miRNA display CGI


Results 1 - 20 of 46 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
13281 3' -52.3 NC_003409.1 + 71596 0.73 0.721905
Target:  5'- aGGUGGGaGCAGA-GU-UCGCCAAGCu- -3'
miRNA:   3'- -CCACCC-CGUUUaCAcAGUGGUUCGcg -5'
13281 3' -52.3 NC_003409.1 + 53203 0.66 0.975319
Target:  5'- uGGcucgGGGGCGGAUcgGUGUgGCUgcuguucuuGGGCGUg -3'
miRNA:   3'- -CCa---CCCCGUUUA--CACAgUGG---------UUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 59908 0.66 0.977841
Target:  5'- gGGUcGGGGUGAG-GUGcuUCGCUGAguuGCGCa -3'
miRNA:   3'- -CCA-CCCCGUUUaCAC--AGUGGUU---CGCG- -5'
13281 3' -52.3 NC_003409.1 + 133477 0.66 0.979944
Target:  5'- cGGUGaGGGCccccUGUGUCugUccgccuggaaacaGGGUGCu -3'
miRNA:   3'- -CCAC-CCCGuuu-ACACAGugG-------------UUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 131372 0.69 0.909879
Target:  5'- aGUGGGuGCAGGggagGcGUCACCAGGUu- -3'
miRNA:   3'- cCACCC-CGUUUa---CaCAGUGGUUCGcg -5'
13281 3' -52.3 NC_003409.1 + 126868 0.69 0.909879
Target:  5'- cGGUGGaGGUAAagGUGUUGCgGgAGCGg -3'
miRNA:   3'- -CCACC-CCGUUuaCACAGUGgU-UCGCg -5'
13281 3' -52.3 NC_003409.1 + 87542 0.67 0.951581
Target:  5'- uGG-GGGaGCAAucccUGUGgCGCCAgaGGUGCa -3'
miRNA:   3'- -CCaCCC-CGUUu---ACACaGUGGU--UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 87162 0.67 0.955668
Target:  5'- -cUGGGGUggGUG-GUgCGCCGgcggagGGCGUg -3'
miRNA:   3'- ccACCCCGuuUACaCA-GUGGU------UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 114405 0.67 0.965845
Target:  5'- gGGUGGGGCuggcaagGcCcCCAaAGCGCg -3'
miRNA:   3'- -CCACCCCGuuuaca-CaGuGGU-UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 33269 0.66 0.972593
Target:  5'- gGGUGGGGaUggGUGUGaaAgCAGGaCGUc -3'
miRNA:   3'- -CCACCCC-GuuUACACagUgGUUC-GCG- -5'
13281 3' -52.3 NC_003409.1 + 131268 0.67 0.966828
Target:  5'- aGGUGGGGCAcgaaaa----CAGGCGCa -3'
miRNA:   3'- -CCACCCCGUuuacacagugGUUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 113396 0.67 0.963123
Target:  5'- uGUuuGGCGAcgGUGUCugaGCCAGcGCGCa -3'
miRNA:   3'- cCAccCCGUUuaCACAG---UGGUU-CGCG- -5'
13281 3' -52.3 NC_003409.1 + 133861 0.71 0.844122
Target:  5'- aGGUGGGugugguucuaGCAGGgucUGUGUgauuuuggaCACCAGGUGCc -3'
miRNA:   3'- -CCACCC----------CGUUU---ACACA---------GUGGUUCGCG- -5'
13281 3' -52.3 NC_003409.1 + 134670 0.66 0.969657
Target:  5'- uGGUGGaGGC--GUGuUGUCGcCCAAGauacuaGCa -3'
miRNA:   3'- -CCACC-CCGuuUAC-ACAGU-GGUUCg-----CG- -5'
13281 3' -52.3 NC_003409.1 + 69845 0.7 0.849893
Target:  5'- -aUGGGGCAAAuccggguucacccuUGUGUUGCCugguucGGUGCu -3'
miRNA:   3'- ccACCCCGUUU--------------ACACAGUGGu-----UCGCG- -5'
13281 3' -52.3 NC_003409.1 + 123902 0.67 0.963123
Target:  5'- gGGUGGGGCAAGcagGaCACgGGGCcuGCc -3'
miRNA:   3'- -CCACCCCGUUUacaCaGUGgUUCG--CG- -5'
13281 3' -52.3 NC_003409.1 + 119431 0.66 0.972593
Target:  5'- cGGcUGGGGCGuccaauggAAUGgcgcgGUCGCCuAGCu- -3'
miRNA:   3'- -CC-ACCCCGU--------UUACa----CAGUGGuUCGcg -5'
13281 3' -52.3 NC_003409.1 + 36132 0.66 0.977841
Target:  5'- gGGUGuGGGCAAAUcaacgcugGUCaacGCCGuGUGCg -3'
miRNA:   3'- -CCAC-CCCGUUUAca------CAG---UGGUuCGCG- -5'
13281 3' -52.3 NC_003409.1 + 77420 0.69 0.890083
Target:  5'- -cUGGGGUAgugacuGAUGUGggACCGGGCGa -3'
miRNA:   3'- ccACCCCGU------UUACACagUGGUUCGCg -5'
13281 3' -52.3 NC_003409.1 + 12020 0.68 0.925767
Target:  5'- uGUGGGuGCGAgguguuugaguccaAUGUGgaCGCCAuuaGGCGCu -3'
miRNA:   3'- cCACCC-CGUU--------------UACACa-GUGGU---UCGCG- -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.