miRNA display CGI


Results 1 - 20 of 62 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
17075 3' -61.1 NC_004333.2 + 682 0.7 0.192686
Target:  5'- uGCCCGUgcucGGugAGCGCGaUCGUGCCGc -3'
miRNA:   3'- uUGGGCGu---CCugUCGCGC-AGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 771 0.66 0.359006
Target:  5'- cGCUCGCGGGcgGCGGCaCGaUCGCGCUc -3'
miRNA:   3'- uUGGGCGUCC--UGUCGcGC-AGUGCGGc -5'
17075 3' -61.1 NC_004333.2 + 1345 0.69 0.243087
Target:  5'- cAACCgCGcCAGG-CGGCGCGccaaggagcacgUCAUGCCGu -3'
miRNA:   3'- -UUGG-GC-GUCCuGUCGCGC------------AGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 2666 0.71 0.178037
Target:  5'- --gCCGCAacgccGGCAGCuugcaGCGUCGCGCCGg -3'
miRNA:   3'- uugGGCGUc----CUGUCG-----CGCAGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 3295 0.71 0.178037
Target:  5'- uGCCCgGCGucaucggggcGGGCGGCGCGcCGgGCCGg -3'
miRNA:   3'- uUGGG-CGU----------CCUGUCGCGCaGUgCGGC- -5'
17075 3' -61.1 NC_004333.2 + 3555 0.69 0.249319
Target:  5'- gGugCCGC---GCAGCGCGUCG-GCCGa -3'
miRNA:   3'- -UugGGCGuccUGUCGCGCAGUgCGGC- -5'
17075 3' -61.1 NC_004333.2 + 3798 0.69 0.225167
Target:  5'- uGAUCCGCccGGGGguGCGCGagGCGCUc -3'
miRNA:   3'- -UUGGGCG--UCCUguCGCGCagUGCGGc -5'
17075 3' -61.1 NC_004333.2 + 5197 0.67 0.303987
Target:  5'- cGCCUGCAGGcGCGGCGuCGgCACcGUCGc -3'
miRNA:   3'- uUGGGCGUCC-UGUCGC-GCaGUG-CGGC- -5'
17075 3' -61.1 NC_004333.2 + 6585 0.66 0.384627
Target:  5'- aAGCCCGCAucgccgccACGGCGCGccgcccaGCGCCGc -3'
miRNA:   3'- -UUGGGCGUcc------UGUCGCGCag-----UGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 9016 0.66 0.359006
Target:  5'- cGGCuuGcCAGG-CGGCGCGcUCGCuGCCu -3'
miRNA:   3'- -UUGggC-GUCCuGUCGCGC-AGUG-CGGc -5'
17075 3' -61.1 NC_004333.2 + 9022 0.68 0.25504
Target:  5'- cAGCCCGCGcacgcgauGGACAGCGCcggcgcgaacgaaGcCGCGUCGc -3'
miRNA:   3'- -UUGGGCGU--------CCUGUCGCG-------------CaGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 9110 0.67 0.319019
Target:  5'- cGugUCGCAGGucgccaaagGCAGCGag-CGCGCCGc -3'
miRNA:   3'- -UugGGCGUCC---------UGUCGCgcaGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 9481 0.78 0.053291
Target:  5'- cAGCCCGCAGGGCAGCGaagacgacgaaaugcCGg-GCGCCGa -3'
miRNA:   3'- -UUGGGCGUCCUGUCGC---------------GCagUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 10871 0.69 0.22459
Target:  5'- cGCCgCGCGGGAagaacgcCGGCGCGacagucacUUGCGCCGa -3'
miRNA:   3'- uUGG-GCGUCCU-------GUCGCGC--------AGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 11818 0.67 0.318254
Target:  5'- cGGCCaucaGCGcGACGGCGCGcuccagcUUGCGCCGg -3'
miRNA:   3'- -UUGGg---CGUcCUGUCGCGC-------AGUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 11910 0.67 0.296678
Target:  5'- cGGCCCgGCAuGcgcaGCGGCGCG-CGCGCCa -3'
miRNA:   3'- -UUGGG-CGUcC----UGUCGCGCaGUGCGGc -5'
17075 3' -61.1 NC_004333.2 + 12371 0.7 0.208381
Target:  5'- uGGCgCGCAGGACGcCGCaaugCGCGCCGc -3'
miRNA:   3'- -UUGgGCGUCCUGUcGCGca--GUGCGGC- -5'
17075 3' -61.1 NC_004333.2 + 13751 0.68 0.289506
Target:  5'- gAGCgCGUAGGACGccGCGCGccgcUCGCGCgGc -3'
miRNA:   3'- -UUGgGCGUCCUGU--CGCGC----AGUGCGgC- -5'
17075 3' -61.1 NC_004333.2 + 13894 0.66 0.367412
Target:  5'- cGGCCgGCAcGGGCuGCGCGgCGgcUGCCGu -3'
miRNA:   3'- -UUGGgCGU-CCUGuCGCGCaGU--GCGGC- -5'
17075 3' -61.1 NC_004333.2 + 14074 0.68 0.268807
Target:  5'- -gUgCGCAGGcaaagcugauGCAGCGCGaucgUCAUGCCGu -3'
miRNA:   3'- uuGgGCGUCC----------UGUCGCGC----AGUGCGGC- -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.