miRNA display CGI


Results 1 - 20 of 63 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
12026 5' -54.5 NC_003278.1 + 2363 0.68 0.521045
Target:  5'- gGUgAAGGCcucGGCACGGCCACccuggcgCGGg -3'
miRNA:   3'- gCGgUUCCGa--UCGUGUUGGUGca-----GCC- -5'
12026 5' -54.5 NC_003278.1 + 3195 0.67 0.554099
Target:  5'- aCGCCGAGGCUuuccagaaccuGCugAuguGCCAguuCGUCGa -3'
miRNA:   3'- -GCGGUUCCGAu----------CGugU---UGGU---GCAGCc -5'
12026 5' -54.5 NC_003278.1 + 3521 0.66 0.644477
Target:  5'- uGCCGAGGa-AGUGCAAuuCCGCGccguUCGGc -3'
miRNA:   3'- gCGGUUCCgaUCGUGUU--GGUGC----AGCC- -5'
12026 5' -54.5 NC_003278.1 + 3988 0.66 0.610388
Target:  5'- gCGCCAGGcGCggauccAGCGCuACCAgGgCGGu -3'
miRNA:   3'- -GCGGUUC-CGa-----UCGUGuUGGUgCaGCC- -5'
12026 5' -54.5 NC_003278.1 + 4993 0.66 0.614929
Target:  5'- cCGUCGAaGCgaucgccgAGCACAGCCGCGaccugggugagcaacUCGGc -3'
miRNA:   3'- -GCGGUUcCGa-------UCGUGUUGGUGC---------------AGCC- -5'
12026 5' -54.5 NC_003278.1 + 5682 0.68 0.510196
Target:  5'- gCGCCGcGGCUAcCAcCAACCGCGcCGc -3'
miRNA:   3'- -GCGGUuCCGAUcGU-GUUGGUGCaGCc -5'
12026 5' -54.5 NC_003278.1 + 5688 0.69 0.478244
Target:  5'- gGUCGAGGgcCUGGCGCuugagGAUCGCGUCGc -3'
miRNA:   3'- gCGGUUCC--GAUCGUG-----UUGGUGCAGCc -5'
12026 5' -54.5 NC_003278.1 + 5929 0.69 0.437247
Target:  5'- uGCCAgggaucgaucAGGCU-GCugA-CCACGUCGa -3'
miRNA:   3'- gCGGU----------UCCGAuCGugUuGGUGCAGCc -5'
12026 5' -54.5 NC_003278.1 + 6255 0.66 0.644477
Target:  5'- aGCCGAGGCcgUAGUccuCGACgACGUaGGc -3'
miRNA:   3'- gCGGUUCCG--AUCGu--GUUGgUGCAgCC- -5'
12026 5' -54.5 NC_003278.1 + 6802 0.69 0.467813
Target:  5'- uCGCgcGGGCUucgucgGGCAuguCGGCCugGUCGGu -3'
miRNA:   3'- -GCGguUCCGA------UCGU---GUUGGugCAGCC- -5'
12026 5' -54.5 NC_003278.1 + 7208 0.67 0.576477
Target:  5'- uGCCGcGGUgaucAGCGuCAACCGCGagcugCGGg -3'
miRNA:   3'- gCGGUuCCGa---UCGU-GUUGGUGCa----GCC- -5'
12026 5' -54.5 NC_003278.1 + 8039 0.68 0.531984
Target:  5'- gGCCGAGGCccaugaUGGCGcCGGCCGUGgCGGu -3'
miRNA:   3'- gCGGUUCCG------AUCGU-GUUGGUGCaGCC- -5'
12026 5' -54.5 NC_003278.1 + 8056 0.66 0.659233
Target:  5'- gCGCCu-GGCUggccaccGGCACGaagcaggaccugaagGCCugGUCGc -3'
miRNA:   3'- -GCGGuuCCGA-------UCGUGU---------------UGGugCAGCc -5'
12026 5' -54.5 NC_003278.1 + 8473 0.69 0.477196
Target:  5'- gCGCCGagcAGGCUGGCgaGCAacgagacGCUGCGgCGGa -3'
miRNA:   3'- -GCGGU---UCCGAUCG--UGU-------UGGUGCaGCC- -5'
12026 5' -54.5 NC_003278.1 + 8869 0.68 0.541899
Target:  5'- gGUCGAGGCgAGCuccggcgGCGACgAgGUCGGc -3'
miRNA:   3'- gCGGUUCCGaUCG-------UGUUGgUgCAGCC- -5'
12026 5' -54.5 NC_003278.1 + 9094 0.66 0.667161
Target:  5'- uCGCCAGGcGCUGGUGCucggcgguGCCGC--CGGc -3'
miRNA:   3'- -GCGGUUC-CGAUCGUGu-------UGGUGcaGCC- -5'
12026 5' -54.5 NC_003278.1 + 9363 0.69 0.478244
Target:  5'- gCGCCGAGGCcAGCGCGugagccuucugcGCCAggUGUUGu -3'
miRNA:   3'- -GCGGUUCCGaUCGUGU------------UGGU--GCAGCc -5'
12026 5' -54.5 NC_003278.1 + 9528 0.66 0.633112
Target:  5'- cCGCC-AGGCcGGCACcAUCACGgcccUCGa -3'
miRNA:   3'- -GCGGuUCCGaUCGUGuUGGUGC----AGCc -5'
12026 5' -54.5 NC_003278.1 + 9618 0.68 0.521045
Target:  5'- gCGCCAGGcGCUGGC-CAuCCGCGa--- -3'
miRNA:   3'- -GCGGUUC-CGAUCGuGUuGGUGCagcc -5'
12026 5' -54.5 NC_003278.1 + 9667 0.67 0.565259
Target:  5'- gGCCAGcGcCUGGCGCAgcugcuGCCGCuGUUGGu -3'
miRNA:   3'- gCGGUUcC-GAUCGUGU------UGGUG-CAGCC- -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.