miRNA display CGI


Results 1 - 20 of 54 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
19110 3' -57.9 NC_004684.1 + 44564 0.66 0.71316
Target:  5'- gCCGGUGaUCGGGUCAggcaGgACGuaGUGGc -3'
miRNA:   3'- gGGCCAC-GGCCCAGUag--CaUGC--CACC- -5'
19110 3' -57.9 NC_004684.1 + 7652 0.66 0.71316
Target:  5'- gCgUGGUGaCCGGGUCggCGgccUACGucGUGGa -3'
miRNA:   3'- -GgGCCAC-GGCCCAGuaGC---AUGC--CACC- -5'
19110 3' -57.9 NC_004684.1 + 52624 0.66 0.71316
Target:  5'- gUCGGUGCCGGGcaCGUCGccaucaccggcaUGCuugcgcucccaGGUGGc -3'
miRNA:   3'- gGGCCACGGCCCa-GUAGC------------AUG-----------CCACC- -5'
19110 3' -57.9 NC_004684.1 + 53885 0.66 0.70299
Target:  5'- -gCGGUGCCuucucguggGGGUgGUUGUgACGG-GGg -3'
miRNA:   3'- ggGCCACGG---------CCCAgUAGCA-UGCCaCC- -5'
19110 3' -57.9 NC_004684.1 + 66339 0.66 0.70299
Target:  5'- uCCCGGUgacGCCGGGg---CGgGCGGccaGGg -3'
miRNA:   3'- -GGGCCA---CGGCCCaguaGCaUGCCa--CC- -5'
19110 3' -57.9 NC_004684.1 + 6538 0.66 0.70299
Target:  5'- uCCCGGccgacaucgccGCCGuGGaCAUCG-ACGGUGa -3'
miRNA:   3'- -GGGCCa----------CGGC-CCaGUAGCaUGCCACc -5'
19110 3' -57.9 NC_004684.1 + 54081 0.66 0.692758
Target:  5'- -gCGGUGacCCGGGUCAaggCGU-CGGaGGg -3'
miRNA:   3'- ggGCCAC--GGCCCAGUa--GCAuGCCaCC- -5'
19110 3' -57.9 NC_004684.1 + 21857 0.66 0.692758
Target:  5'- cCCCGGUGCgCcGGUCGaaGa--GGUGGa -3'
miRNA:   3'- -GGGCCACG-GcCCAGUagCaugCCACC- -5'
19110 3' -57.9 NC_004684.1 + 18069 0.66 0.692758
Target:  5'- gCCCGGUGCCGaccacGGacUCgAUCuucuCGGUGGc -3'
miRNA:   3'- -GGGCCACGGC-----CC--AG-UAGcau-GCCACC- -5'
19110 3' -57.9 NC_004684.1 + 2849 0.66 0.686593
Target:  5'- aCCCGGUcaccaaggccgccgaGCCgcugGGcGUCAUCGgUGCcuGGUGGc -3'
miRNA:   3'- -GGGCCA---------------CGG----CC-CAGUAGC-AUG--CCACC- -5'
19110 3' -57.9 NC_004684.1 + 49223 0.66 0.682474
Target:  5'- gUCGGUGCCGGGcCGggCGU-CGGc-- -3'
miRNA:   3'- gGGCCACGGCCCaGUa-GCAuGCCacc -5'
19110 3' -57.9 NC_004684.1 + 36333 0.66 0.682474
Target:  5'- gCCGGUGCCGcaGUgGgUGUACGGcaUGGu -3'
miRNA:   3'- gGGCCACGGCc-CAgUaGCAUGCC--ACC- -5'
19110 3' -57.9 NC_004684.1 + 53732 0.66 0.682474
Target:  5'- -aUGGUGCCGGGU--UCG-ACGGccaGGa -3'
miRNA:   3'- ggGCCACGGCCCAguAGCaUGCCa--CC- -5'
19110 3' -57.9 NC_004684.1 + 4282 0.66 0.679379
Target:  5'- aCCCGGagacaaugccGCCGGGUCGcCGUaauguagugcuugcACGGcGGc -3'
miRNA:   3'- -GGGCCa---------CGGCCCAGUaGCA--------------UGCCaCC- -5'
19110 3' -57.9 NC_004684.1 + 63027 0.66 0.672146
Target:  5'- cUCCGGgGUCGagaaGUCGUCGgagaccucaGCGGUGGg -3'
miRNA:   3'- -GGGCCaCGGCc---CAGUAGCa--------UGCCACC- -5'
19110 3' -57.9 NC_004684.1 + 16786 0.67 0.661785
Target:  5'- aCCaGGUG-CGGcG-CGUCGUGUGGUGGg -3'
miRNA:   3'- gGG-CCACgGCC-CaGUAGCAUGCCACC- -5'
19110 3' -57.9 NC_004684.1 + 42638 0.67 0.6514
Target:  5'- gCCGGUGCUGGuGcCGccagCGaugagcGCGGUGGa -3'
miRNA:   3'- gGGCCACGGCC-CaGUa---GCa-----UGCCACC- -5'
19110 3' -57.9 NC_004684.1 + 5968 0.67 0.6514
Target:  5'- gCCGGUGUCccguauuguGGUCAU-GUACGGcGGg -3'
miRNA:   3'- gGGCCACGGc--------CCAGUAgCAUGCCaCC- -5'
19110 3' -57.9 NC_004684.1 + 59308 0.67 0.6514
Target:  5'- gCCGGUGUCGGG--GUCGaugGCGcUGGc -3'
miRNA:   3'- gGGCCACGGCCCagUAGCa--UGCcACC- -5'
19110 3' -57.9 NC_004684.1 + 40508 0.67 0.640998
Target:  5'- aCCUGGUugacgcgcacGCCcaGGUUGUCG-GCGGUGGc -3'
miRNA:   3'- -GGGCCA----------CGGc-CCAGUAGCaUGCCACC- -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.