miRNA display CGI


Results 1 - 20 of 53 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
12102 5' -60.3 NC_003309.1 + 242 0.66 0.462009
Target:  5'- gUCCGgCGGCUCGAuguuCGUGaccaagccgaaauCCGGcUCGUc -3'
miRNA:   3'- -AGGCgGUCGAGCUu---GCGC-------------GGCC-AGCG- -5'
12102 5' -60.3 NC_003309.1 + 513 0.67 0.416327
Target:  5'- cUCGCCGGgUCGAGCcccagcauuGCGCCGaaGcCGCc -3'
miRNA:   3'- aGGCGGUCgAGCUUG---------CGCGGC--CaGCG- -5'
12102 5' -60.3 NC_003309.1 + 3160 0.67 0.389758
Target:  5'- -aCGCUGGCUUGGuccuugaGCGCCGGg-GCa -3'
miRNA:   3'- agGCGGUCGAGCUug-----CGCGGCCagCG- -5'
12102 5' -60.3 NC_003309.1 + 4167 1.12 0.000222
Target:  5'- gUCCGCCAGCUCGAACGCGCCGGUCGCg -3'
miRNA:   3'- -AGGCGGUCGAGCUUGCGCGGCCAGCG- -5'
12102 5' -60.3 NC_003309.1 + 5173 0.68 0.356104
Target:  5'- aUCGCCAGuUUCGAggcgagcuGCGCGUCGccgCGCg -3'
miRNA:   3'- aGGCGGUC-GAGCU--------UGCGCGGCca-GCG- -5'
12102 5' -60.3 NC_003309.1 + 5573 0.69 0.324546
Target:  5'- -aCGCCuuGUcuUCGcGCGCGCCGaUCGCg -3'
miRNA:   3'- agGCGGu-CG--AGCuUGCGCGGCcAGCG- -5'
12102 5' -60.3 NC_003309.1 + 7239 0.67 0.415424
Target:  5'- aCCGaCAGgUCGAgauacccgcguuuGCGCGCCGGcaguacCGCc -3'
miRNA:   3'- aGGCgGUCgAGCU-------------UGCGCGGCCa-----GCG- -5'
12102 5' -60.3 NC_003309.1 + 7618 0.69 0.316241
Target:  5'- cUCgGCCucGC-CGAucgACGCaucaaacGCCGGUCGCa -3'
miRNA:   3'- -AGgCGGu-CGaGCU---UGCG-------CGGCCAGCG- -5'
12102 5' -60.3 NC_003309.1 + 7807 0.69 0.324546
Target:  5'- -gCGCCAugUCGAGCGCGCCauGUaCGCg -3'
miRNA:   3'- agGCGGUcgAGCUUGCGCGGc-CA-GCG- -5'
12102 5' -60.3 NC_003309.1 + 9424 0.67 0.388892
Target:  5'- --aGCCGGCcgUCGAcgagagaccgcgcAUGCGgCGGUCGUa -3'
miRNA:   3'- aggCGGUCG--AGCU-------------UGCGCgGCCAGCG- -5'
12102 5' -60.3 NC_003309.1 + 9739 0.71 0.236586
Target:  5'- aUCCGCugauaCAGCUCGGccguCGCGUcgagCGGUUGCc -3'
miRNA:   3'- -AGGCG-----GUCGAGCUu---GCGCG----GCCAGCG- -5'
12102 5' -60.3 NC_003309.1 + 10252 0.66 0.443975
Target:  5'- aUCCGCCcAGCcgCGAGCGacaCGCCGa--GCu -3'
miRNA:   3'- -AGGCGG-UCGa-GCUUGC---GCGGCcagCG- -5'
12102 5' -60.3 NC_003309.1 + 10360 0.67 0.410925
Target:  5'- gCCGCCucguguuGCUugaucgucuccucgaCGAGCGCucGCCGGgCGCc -3'
miRNA:   3'- aGGCGGu------CGA---------------GCUUGCG--CGGCCaGCG- -5'
12102 5' -60.3 NC_003309.1 + 10569 0.68 0.348016
Target:  5'- gCCGCCGcCUCGAcggcACGCGCuuCGGcaagcuUCGCu -3'
miRNA:   3'- aGGCGGUcGAGCU----UGCGCG--GCC------AGCG- -5'
12102 5' -60.3 NC_003309.1 + 10612 0.73 0.156652
Target:  5'- aCUGCCGGCaacguUCGcGCGUGCC-GUCGCg -3'
miRNA:   3'- aGGCGGUCG-----AGCuUGCGCGGcCAGCG- -5'
12102 5' -60.3 NC_003309.1 + 10755 0.66 0.443975
Target:  5'- gCCGCCGcCUCaa--GCGCCGuccGUCGCu -3'
miRNA:   3'- aGGCGGUcGAGcuugCGCGGC---CAGCG- -5'
12102 5' -60.3 NC_003309.1 + 10873 0.68 0.332237
Target:  5'- uUCCGCUcGCUC--GCGCGCCuGcGUgGCa -3'
miRNA:   3'- -AGGCGGuCGAGcuUGCGCGG-C-CAgCG- -5'
12102 5' -60.3 NC_003309.1 + 11495 0.69 0.286011
Target:  5'- cUCGCCGugUCGAuCGCGCCGGcggcucgaacaaguUCGCa -3'
miRNA:   3'- aGGCGGUcgAGCUuGCGCGGCC--------------AGCG- -5'
12102 5' -60.3 NC_003309.1 + 11744 0.69 0.309566
Target:  5'- cCCGCCAuGCg-GAccuGCGCGUCGuUCGCg -3'
miRNA:   3'- aGGCGGU-CGagCU---UGCGCGGCcAGCG- -5'
12102 5' -60.3 NC_003309.1 + 11792 0.67 0.407348
Target:  5'- aUCGCCuuUUCGAgcgacuuguACGCGUCGG-CGCg -3'
miRNA:   3'- aGGCGGucGAGCU---------UGCGCGGCCaGCG- -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.