miRNA display CGI


Results 1 - 20 of 99 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
17003 3' -56.9 NC_004333.2 + 273 0.66 0.555145
Target:  5'- cACGCCGCCgAGCA-CGGucacggucGACGuCUGCg- -3'
miRNA:   3'- -UGCGGCGG-UUGUaGCU--------CUGC-GACGag -5'
17003 3' -56.9 NC_004333.2 + 309 0.67 0.522893
Target:  5'- -gGCUGCCAGCAguaaGAGaaGCGCgccgagccacaUGCUCa -3'
miRNA:   3'- ugCGGCGGUUGUag--CUC--UGCG-----------ACGAG- -5'
17003 3' -56.9 NC_004333.2 + 360 0.71 0.301719
Target:  5'- aGCGCCGUCcGCAggCGGcGCGCUGCa- -3'
miRNA:   3'- -UGCGGCGGuUGUa-GCUcUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 1236 0.7 0.349673
Target:  5'- cGCGCCGCCuuggcuGCGcgCGAGGCuucGCggcGCUCg -3'
miRNA:   3'- -UGCGGCGGu-----UGUa-GCUCUG---CGa--CGAG- -5'
17003 3' -56.9 NC_004333.2 + 1568 0.7 0.358175
Target:  5'- aACGCC-CCGAUAUCGGGGCGUcaaguaCUCg -3'
miRNA:   3'- -UGCGGcGGUUGUAGCUCUGCGac----GAG- -5'
17003 3' -56.9 NC_004333.2 + 2890 0.67 0.522893
Target:  5'- aACGCCuCgAGCuUCGGGACGUcGUUCg -3'
miRNA:   3'- -UGCGGcGgUUGuAGCUCUGCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 3149 0.67 0.481082
Target:  5'- cGCGCCGCCAGCgccacgcgcgGUCGAGcggccggacaGCGC-GC-Cg -3'
miRNA:   3'- -UGCGGCGGUUG----------UAGCUC----------UGCGaCGaG- -5'
17003 3' -56.9 NC_004333.2 + 3219 0.68 0.460791
Target:  5'- cGCGCCGCCcGCccCGAuGACGCcggGCa- -3'
miRNA:   3'- -UGCGGCGGuUGuaGCU-CUGCGa--CGag -5'
17003 3' -56.9 NC_004333.2 + 3261 0.81 0.060665
Target:  5'- gGCGCgCGCgAcGCAUCGAGACGCaGCUCg -3'
miRNA:   3'- -UGCG-GCGgU-UGUAGCUCUGCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 3391 0.66 0.592358
Target:  5'- gGCGUCGCCGuCGUCGcgggagcuucggugaAGAacaGCUGCg- -3'
miRNA:   3'- -UGCGGCGGUuGUAGC---------------UCUg--CGACGag -5'
17003 3' -56.9 NC_004333.2 + 3760 0.67 0.481082
Target:  5'- gUGCCGUaCAGCGUCGAcGugGC-GUUCu -3'
miRNA:   3'- uGCGGCG-GUUGUAGCU-CugCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 4314 0.68 0.460791
Target:  5'- gUGCCGCgAGCAcCGGG-UGCUGCg- -3'
miRNA:   3'- uGCGGCGgUUGUaGCUCuGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 5151 0.66 0.587953
Target:  5'- -aGCCGCCcguguUGUCGAGcaGCGCaGCUUg -3'
miRNA:   3'- ugCGGCGGuu---GUAGCUC--UGCGaCGAG- -5'
17003 3' -56.9 NC_004333.2 + 5480 0.68 0.439984
Target:  5'- aACGCCGCCcgcucgucggccGGCGUgGAGacgaucgGCGCUGUUg -3'
miRNA:   3'- -UGCGGCGG------------UUGUAgCUC-------UGCGACGAg -5'
17003 3' -56.9 NC_004333.2 + 5528 0.71 0.301719
Target:  5'- -gGCUGCuCGACGg-GAGACGCUGCg- -3'
miRNA:   3'- ugCGGCG-GUUGUagCUCUGCGACGag -5'
17003 3' -56.9 NC_004333.2 + 6631 0.66 0.566029
Target:  5'- -gGUCGUgAGCAUCGcGACGCUGaCg- -3'
miRNA:   3'- ugCGGCGgUUGUAGCuCUGCGAC-Gag -5'
17003 3' -56.9 NC_004333.2 + 6688 0.67 0.522893
Target:  5'- cCGCCGCUucACGUgCGGGGCGCauugGCg- -3'
miRNA:   3'- uGCGGCGGu-UGUA-GCUCUGCGa---CGag -5'
17003 3' -56.9 NC_004333.2 + 6740 0.66 0.53357
Target:  5'- gAC-UCGCCcGCGUCGAGcaGCGcCUGUUCg -3'
miRNA:   3'- -UGcGGCGGuUGUAGCUC--UGC-GACGAG- -5'
17003 3' -56.9 NC_004333.2 + 8195 0.66 0.544322
Target:  5'- cGCGCCagucaaaaacGCCAGCAccucauuagUCGGGcacucuucgaGCGCuUGCUCg -3'
miRNA:   3'- -UGCGG----------CGGUUGU---------AGCUC----------UGCG-ACGAG- -5'
17003 3' -56.9 NC_004333.2 + 8925 0.69 0.365949
Target:  5'- uGCGCCuGCCGGCcgcucggggugcgGUCGAGcauugcACGCaGCUCg -3'
miRNA:   3'- -UGCGG-CGGUUG-------------UAGCUC------UGCGaCGAG- -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.