miRNA display CGI


Results 1 - 20 of 60 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
17010 3' -54.1 NC_004333.2 + 40569 1.09 0.000986
Target:  5'- gACGCAAUCGCAGGGCAUCAUCACGCAg -3'
miRNA:   3'- -UGCGUUAGCGUCCCGUAGUAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 6620 0.78 0.16051
Target:  5'- cCGCAGUCGCAGGuaAUCAacucgaUCGCGCu -3'
miRNA:   3'- uGCGUUAGCGUCCcgUAGU------AGUGCGu -5'
17010 3' -54.1 NC_004333.2 + 2796 0.77 0.179564
Target:  5'- -aGCGGUugCGCAGGGCAUCGU-ACGCGa -3'
miRNA:   3'- ugCGUUA--GCGUCCCGUAGUAgUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 25531 0.76 0.20618
Target:  5'- cGCGCAugGUUGCcuGGGCGUCAUCauccaGCGCAc -3'
miRNA:   3'- -UGCGU--UAGCGu-CCCGUAGUAG-----UGCGU- -5'
17010 3' -54.1 NC_004333.2 + 18045 0.75 0.240617
Target:  5'- gGCGgcCAAggcgCGCAGGGCAUCuuccaguugcgcggGUCGCGCAu -3'
miRNA:   3'- -UGC--GUUa---GCGUCCCGUAG--------------UAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 22964 0.73 0.339484
Target:  5'- -gGCAgcGUCGC-GGGCGUCgacgucgaGUCGCGCAg -3'
miRNA:   3'- ugCGU--UAGCGuCCCGUAG--------UAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 19130 0.72 0.37447
Target:  5'- gGCGCGAUCGU-GGGCGgcgCGgugcUCGCGCu -3'
miRNA:   3'- -UGCGUUAGCGuCCCGUa--GU----AGUGCGu -5'
17010 3' -54.1 NC_004333.2 + 16547 0.72 0.37447
Target:  5'- gGCGCAAcUGCccGGCGUCcGUCACGCu -3'
miRNA:   3'- -UGCGUUaGCGucCCGUAG-UAGUGCGu -5'
17010 3' -54.1 NC_004333.2 + 25633 0.72 0.383589
Target:  5'- cGCGCGcucGUCGCucGGCAaCAUCACGUu -3'
miRNA:   3'- -UGCGU---UAGCGucCCGUaGUAGUGCGu -5'
17010 3' -54.1 NC_004333.2 + 22008 0.71 0.392855
Target:  5'- gGCGCGAaucagCGCGcGGGCGUUuucucgacgcagAUCACGCGg -3'
miRNA:   3'- -UGCGUUa----GCGU-CCCGUAG------------UAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 18806 0.71 0.396602
Target:  5'- cGCGCGGcCGCAGGGCG-CGUgcugcuaucgaagccCGCGCGg -3'
miRNA:   3'- -UGCGUUaGCGUCCCGUaGUA---------------GUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 11890 0.71 0.421509
Target:  5'- gGCGCGuAUCGCAuGGcGCAggaCGUCGCGUg -3'
miRNA:   3'- -UGCGU-UAGCGU-CC-CGUa--GUAGUGCGu -5'
17010 3' -54.1 NC_004333.2 + 22258 0.71 0.430347
Target:  5'- cGCGCAAUagcuacgugcaagCGCAGGGCggCGaaGCGCGg -3'
miRNA:   3'- -UGCGUUA-------------GCGUCCCGuaGUagUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 10813 0.7 0.451385
Target:  5'- cGCGCGA-CGCGGuGCA-CGUCGCGUAg -3'
miRNA:   3'- -UGCGUUaGCGUCcCGUaGUAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 28775 0.7 0.461599
Target:  5'- cGCGCgGGUCGCGGcGGCGcgacuuccCAUCGCGUAu -3'
miRNA:   3'- -UGCG-UUAGCGUC-CCGUa-------GUAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 14772 0.7 0.492946
Target:  5'- cGCGCAGUCGCugcgccgcaGGCAUCGccguUCuACGCGa -3'
miRNA:   3'- -UGCGUUAGCGuc-------CCGUAGU----AG-UGCGU- -5'
17010 3' -54.1 NC_004333.2 + 40322 0.69 0.515459
Target:  5'- aGCGCGAgcuggaaauggccggCGCAGGccGCGUCgAUCugGCGa -3'
miRNA:   3'- -UGCGUUa--------------GCGUCC--CGUAG-UAGugCGU- -5'
17010 3' -54.1 NC_004333.2 + 17044 0.69 0.525235
Target:  5'- gAUGCAuUCGCcGGGC-UCG-CGCGCGa -3'
miRNA:   3'- -UGCGUuAGCGuCCCGuAGUaGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 30919 0.69 0.536178
Target:  5'- -gGCAAUCuGCAGcGCGUCcUCAUGCGc -3'
miRNA:   3'- ugCGUUAG-CGUCcCGUAGuAGUGCGU- -5'
17010 3' -54.1 NC_004333.2 + 36317 0.69 0.536178
Target:  5'- -aGUAGUCGCcGGGCGUCG-CAuCGCc -3'
miRNA:   3'- ugCGUUAGCGuCCCGUAGUaGU-GCGu -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.