miRNA display CGI


Results 1 - 20 of 88 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
31006 3' -58.3 NC_006560.1 + 1931 0.69 0.623888
Target:  5'- cGGCUcGCCGUCcGGGuCCcaGUCCGGGGu -3'
miRNA:   3'- -UCGAcCGGCAGuUCU-GG--UAGGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 5353 0.66 0.790289
Target:  5'- cGGCgGGCCGUCGu--CCGggUCCGGcGAg -3'
miRNA:   3'- -UCGaCCGGCAGUucuGGU--AGGCC-CUg -5'
31006 3' -58.3 NC_006560.1 + 11127 0.68 0.694519
Target:  5'- gGGCUcagcGGgCGUCgAGGGCC--CCGGGGCg -3'
miRNA:   3'- -UCGA----CCgGCAG-UUCUGGuaGGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 11474 0.71 0.543624
Target:  5'- cGCgUGGCCGUCAgcucguaccgggAGGCCucgggcgCCGGGGa -3'
miRNA:   3'- uCG-ACCGGCAGU------------UCUGGua-----GGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 12040 0.68 0.664386
Target:  5'- gGGCacGCCGUCAgcuccucgacgaGGACCAcgCgGGGGCa -3'
miRNA:   3'- -UCGacCGGCAGU------------UCUGGUa-GgCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 12723 0.7 0.59355
Target:  5'- gGGCggGGCCcuggauggugacGUCGucGGCC-UCCGGGACg -3'
miRNA:   3'- -UCGa-CCGG------------CAGUu-CUGGuAGGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 12861 0.66 0.816697
Target:  5'- cGUUGGCCGUCu---CCGUCaccucgggCGGGAg -3'
miRNA:   3'- uCGACCGGCAGuucuGGUAG--------GCCCUg -5'
31006 3' -58.3 NC_006560.1 + 15721 0.73 0.404823
Target:  5'- cGGCgGGCCGgcaCGGGGCCGgcacgCCGGGGg -3'
miRNA:   3'- -UCGaCCGGCa--GUUCUGGUa----GGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 15777 0.68 0.674467
Target:  5'- gGGCccgggGGCCGgCAGGGCCcggcgCCGGcGGCg -3'
miRNA:   3'- -UCGa----CCGGCaGUUCUGGua---GGCC-CUG- -5'
31006 3' -58.3 NC_006560.1 + 18099 0.7 0.56346
Target:  5'- gAGCgGGCgGUCGcGGCguucugCGUCCGGGGCc -3'
miRNA:   3'- -UCGaCCGgCAGUuCUG------GUAGGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 22147 0.67 0.762624
Target:  5'- uGCUGGCCGcCAugguggaggAGACgGcCCGGGcGCu -3'
miRNA:   3'- uCGACCGGCaGU---------UCUGgUaGGCCC-UG- -5'
31006 3' -58.3 NC_006560.1 + 26246 0.69 0.644156
Target:  5'- aGGCcgGGCCGgaggGGGGCgCGUCgCGGGGCu -3'
miRNA:   3'- -UCGa-CCGGCag--UUCUG-GUAG-GCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 26871 0.69 0.65428
Target:  5'- cGGCgcccgUGGCgGgagagCGAGACCGacgggggCCGGGACg -3'
miRNA:   3'- -UCG-----ACCGgCa----GUUCUGGUa------GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 26934 0.7 0.553516
Target:  5'- gGGgaGGCCG-CGGGGCCGcggaggCCGGGGa -3'
miRNA:   3'- -UCgaCCGGCaGUUCUGGUa-----GGCCCUg -5'
31006 3' -58.3 NC_006560.1 + 27203 0.71 0.504696
Target:  5'- cGGCggGGCCGggaccgCGGGGCgGggCCGGGACc -3'
miRNA:   3'- -UCGa-CCGGCa-----GUUCUGgUa-GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 28397 0.66 0.790289
Target:  5'- cGUUGGuCCG-CGgguuGGGCCGgggcgggCCGGGGCg -3'
miRNA:   3'- uCGACC-GGCaGU----UCUGGUa------GGCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 28947 0.67 0.753164
Target:  5'- uGGCgc-CCGUCGGGGCCGccccaaCGGGGCg -3'
miRNA:   3'- -UCGaccGGCAGUUCUGGUag----GCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 29059 0.67 0.771971
Target:  5'- cGCgucuccGGCCGgCGGGGCCcgcccGUCgGGGACc -3'
miRNA:   3'- uCGa-----CCGGCaGUUCUGG-----UAGgCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 32071 0.67 0.743599
Target:  5'- gGGCaggGGCCG-CAGGGCgGgCgGGGGCg -3'
miRNA:   3'- -UCGa--CCGGCaGUUCUGgUaGgCCCUG- -5'
31006 3' -58.3 NC_006560.1 + 32131 0.69 0.613759
Target:  5'- gGGCccggGGCCgGUCAcGGCCGggCGGGGCc -3'
miRNA:   3'- -UCGa---CCGG-CAGUuCUGGUagGCCCUG- -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.