miRNA display CGI


Results 1 - 20 of 246 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
25531 5' -54.2 NC_005337.1 + 55959 0.66 0.941458
Target:  5'- -uGCAGCUUGGCGcggGCCaccuccccaGCcuggaguacGGCGCCAa -3'
miRNA:   3'- cgUGUCGAACUGCa--UGG---------CG---------UCGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 52585 0.66 0.941458
Target:  5'- gGCGCGGCggcgcUGGCG-GCCaaGCAGaGCCAg -3'
miRNA:   3'- -CGUGUCGa----ACUGCaUGG--CGUCgUGGU- -5'
25531 5' -54.2 NC_005337.1 + 107893 0.66 0.941458
Target:  5'- cCGCAGUcgGugGUcuucgaguACCGCgcgAGCACCu -3'
miRNA:   3'- cGUGUCGaaCugCA--------UGGCG---UCGUGGu -5'
25531 5' -54.2 NC_005337.1 + 125982 0.66 0.941458
Target:  5'- cGCGCGGCUgcaGACc--CCGCuGCACg- -3'
miRNA:   3'- -CGUGUCGAa--CUGcauGGCGuCGUGgu -5'
25531 5' -54.2 NC_005337.1 + 56404 0.66 0.941458
Target:  5'- cCACcgAGC-UGAUGUACCuGCugGGCACCu -3'
miRNA:   3'- cGUG--UCGaACUGCAUGG-CG--UCGUGGu -5'
25531 5' -54.2 NC_005337.1 + 109083 0.66 0.941458
Target:  5'- cGCGCGaugccGCUggaGugGUucacgcucaGCCGCGuGCACCAc -3'
miRNA:   3'- -CGUGU-----CGAa--CugCA---------UGGCGU-CGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 77366 0.66 0.941458
Target:  5'- aGC-CGGCUUGACGaagACCaggaaGUugaauGGCGCCAg -3'
miRNA:   3'- -CGuGUCGAACUGCa--UGG-----CG-----UCGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 29066 0.66 0.941458
Target:  5'- cGCGCAGCUcaGCGgcccccagGCCGCGG-ACCc -3'
miRNA:   3'- -CGUGUCGAacUGCa-------UGGCGUCgUGGu -5'
25531 5' -54.2 NC_005337.1 + 71269 0.66 0.941458
Target:  5'- cGCACAGCaUGGCcu-CCGUcuucaGGCGCUg -3'
miRNA:   3'- -CGUGUCGaACUGcauGGCG-----UCGUGGu -5'
25531 5' -54.2 NC_005337.1 + 81587 0.66 0.940503
Target:  5'- cGCGaAGCgcgUGACGguggucacguuCCGCAGCcCCAu -3'
miRNA:   3'- -CGUgUCGa--ACUGCau---------GGCGUCGuGGU- -5'
25531 5' -54.2 NC_005337.1 + 10389 0.66 0.937083
Target:  5'- aCGCAGCUggugcucgggcugugGAgGUGCgGCuGCGCCc -3'
miRNA:   3'- cGUGUCGAa--------------CUgCAUGgCGuCGUGGu -5'
25531 5' -54.2 NC_005337.1 + 54221 0.66 0.936584
Target:  5'- gGCGCGGaugacaGCGU-CCGCcGCGCCAg -3'
miRNA:   3'- -CGUGUCgaac--UGCAuGGCGuCGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 115994 0.66 0.936584
Target:  5'- uGCACAucgcGCUgGGCGUGCgGCu-CACCGa -3'
miRNA:   3'- -CGUGU----CGAaCUGCAUGgCGucGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 95789 0.66 0.936584
Target:  5'- gGC-CAGCUcGGCG-ACgCGCGGC-CCGg -3'
miRNA:   3'- -CGuGUCGAaCUGCaUG-GCGUCGuGGU- -5'
25531 5' -54.2 NC_005337.1 + 15854 0.66 0.936584
Target:  5'- aGCGCgGGCUUGGCGgcUCGcCGGCcucgcucaugACCGg -3'
miRNA:   3'- -CGUG-UCGAACUGCauGGC-GUCG----------UGGU- -5'
25531 5' -54.2 NC_005337.1 + 80286 0.66 0.936083
Target:  5'- cGCGCAgcgccaccagguGCUUGACGaGCCccgcgaacgagucGCGGCACa- -3'
miRNA:   3'- -CGUGU------------CGAACUGCaUGG-------------CGUCGUGgu -5'
25531 5' -54.2 NC_005337.1 + 29188 0.66 0.935073
Target:  5'- aCGCGGCggcgccCGUGCCgaaggaggcgcugcGCAGCGCCGc -3'
miRNA:   3'- cGUGUCGaacu--GCAUGG--------------CGUCGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 80403 0.66 0.935073
Target:  5'- cGCGCuGCUUGcagaaccagcaggaGcCGUccgcgGCgCGCAGCGCCAg -3'
miRNA:   3'- -CGUGuCGAAC--------------U-GCA-----UG-GCGUCGUGGU- -5'
25531 5' -54.2 NC_005337.1 + 49301 0.66 0.931459
Target:  5'- -aACGGgaUcACGUACCGCGGCgaGCCc -3'
miRNA:   3'- cgUGUCgaAcUGCAUGGCGUCG--UGGu -5'
25531 5' -54.2 NC_005337.1 + 10678 0.66 0.931459
Target:  5'- aGCGCGGC---ACGUgcgGCCGCAGCuCgCAg -3'
miRNA:   3'- -CGUGUCGaacUGCA---UGGCGUCGuG-GU- -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.