miRNA display CGI


Results 1 - 20 of 72 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
12002 3' -54.9 NC_003278.1 + 19983 1.11 0.000501
Target:  5'- gCCGCACCGGCUACAACGCGAAGCAGAu -3'
miRNA:   3'- -GGCGUGGCCGAUGUUGCGCUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 29301 0.81 0.078045
Target:  5'- aUCGCACCGGCgGCcACGCcGAGCAGGc -3'
miRNA:   3'- -GGCGUGGCCGaUGuUGCGcUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 28692 0.78 0.124612
Target:  5'- gCGCGCCcugGGCUACGucUGCGAAGCAGc -3'
miRNA:   3'- gGCGUGG---CCGAUGUu-GCGCUUCGUCu -5'
12002 3' -54.9 NC_003278.1 + 6674 0.77 0.139772
Target:  5'- aCGCAgCCGGCggUAC-GCGCGAAGCGGu -3'
miRNA:   3'- gGCGU-GGCCG--AUGuUGCGCUUCGUCu -5'
12002 3' -54.9 NC_003278.1 + 27092 0.76 0.152234
Target:  5'- uCCGCAuCCGGCUGUGGCaGCaGggGCAGAc -3'
miRNA:   3'- -GGCGU-GGCCGAUGUUG-CG-CuuCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 12398 0.75 0.195854
Target:  5'- cUCGCAUCGGUacccgcgucaUGCGACGCGAauacGGCAGc -3'
miRNA:   3'- -GGCGUGGCCG----------AUGUUGCGCU----UCGUCu -5'
12002 3' -54.9 NC_003278.1 + 23550 0.75 0.201325
Target:  5'- -aGCACCaaggGCAGCGCGAAGCGGGc -3'
miRNA:   3'- ggCGUGGccgaUGUUGCGCUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 16937 0.74 0.218538
Target:  5'- gCGCGCgCGGCgaaGGgGCGAGGCGGGa -3'
miRNA:   3'- gGCGUG-GCCGaugUUgCGCUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 33029 0.74 0.224549
Target:  5'- gCGCACUGGCcgACAcCGCGccGGCGGAu -3'
miRNA:   3'- gGCGUGGCCGa-UGUuGCGCu-UCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 29581 0.74 0.2307
Target:  5'- uCUGguUCGGCUcGCuguuCGCGGAGCAGAu -3'
miRNA:   3'- -GGCguGGCCGA-UGuu--GCGCUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 21834 0.73 0.243429
Target:  5'- cCCGCGCCGGcCUGgAugGUGAuGUAGu -3'
miRNA:   3'- -GGCGUGGCC-GAUgUugCGCUuCGUCu -5'
12002 3' -54.9 NC_003278.1 + 28475 0.72 0.285129
Target:  5'- gCCGCGCgGGCUGucgccCGGCuuGAAGCGGGc -3'
miRNA:   3'- -GGCGUGgCCGAU-----GUUGcgCUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 19743 0.72 0.288101
Target:  5'- gCCGCGCUGGCcgGCAccggcauggcggcacGCGCGAcgGGCAu- -3'
miRNA:   3'- -GGCGUGGCCGa-UGU---------------UGCGCU--UCGUcu -5'
12002 3' -54.9 NC_003278.1 + 9844 0.72 0.292604
Target:  5'- gCCGCugacuCCaGGCUGCAGgGCGucacGGCGGGa -3'
miRNA:   3'- -GGCGu----GG-CCGAUGUUgCGCu---UCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 7603 0.72 0.292604
Target:  5'- cCCGC-UCGGCUAUgccgugugcCGCGAGGUAGAa -3'
miRNA:   3'- -GGCGuGGCCGAUGuu-------GCGCUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 19354 0.72 0.300231
Target:  5'- uCCGCACCcaGC-GCGGCGCccuGGAGCAGGu -3'
miRNA:   3'- -GGCGUGGc-CGaUGUUGCG---CUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 23002 0.72 0.308011
Target:  5'- gCCGcCACCGGCcgGCAG-GCaGAGCAGGc -3'
miRNA:   3'- -GGC-GUGGCCGa-UGUUgCGcUUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 34335 0.71 0.32403
Target:  5'- uUGUACUGGCUGCGuacacgaGCGcGGCGGAa -3'
miRNA:   3'- gGCGUGGCCGAUGUug-----CGCuUCGUCU- -5'
12002 3' -54.9 NC_003278.1 + 85 0.71 0.32403
Target:  5'- gCCGCAUCGGCUcauucgcCGGCGCGc-GCAGu -3'
miRNA:   3'- -GGCGUGGCCGAu------GUUGCGCuuCGUCu -5'
12002 3' -54.9 NC_003278.1 + 8446 0.71 0.345769
Target:  5'- aCGCugCGGCggaagcgggcgccGCAGCGCuGGuAGCAGAc -3'
miRNA:   3'- gGCGugGCCGa------------UGUUGCG-CU-UCGUCU- -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.