miRNA display CGI


Results 1 - 20 of 58 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
30210 5' -61.6 NC_006273.1 + 200833 0.66 0.800929
Target:  5'- cUCGCUGuCUGGGCCgcgcuucgaGGCGUGCc--- -3'
miRNA:   3'- -GGCGGU-GACCCGGag-------CCGCACGaguc -5'
30210 5' -61.6 NC_006273.1 + 101567 0.66 0.800929
Target:  5'- gCGCgAC-GGGCg-CGGCGUucgcgcucGCUCAGg -3'
miRNA:   3'- gGCGgUGaCCCGgaGCCGCA--------CGAGUC- -5'
30210 5' -61.6 NC_006273.1 + 13200 0.66 0.792517
Target:  5'- cCCGCUAC-GGGCCcgugCGGCGUuacaGCgUCuGg -3'
miRNA:   3'- -GGCGGUGaCCCGGa---GCCGCA----CG-AGuC- -5'
30210 5' -61.6 NC_006273.1 + 141070 0.66 0.792517
Target:  5'- aCCGgCGCcGGGCCUCGGCcGgggagGgUgGGg -3'
miRNA:   3'- -GGCgGUGaCCCGGAGCCG-Ca----CgAgUC- -5'
30210 5' -61.6 NC_006273.1 + 193979 0.66 0.783978
Target:  5'- cUCGCC-CUGGGCUccgaCGGCGccguUGCcCGGg -3'
miRNA:   3'- -GGCGGuGACCCGGa---GCCGC----ACGaGUC- -5'
30210 5' -61.6 NC_006273.1 + 29934 0.66 0.783978
Target:  5'- cUCGCCuagACUuugcGGGCCUCGGCuugGCUaCAc -3'
miRNA:   3'- -GGCGG---UGA----CCCGGAGCCGca-CGA-GUc -5'
30210 5' -61.6 NC_006273.1 + 73730 0.66 0.783978
Target:  5'- cCCGCCGCcaUGGGUggCGGCGgcgGC-CGa -3'
miRNA:   3'- -GGCGGUG--ACCCGgaGCCGCa--CGaGUc -5'
30210 5' -61.6 NC_006273.1 + 99293 0.66 0.775319
Target:  5'- aUCGCCGCccacGGcGuCCUCGGCGUcgUCGGa -3'
miRNA:   3'- -GGCGGUGa---CC-C-GGAGCCGCAcgAGUC- -5'
30210 5' -61.6 NC_006273.1 + 94239 0.66 0.775319
Target:  5'- uCCGCgGCaGGGUUcCGGCcGUGCUgCGGu -3'
miRNA:   3'- -GGCGgUGaCCCGGaGCCG-CACGA-GUC- -5'
30210 5' -61.6 NC_006273.1 + 70381 0.66 0.775319
Target:  5'- aCCGCCcuagacuacgcGCUGGGCUccuggcuuuUCGGCauacccguGUGuCUCGGc -3'
miRNA:   3'- -GGCGG-----------UGACCCGG---------AGCCG--------CAC-GAGUC- -5'
30210 5' -61.6 NC_006273.1 + 163440 0.66 0.775319
Target:  5'- -aGCCguGCUGGGCCUCaacGCG-GCUUg- -3'
miRNA:   3'- ggCGG--UGACCCGGAGc--CGCaCGAGuc -5'
30210 5' -61.6 NC_006273.1 + 142806 0.66 0.76655
Target:  5'- gCCGUCGCuggUGGGCacgGGCGUGCaccgCGGu -3'
miRNA:   3'- -GGCGGUG---ACCCGgagCCGCACGa---GUC- -5'
30210 5' -61.6 NC_006273.1 + 197181 0.66 0.757676
Target:  5'- uCCGCCGuCUccggaugaGcGGCCgCGGCGcggGCUCGGc -3'
miRNA:   3'- -GGCGGU-GA--------C-CCGGaGCCGCa--CGAGUC- -5'
30210 5' -61.6 NC_006273.1 + 23619 0.66 0.757676
Target:  5'- gCCGCCGagcccGGGCCUgcucaccauuuaUaGCGUGCUCAc -3'
miRNA:   3'- -GGCGGUga---CCCGGA------------GcCGCACGAGUc -5'
30210 5' -61.6 NC_006273.1 + 21706 0.67 0.748706
Target:  5'- gUCGCCGCa-GGCCuuugUCGGCGcgGCUCu- -3'
miRNA:   3'- -GGCGGUGacCCGG----AGCCGCa-CGAGuc -5'
30210 5' -61.6 NC_006273.1 + 139712 0.67 0.739646
Target:  5'- gUCGUCcCUGuGGugucgucuuCCUCGGCGUcagGCUCAGa -3'
miRNA:   3'- -GGCGGuGAC-CC---------GGAGCCGCA---CGAGUC- -5'
30210 5' -61.6 NC_006273.1 + 191807 0.67 0.739646
Target:  5'- gCGCCGC-GGcacuuGCCUaCGGCGcUGCUcCAGg -3'
miRNA:   3'- gGCGGUGaCC-----CGGA-GCCGC-ACGA-GUC- -5'
30210 5' -61.6 NC_006273.1 + 33417 0.67 0.730504
Target:  5'- aCCGCCuc-GGGCgUCGGCG-GCgcgCGa -3'
miRNA:   3'- -GGCGGugaCCCGgAGCCGCaCGa--GUc -5'
30210 5' -61.6 NC_006273.1 + 91976 0.67 0.730504
Target:  5'- gCGCgGCa-GGCCgcgcCGGCGUGCUUAa -3'
miRNA:   3'- gGCGgUGacCCGGa---GCCGCACGAGUc -5'
30210 5' -61.6 NC_006273.1 + 21848 0.67 0.721288
Target:  5'- aCGgCGCUGGGaCUUUGGC-UGCUgCGGg -3'
miRNA:   3'- gGCgGUGACCC-GGAGCCGcACGA-GUC- -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.