miRNA display CGI


Results 1 - 20 of 24 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
29396 3' -58.8 NC_006151.1 + 115554 0.66 0.764441
Target:  5'- cGGCgUACUCGCccgCGGGcGGGCGCG-CGGg -3'
miRNA:   3'- -CUG-GUGAGCGa--GCCC-CUCGUGCaGUU- -5'
29396 3' -58.8 NC_006151.1 + 134971 0.66 0.764441
Target:  5'- cGGCCAgcCUCcgggccuuCUCGGGcGGGCGCGUCu- -3'
miRNA:   3'- -CUGGU--GAGc-------GAGCCC-CUCGUGCAGuu -5'
29396 3' -58.8 NC_006151.1 + 99039 0.66 0.754951
Target:  5'- cGGCC-CUCGCgcaCGGGGAcgcGUACGUg-- -3'
miRNA:   3'- -CUGGuGAGCGa--GCCCCU---CGUGCAguu -5'
29396 3' -58.8 NC_006151.1 + 121189 0.66 0.754951
Target:  5'- uGCUGCacgCGCUCGGGGcgcGCACG-CAGc -3'
miRNA:   3'- cUGGUGa--GCGAGCCCCu--CGUGCaGUU- -5'
29396 3' -58.8 NC_006151.1 + 64760 0.66 0.745353
Target:  5'- gGGCCAC-CGUgcgCGGGG-GCugGUUg- -3'
miRNA:   3'- -CUGGUGaGCGa--GCCCCuCGugCAGuu -5'
29396 3' -58.8 NC_006151.1 + 55461 0.66 0.745353
Target:  5'- cGGCC-C-CGC-CGGGGGGCGCG-CGc -3'
miRNA:   3'- -CUGGuGaGCGaGCCCCUCGUGCaGUu -5'
29396 3' -58.8 NC_006151.1 + 114441 0.67 0.715016
Target:  5'- gGACCGCcUGCUCGGGGccuGCGCcggccaccgcaucGUCGc -3'
miRNA:   3'- -CUGGUGaGCGAGCCCCu--CGUG-------------CAGUu -5'
29396 3' -58.8 NC_006151.1 + 26355 0.67 0.696072
Target:  5'- cGGCgGCgggcCGCgUCGGGGcGCGCGUCc- -3'
miRNA:   3'- -CUGgUGa---GCG-AGCCCCuCGUGCAGuu -5'
29396 3' -58.8 NC_006151.1 + 17313 0.67 0.675926
Target:  5'- aGCCGuC-CGC-CGGGGGGCgccGCGUCAGc -3'
miRNA:   3'- cUGGU-GaGCGaGCCCCUCG---UGCAGUU- -5'
29396 3' -58.8 NC_006151.1 + 29119 0.68 0.645461
Target:  5'- gGACCGCaUCGCgggccgggaagUCGcGGGAGCGCG-CGu -3'
miRNA:   3'- -CUGGUG-AGCG-----------AGC-CCCUCGUGCaGUu -5'
29396 3' -58.8 NC_006151.1 + 37336 0.68 0.645461
Target:  5'- gGGCCGCUgcucacccCGCUCGGGGAGCcCu---- -3'
miRNA:   3'- -CUGGUGA--------GCGAGCCCCUCGuGcaguu -5'
29396 3' -58.8 NC_006151.1 + 69164 0.68 0.635274
Target:  5'- uGCCGCUCGCacuccUCGGcGAGCACG-CGc -3'
miRNA:   3'- cUGGUGAGCG-----AGCCcCUCGUGCaGUu -5'
29396 3' -58.8 NC_006151.1 + 122946 0.69 0.604729
Target:  5'- cGACgGCggCGCcgCGGGGGGCGCGg--- -3'
miRNA:   3'- -CUGgUGa-GCGa-GCCCCUCGUGCaguu -5'
29396 3' -58.8 NC_006151.1 + 59651 0.69 0.584454
Target:  5'- aGACgCGCUCGCugcgcagcgccUCGGGGAcGCGCGcgCAc -3'
miRNA:   3'- -CUG-GUGAGCG-----------AGCCCCU-CGUGCa-GUu -5'
29396 3' -58.8 NC_006151.1 + 111110 0.69 0.554314
Target:  5'- uGAUgGCUCGg-CGGGGAGCGCG-CGu -3'
miRNA:   3'- -CUGgUGAGCgaGCCCCUCGUGCaGUu -5'
29396 3' -58.8 NC_006151.1 + 111841 0.7 0.544365
Target:  5'- aGACgCAC-CGCgUCGGGGGGCGC-UCGGg -3'
miRNA:   3'- -CUG-GUGaGCG-AGCCCCUCGUGcAGUU- -5'
29396 3' -58.8 NC_006151.1 + 67018 0.71 0.439881
Target:  5'- uGGCCACggugcUGCUCGGGGAcCACGcCGAg -3'
miRNA:   3'- -CUGGUGa----GCGAGCCCCUcGUGCaGUU- -5'
29396 3' -58.8 NC_006151.1 + 125471 0.72 0.413386
Target:  5'- uGGCCACggccgCGCUCGGccAGCGCGUCu- -3'
miRNA:   3'- -CUGGUGa----GCGAGCCccUCGUGCAGuu -5'
29396 3' -58.8 NC_006151.1 + 103556 0.73 0.379635
Target:  5'- gGGCaGC-CGCUCGGGGcGCugGUCAAc -3'
miRNA:   3'- -CUGgUGaGCGAGCCCCuCGugCAGUU- -5'
29396 3' -58.8 NC_006151.1 + 71625 0.73 0.355562
Target:  5'- cGGCCuuCUCGCcgggggggacggUCGGGGGGC-CGUCGAa -3'
miRNA:   3'- -CUGGu-GAGCG------------AGCCCCUCGuGCAGUU- -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.