miRNA display CGI


Results 1 - 20 of 47 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
28543 5' -52.6 NC_005946.1 + 2096 0.66 0.948906
Target:  5'- uGCCcu---GCGCGGCUGACGucggAGAGCUa -3'
miRNA:   3'- -CGGacuccUGCGUCGACUGU----UUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 9069 0.72 0.67757
Target:  5'- gGCCUGGGGACccuGCGGgaGGUAGAGGUUa -3'
miRNA:   3'- -CGGACUCCUG---CGUCgaCUGUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 9183 0.67 0.904928
Target:  5'- gGCUcaUGAGGugGCAGCccaGCAc--GCCg -3'
miRNA:   3'- -CGG--ACUCCugCGUCGac-UGUuuuCGG- -5'
28543 5' -52.6 NC_005946.1 + 12806 0.68 0.869019
Target:  5'- gGCC-GAGG-UGaCGGCUGGCAGGAGgUa -3'
miRNA:   3'- -CGGaCUCCuGC-GUCGACUGUUUUCgG- -5'
28543 5' -52.6 NC_005946.1 + 12887 0.66 0.954884
Target:  5'- gGCCgcgGAGGcCGUGGCUcaggugaggcuggacGGCGGAGGUg -3'
miRNA:   3'- -CGGa--CUCCuGCGUCGA---------------CUGUUUUCGg -5'
28543 5' -52.6 NC_005946.1 + 13670 0.72 0.67757
Target:  5'- uGCCagacagGAGGugGggauCGGCUG-CGGAGGCCa -3'
miRNA:   3'- -CGGa-----CUCCugC----GUCGACuGUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 14582 0.74 0.580924
Target:  5'- aGCCUGGcgucGGACGUuGCcaUGAgGAGGGCCg -3'
miRNA:   3'- -CGGACU----CCUGCGuCG--ACUgUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 14645 0.66 0.944329
Target:  5'- aGCCgGGGGGa--GGCcGACAAGGGCa -3'
miRNA:   3'- -CGGaCUCCUgcgUCGaCUGUUUUCGg -5'
28543 5' -52.6 NC_005946.1 + 19875 0.68 0.890607
Target:  5'- uGCCUGAGuGCGUggacauuGGCgUGAgGAcGGCCg -3'
miRNA:   3'- -CGGACUCcUGCG-------UCG-ACUgUUuUCGG- -5'
28543 5' -52.6 NC_005946.1 + 20817 0.67 0.910717
Target:  5'- aGCCUGGacucucuGGACGUcaagaAGCUcGACAGgcuccuggagcAGGCCu -3'
miRNA:   3'- -CGGACU-------CCUGCG-----UCGA-CUGUU-----------UUCGG- -5'
28543 5' -52.6 NC_005946.1 + 20855 0.74 0.591613
Target:  5'- cCCUGAGGGCaaaGGCUGcgGCAGAcGCCg -3'
miRNA:   3'- cGGACUCCUGcg-UCGAC--UGUUUuCGG- -5'
28543 5' -52.6 NC_005946.1 + 21306 0.67 0.923397
Target:  5'- gGCC-GAGGAgGCcggcaAGCUGucCGAGauGGCCg -3'
miRNA:   3'- -CGGaCUCCUgCG-----UCGACu-GUUU--UCGG- -5'
28543 5' -52.6 NC_005946.1 + 23797 0.66 0.934391
Target:  5'- gGUCUGgaGGGACuGCAGgcccaggaggauCUGcGCGAGGGCCg -3'
miRNA:   3'- -CGGAC--UCCUG-CGUC------------GAC-UGUUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 24356 0.7 0.809111
Target:  5'- aGCCUGuGGAaGCcgGGCUGG--GAGGCCc -3'
miRNA:   3'- -CGGACuCCUgCG--UCGACUguUUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 31973 0.7 0.809111
Target:  5'- uGCCUGAGGACcauGgGGgUGAUGAGAuCCa -3'
miRNA:   3'- -CGGACUCCUG---CgUCgACUGUUUUcGG- -5'
28543 5' -52.6 NC_005946.1 + 34480 0.66 0.948906
Target:  5'- uGCCcGAGGACGU-GUaGGCGuGAGCa -3'
miRNA:   3'- -CGGaCUCCUGCGuCGaCUGUuUUCGg -5'
28543 5' -52.6 NC_005946.1 + 35892 0.66 0.934391
Target:  5'- uCCUGAGGAUgcaagacaccagGCAGCaGAUGucguGCCa -3'
miRNA:   3'- cGGACUCCUG------------CGUCGaCUGUuuu-CGG- -5'
28543 5' -52.6 NC_005946.1 + 36235 0.7 0.809111
Target:  5'- gGCCUuGAGGACGgaAGa-GACAcAAGCCc -3'
miRNA:   3'- -CGGA-CUCCUGCg-UCgaCUGUuUUCGG- -5'
28543 5' -52.6 NC_005946.1 + 39832 0.66 0.944329
Target:  5'- gGCuCUGGcuauGGcCGCGGCUG-CGGcGGCCu -3'
miRNA:   3'- -CG-GACU----CCuGCGUCGACuGUUuUCGG- -5'
28543 5' -52.6 NC_005946.1 + 44802 0.74 0.549132
Target:  5'- aGCagGAGGGCGCuGUUGGCGuugGGGGCCa -3'
miRNA:   3'- -CGgaCUCCUGCGuCGACUGU---UUUCGG- -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.