miRNA display CGI


Results 1 - 20 of 43 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
20553 3' -65.5 NC_004688.1 + 39067 0.66 0.41943
Target:  5'- ---cCGgCCGcCUCCUCCGCCGCCcGCa -3'
miRNA:   3'- ucgcGCgGGCuGAGGGGGCGGUGG-UG- -5'
20553 3' -65.5 NC_004688.1 + 49855 0.69 0.266507
Target:  5'- gGGCGCGCCgccgGACUCCCCUa-CAUCAUc -3'
miRNA:   3'- -UCGCGCGGg---CUGAGGGGGcgGUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 36051 0.69 0.266507
Target:  5'- gGGUGaCGCCaaACUCCUCCuugggGCCACCAUa -3'
miRNA:   3'- -UCGC-GCGGgcUGAGGGGG-----CGGUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 35405 0.69 0.278903
Target:  5'- uGGCGCuaCCGACaccagCCCCgGCCGacgaCACu -3'
miRNA:   3'- -UCGCGcgGGCUGa----GGGGgCGGUg---GUG- -5'
20553 3' -65.5 NC_004688.1 + 79078 0.68 0.285272
Target:  5'- cGGUGCccgcCCCGACcgCCUCCGCCAUCc- -3'
miRNA:   3'- -UCGCGc---GGGCUGa-GGGGGCGGUGGug -5'
20553 3' -65.5 NC_004688.1 + 47385 0.68 0.285272
Target:  5'- gAGCGCagacaucuacGCCCauuuggcgGACgUCCCCCacgacgugggcGCCGCCGCa -3'
miRNA:   3'- -UCGCG----------CGGG--------CUG-AGGGGG-----------CGGUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 38644 0.68 0.291754
Target:  5'- uGGUa-GCCCGcACcgCCCCCGCCuccGCCACc -3'
miRNA:   3'- -UCGcgCGGGC-UGa-GGGGGCGG---UGGUG- -5'
20553 3' -65.5 NC_004688.1 + 46760 0.68 0.291754
Target:  5'- cGCGggauCGCCCGGCgggCCCUgauCGCCGgCGCg -3'
miRNA:   3'- uCGC----GCGGGCUGa--GGGG---GCGGUgGUG- -5'
20553 3' -65.5 NC_004688.1 + 14297 0.68 0.298351
Target:  5'- gAGCcgauGCGCCCcaaUCCCCCGCCGgCuCg -3'
miRNA:   3'- -UCG----CGCGGGcugAGGGGGCGGUgGuG- -5'
20553 3' -65.5 NC_004688.1 + 35477 0.69 0.248754
Target:  5'- gGGCugaGCCCGcGCggUCCCaCGCCACCACc -3'
miRNA:   3'- -UCGcg-CGGGC-UGa-GGGG-GCGGUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 38709 0.7 0.21979
Target:  5'- cGCGgGgaaucuuugccccaCCCG-CUCCgCCGCCGCCGCc -3'
miRNA:   3'- uCGCgC--------------GGGCuGAGGgGGCGGUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 27774 0.7 0.211128
Target:  5'- gGGCcCGCCCGACUCCCCguCGaCAUCGa -3'
miRNA:   3'- -UCGcGCGGGCUGAGGGG--GCgGUGGUg -5'
20553 3' -65.5 NC_004688.1 + 85253 0.75 0.098263
Target:  5'- cAGCGcCGCCUGGugcucuuuCUCCUCCGCCuCCGCg -3'
miRNA:   3'- -UCGC-GCGGGCU--------GAGGGGGCGGuGGUG- -5'
20553 3' -65.5 NC_004688.1 + 87656 0.73 0.136257
Target:  5'- uGCGCGCCCGAa-CCacggucggucggCCCGCgCGCCACc -3'
miRNA:   3'- uCGCGCGGGCUgaGG------------GGGCG-GUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 73436 0.73 0.146772
Target:  5'- uGCGCGCCgucccCGACUCCaCCCuGuCCACCGa -3'
miRNA:   3'- uCGCGCGG-----GCUGAGG-GGG-C-GGUGGUg -5'
20553 3' -65.5 NC_004688.1 + 29711 0.72 0.150438
Target:  5'- cAGCGggucguUGCCCGGCUggggaucaCCCgGCCGCCACa -3'
miRNA:   3'- -UCGC------GCGGGCUGAg-------GGGgCGGUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 15884 0.72 0.158021
Target:  5'- uGCGCGUCCGACacccagggcaUCCUCGCCcGCCGCa -3'
miRNA:   3'- uCGCGCGGGCUGa---------GGGGGCGG-UGGUG- -5'
20553 3' -65.5 NC_004688.1 + 64635 0.72 0.16194
Target:  5'- gGGUGuCGCCCGGCUCCaugacauuCCCGa-GCCACg -3'
miRNA:   3'- -UCGC-GCGGGCUGAGG--------GGGCggUGGUG- -5'
20553 3' -65.5 NC_004688.1 + 94015 0.72 0.165947
Target:  5'- cGUG-GCCgGAUucaUCCCCCGCCACCu- -3'
miRNA:   3'- uCGCgCGGgCUG---AGGGGGCGGUGGug -5'
20553 3' -65.5 NC_004688.1 + 93902 0.72 0.170043
Target:  5'- uGCGCGCCagGGCcagCCCCCGgcgcaUCACCGCu -3'
miRNA:   3'- uCGCGCGGg-CUGa--GGGGGC-----GGUGGUG- -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.