miRNA display CGI


Results 1 - 20 of 80 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
29810 3' -55.3 NC_006273.1 + 434 0.67 0.970451
Target:  5'- -cACGUCgcuuuuauucGCCGUCG-CCG-UACCCa -3'
miRNA:   3'- ccUGCAGaa--------CGGCAGCaGGCaGUGGG- -5'
29810 3' -55.3 NC_006273.1 + 11889 0.73 0.77828
Target:  5'- -cGCGUCUgggGCCGUUGUUCGgaggACCCu -3'
miRNA:   3'- ccUGCAGAa--CGGCAGCAGGCag--UGGG- -5'
29810 3' -55.3 NC_006273.1 + 17185 0.77 0.568351
Target:  5'- cGGuCGUCc-GCCGUCGgCCGcCGCCCa -3'
miRNA:   3'- -CCuGCAGaaCGGCAGCaGGCaGUGGG- -5'
29810 3' -55.3 NC_006273.1 + 24562 0.66 0.975612
Target:  5'- cGGGCuuucCUUGUcaCGUUGUCUGggCGCCCg -3'
miRNA:   3'- -CCUGca--GAACG--GCAGCAGGCa-GUGGG- -5'
29810 3' -55.3 NC_006273.1 + 24682 0.68 0.946315
Target:  5'- -cGCG-C-UGCCGUCGUCCGUU-CCg -3'
miRNA:   3'- ccUGCaGaACGGCAGCAGGCAGuGGg -5'
29810 3' -55.3 NC_006273.1 + 25221 0.68 0.946315
Target:  5'- cGuCGUCaacGCCGUUGUCCacccucUCGCCCu -3'
miRNA:   3'- cCuGCAGaa-CGGCAGCAGGc-----AGUGGG- -5'
29810 3' -55.3 NC_006273.1 + 27225 0.69 0.91743
Target:  5'- cGcCGUUUUGCUGuccUCGUCCGggucuaCGCCCu -3'
miRNA:   3'- cCuGCAGAACGGC---AGCAGGCa-----GUGGG- -5'
29810 3' -55.3 NC_006273.1 + 30369 0.67 0.96131
Target:  5'- aGGAUGUCgucgcggcGUCGcagcUCGUCaCGUCGCUCu -3'
miRNA:   3'- -CCUGCAGaa------CGGC----AGCAG-GCAGUGGG- -5'
29810 3' -55.3 NC_006273.1 + 32646 0.66 0.982073
Target:  5'- cGGAUGacCUgGCCGUCGgcgUCgCGUCgcagGCCCg -3'
miRNA:   3'- -CCUGCa-GAaCGGCAGC---AG-GCAG----UGGG- -5'
29810 3' -55.3 NC_006273.1 + 34601 0.66 0.985602
Target:  5'- cGGAUGUCguacUUGCCGUgCG-CCGUaGCgCa -3'
miRNA:   3'- -CCUGCAG----AACGGCA-GCaGGCAgUGgG- -5'
29810 3' -55.3 NC_006273.1 + 37138 0.69 0.927927
Target:  5'- cGGAgGUgCUggcgGCCGUgGcCUGUgGCCCg -3'
miRNA:   3'- -CCUgCA-GAa---CGGCAgCaGGCAgUGGG- -5'
29810 3' -55.3 NC_006273.1 + 38320 0.68 0.946315
Target:  5'- uGAcCGUCgccgUGUCGUCG-CCGcCACCg -3'
miRNA:   3'- cCU-GCAGa---ACGGCAGCaGGCaGUGGg -5'
29810 3' -55.3 NC_006273.1 + 38377 0.71 0.829046
Target:  5'- cGGAgcugcUGUUaccGCCGcCGUCCGUCGCCg -3'
miRNA:   3'- -CCU-----GCAGaa-CGGCaGCAGGCAGUGGg -5'
29810 3' -55.3 NC_006273.1 + 38523 0.66 0.982073
Target:  5'- cGACGUCguccCCGUCG-CCGgC-CCCg -3'
miRNA:   3'- cCUGCAGaac-GGCAGCaGGCaGuGGG- -5'
29810 3' -55.3 NC_006273.1 + 38736 0.68 0.950376
Target:  5'- cGGCGUCUguagUGCCaccGUCGUgCCGgccCACCg -3'
miRNA:   3'- cCUGCAGA----ACGG---CAGCA-GGCa--GUGGg -5'
29810 3' -55.3 NC_006273.1 + 39704 0.71 0.85973
Target:  5'- cGGACGgCU--CCGUCGUCCGUgUGCCa -3'
miRNA:   3'- -CCUGCaGAacGGCAGCAGGCA-GUGGg -5'
29810 3' -55.3 NC_006273.1 + 40192 0.66 0.979665
Target:  5'- aGGAUGUUcUGCaCGgCGUCCGacggcguuuuggCGCCCc -3'
miRNA:   3'- -CCUGCAGaACG-GCaGCAGGCa-----------GUGGG- -5'
29810 3' -55.3 NC_006273.1 + 47650 0.67 0.967596
Target:  5'- uGGACGaUC-UGCCGcugaaCGUCgGgUUACCCa -3'
miRNA:   3'- -CCUGC-AGaACGGCa----GCAGgC-AGUGGG- -5'
29810 3' -55.3 NC_006273.1 + 47906 0.69 0.932848
Target:  5'- -cGCGUCUUcGUCGUCGUCCucagCAUCUc -3'
miRNA:   3'- ccUGCAGAA-CGGCAGCAGGca--GUGGG- -5'
29810 3' -55.3 NC_006273.1 + 54032 0.68 0.946315
Target:  5'- cGGACGUCacgccgGCgGUUGUuaCCGUCGuCUCg -3'
miRNA:   3'- -CCUGCAGaa----CGgCAGCA--GGCAGU-GGG- -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.