -ACUAGCUU-CACUAGUa----GC-UGCCGCUc -5'
18967 3' -50.5 NC_004683.1 + 32443 0.66 0.943319
Target:  5'- ---cCGGAGUcccuGGUCAUCG-CGGCGcAGa -3'
miRNA:   3'- acuaGCUUCA----CUAGUAGCuGCCGC-UC- -5'
18967 3' -50.5 NC_004683.1 + 29703 0.66 0.943319
Target:  5'- -cGUCGAAGUcGA-CAaCGACGGCGu- -3'
miRNA:   3'- acUAGCUUCA-CUaGUaGCUGCCGCuc -5'
18967 3' -50.5 NC_004683.1 + 29157 0.67 0.921074
Target:  5'- cGAUCuGGGUGAugUCAUCGcuaccACGGCGc- -3'
miRNA:   3'- aCUAGcUUCACU--AGUAGC-----UGCCGCuc -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.