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
33123 3' -56.5 NC_007497.1 + 16449 0.66 0.651132
Target:  5'- uCCUCuACgccgaaUCCuGCUGCGUggacugCGGCGGCCu -3'
miRNA:   3'- -GGAG-UGa-----AGG-UGAUGCG------GCUGCCGGc -5'
33123 3' -56.5 NC_007497.1 + 34763 0.66 0.651132
Target:  5'- -aUCG-UUCC-CUugGCCGcgGCGGCCu -3'
miRNA:   3'- ggAGUgAAGGuGAugCGGC--UGCCGGc -5'
33123 3' -56.5 NC_007497.1 + 12008 0.66 0.651132
Target:  5'- gCUCGCUcuguaucaggagUCCGCcgagaACGCCGcuggGCGcGCCGa -3'
miRNA:   3'- gGAGUGA------------AGGUGa----UGCGGC----UGC-CGGC- -5'
33123 3' -56.5 NC_007497.1 + 11370 0.66 0.651132
Target:  5'- gCCUgCGCUggcCCAUcggACGCgGGCGGgCGg -3'
miRNA:   3'- -GGA-GUGAa--GGUGa--UGCGgCUGCCgGC- -5'
33123 3' -56.5 NC_007497.1 + 17649 0.66 0.646764
Target:  5'- -aUCGCUauugccgaUCCGCgcaaggcggggcgGCGCauCGGCGGCCGu -3'
miRNA:   3'- ggAGUGA--------AGGUGa------------UGCG--GCUGCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 34847 0.66 0.640209
Target:  5'- cCCUgCGCggCCGCggucucGCGCgCGAucaCGGCCGc -3'
miRNA:   3'- -GGA-GUGaaGGUGa-----UGCG-GCU---GCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 34965 0.66 0.629279
Target:  5'- aCUUGCUUCaauCGCUcGCGCCu-CGGCCa -3'
miRNA:   3'- gGAGUGAAG---GUGA-UGCGGcuGCCGGc -5'
33123 3' -56.5 NC_007497.1 + 31800 0.66 0.629279
Target:  5'- uUCUCACa--CACgaauCGCCccuGCGGCCGg -3'
miRNA:   3'- -GGAGUGaagGUGau--GCGGc--UGCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 21550 0.66 0.629279
Target:  5'- cCCgcCACUUCCGCcggaaGC-CCGGCaGCCGg -3'
miRNA:   3'- -GGa-GUGAAGGUGa----UGcGGCUGcCGGC- -5'
33123 3' -56.5 NC_007497.1 + 43284 0.66 0.629279
Target:  5'- cCCUgCAUUgaUCCAgaaguCUGCGCCGGCccaccGGUCGg -3'
miRNA:   3'- -GGA-GUGA--AGGU-----GAUGCGGCUG-----CCGGC- -5'
33123 3' -56.5 NC_007497.1 + 4437 0.66 0.629279
Target:  5'- -aUCAUUUCCGuCcGCGCgGAagGGCCGa -3'
miRNA:   3'- ggAGUGAAGGU-GaUGCGgCUg-CCGGC- -5'
33123 3' -56.5 NC_007497.1 + 41699 0.66 0.618352
Target:  5'- uUCUCGa-UCUGCUGCGCCGAUG-CUGc -3'
miRNA:   3'- -GGAGUgaAGGUGAUGCGGCUGCcGGC- -5'
33123 3' -56.5 NC_007497.1 + 39416 0.66 0.618352
Target:  5'- gCCg-GCUgccCCGCUACGUaCGACGGuuGc -3'
miRNA:   3'- -GGagUGAa--GGUGAUGCG-GCUGCCggC- -5'
33123 3' -56.5 NC_007497.1 + 7799 0.66 0.618352
Target:  5'- --cUugUUCCGCcuccgGCGCCGcCGGCgGg -3'
miRNA:   3'- ggaGugAAGGUGa----UGCGGCuGCCGgC- -5'
33123 3' -56.5 NC_007497.1 + 15021 0.66 0.607437
Target:  5'- gCUCGCgcCCgaagACUACGCgGAC-GCCGa -3'
miRNA:   3'- gGAGUGaaGG----UGAUGCGgCUGcCGGC- -5'
33123 3' -56.5 NC_007497.1 + 26144 0.66 0.607437
Target:  5'- gCCUCAUcgguagUCgGCUgccccugcACGCCGGgaccguCGGCCGg -3'
miRNA:   3'- -GGAGUGa-----AGgUGA--------UGCGGCU------GCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 42914 0.66 0.600897
Target:  5'- aCCgCGCUgCCGCgagUGCGUCGAggauagccccgauacCGGCCGg -3'
miRNA:   3'- -GGaGUGAaGGUG---AUGCGGCU---------------GCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 4019 0.66 0.596543
Target:  5'- uCCUCAaUUCgCGCcgUGCCGucuCGGCCGc -3'
miRNA:   3'- -GGAGUgAAG-GUGauGCGGCu--GCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 8659 0.66 0.595455
Target:  5'- aCCgagUACgaCCggaggaugcguggGCUgGCGUCGACGGCCGg -3'
miRNA:   3'- -GGa--GUGaaGG-------------UGA-UGCGGCUGCCGGC- -5'
33123 3' -56.5 NC_007497.1 + 2891 0.67 0.574852
Target:  5'- aCCgucCGCcgUCCACacGCGCCGGagauCGGCCu -3'
miRNA:   3'- -GGa--GUGa-AGGUGa-UGCGGCU----GCCGGc -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.