miRNA display CGI


Results 1 - 20 of 52 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
12346 5' -59.3 NC_003324.1 + 15057 0.66 0.560945
Target:  5'- ---cUGCGCauagguGCCGACGuGAUG-CCCg -3'
miRNA:   3'- cguaGCGCGg-----CGGCUGCuCUACcGGG- -5'
12346 5' -59.3 NC_003324.1 + 50194 0.66 0.560945
Target:  5'- gGCAUgGCGCCGCUGAuaucUGGGGUaGUUUg -3'
miRNA:   3'- -CGUAgCGCGGCGGCU----GCUCUAcCGGG- -5'
12346 5' -59.3 NC_003324.1 + 20006 0.66 0.550581
Target:  5'- cCAUCagccagGUGuuGCUGugGAGcuccGUGGCCUg -3'
miRNA:   3'- cGUAG------CGCggCGGCugCUC----UACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 30057 0.66 0.540275
Target:  5'- cCAUCaCGCCGCCGGuCGcGAcaccGGCCg -3'
miRNA:   3'- cGUAGcGCGGCGGCU-GCuCUa---CCGGg -5'
12346 5' -59.3 NC_003324.1 + 29643 0.66 0.540275
Target:  5'- cGCAaCGcCGCCGCCuGAgcCGGGAUcGaGUCCg -3'
miRNA:   3'- -CGUaGC-GCGGCGG-CU--GCUCUA-C-CGGG- -5'
12346 5' -59.3 NC_003324.1 + 1605 0.66 0.538222
Target:  5'- cGCcgCGCaccacuGCCGCCGGauccucgcUGGCCCg -3'
miRNA:   3'- -CGuaGCG------CGGCGGCUgcucu---ACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 29454 0.66 0.530036
Target:  5'- cCGUUGuCGUCaCCGACGAGGgcaaGCCCu -3'
miRNA:   3'- cGUAGC-GCGGcGGCUGCUCUac--CGGG- -5'
12346 5' -59.3 NC_003324.1 + 21397 0.66 0.526978
Target:  5'- ---aCGCGCgaaaucgaggauauCGCCGGCGAGgcGGCg- -3'
miRNA:   3'- cguaGCGCG--------------GCGGCUGCUCuaCCGgg -5'
12346 5' -59.3 NC_003324.1 + 31654 0.66 0.519869
Target:  5'- gGCG-CGCcggagaaguuGCCGCCGuuccaucCGAGAUcGGCCg -3'
miRNA:   3'- -CGUaGCG----------CGGCGGCu------GCUCUA-CCGGg -5'
12346 5' -59.3 NC_003324.1 + 38930 0.66 0.519869
Target:  5'- uGCAuuUCGCGagcuggugggaCGCCGACGAauacgccAUGGaCCCg -3'
miRNA:   3'- -CGU--AGCGCg----------GCGGCUGCUc------UACC-GGG- -5'
12346 5' -59.3 NC_003324.1 + 18267 0.66 0.509779
Target:  5'- ---cCGCGaCCGCUGACGGaAUcGGCCg -3'
miRNA:   3'- cguaGCGC-GGCGGCUGCUcUA-CCGGg -5'
12346 5' -59.3 NC_003324.1 + 50446 0.66 0.506768
Target:  5'- uGCAgcUCGCaggGCUGCgCGAUccggagggcgaagaGuGAUGGCCCa -3'
miRNA:   3'- -CGU--AGCG---CGGCG-GCUG--------------CuCUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 54135 0.67 0.489853
Target:  5'- gGCGccUGCGCauugGCuCGACGGGAgcUGGCCg -3'
miRNA:   3'- -CGUa-GCGCGg---CG-GCUGCUCU--ACCGGg -5'
12346 5' -59.3 NC_003324.1 + 49124 0.67 0.488866
Target:  5'- -gAUUGCcccGCCGCCG-CGGGAgaggugagaagcaUGGCCg -3'
miRNA:   3'- cgUAGCG---CGGCGGCuGCUCU-------------ACCGGg -5'
12346 5' -59.3 NC_003324.1 + 42786 0.67 0.488866
Target:  5'- cGCAUCGUccgaugggaugauGCCucGCCaGCGGuugccgguccuGGUGGCCCg -3'
miRNA:   3'- -CGUAGCG-------------CGG--CGGcUGCU-----------CUACCGGG- -5'
12346 5' -59.3 NC_003324.1 + 42126 0.67 0.483946
Target:  5'- uCGUCGCcaauGCCGCCG-CGGGGaucagcaacagaccaUGGgCCg -3'
miRNA:   3'- cGUAGCG----CGGCGGCuGCUCU---------------ACCgGG- -5'
12346 5' -59.3 NC_003324.1 + 30480 0.67 0.480026
Target:  5'- -aAUCgGCGCCGCCGAgca---GGCCCu -3'
miRNA:   3'- cgUAG-CGCGGCGGCUgcucuaCCGGG- -5'
12346 5' -59.3 NC_003324.1 + 3176 0.67 0.474177
Target:  5'- gGCAcCGCGCCGaugaaugggauugcuUUGAUGAGuggcaGGCCCu -3'
miRNA:   3'- -CGUaGCGCGGC---------------GGCUGCUCua---CCGGG- -5'
12346 5' -59.3 NC_003324.1 + 4531 0.67 0.470298
Target:  5'- -gAUCGaCGCCaCCGACaAGAUGaGCCg -3'
miRNA:   3'- cgUAGC-GCGGcGGCUGcUCUAC-CGGg -5'
12346 5' -59.3 NC_003324.1 + 4575 0.67 0.46067
Target:  5'- -aGUCGCGUCGCCGcCGuagaGGAUGugaGCCg -3'
miRNA:   3'- cgUAGCGCGGCGGCuGC----UCUAC---CGGg -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.