miRNA display CGI


Results 1 - 20 of 39 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
387 3' -59.5 AC_000011.1 + 12201 1.1 0.000213
Target:  5'- gCCCUCGCGCUCCAACCCCACGCACGAg -3'
miRNA:   3'- -GGGAGCGCGAGGUUGGGGUGCGUGCU- -5'
387 3' -59.5 AC_000011.1 + 16631 0.83 0.026509
Target:  5'- gCCCUCGCGCUUgAACCCC-CgGCGCGGc -3'
miRNA:   3'- -GGGAGCGCGAGgUUGGGGuG-CGUGCU- -5'
387 3' -59.5 AC_000011.1 + 12442 0.79 0.048873
Target:  5'- aCCgCUCGCGCUgggCCAcgGCCUCGCGCACGu -3'
miRNA:   3'- -GG-GAGCGCGA---GGU--UGGGGUGCGUGCu -5'
387 3' -59.5 AC_000011.1 + 9931 0.79 0.053301
Target:  5'- aCCUgGCGCucgUCCAGCCCCA-GCGCGGc -3'
miRNA:   3'- gGGAgCGCG---AGGUUGGGGUgCGUGCU- -5'
387 3' -59.5 AC_000011.1 + 5291 0.78 0.054861
Target:  5'- aCCCUCgcaaGCGC-CCAGCCCgGCGCGCa- -3'
miRNA:   3'- -GGGAG----CGCGaGGUUGGGgUGCGUGcu -5'
387 3' -59.5 AC_000011.1 + 8234 0.76 0.077404
Target:  5'- gUCCUCGCuCUCCGACCCgcuCGCGC-CGAg -3'
miRNA:   3'- -GGGAGCGcGAGGUUGGG---GUGCGuGCU- -5'
387 3' -59.5 AC_000011.1 + 10240 0.73 0.135723
Target:  5'- aCCUCGCGC-CCGgcGCCCC-CGCcaccgaGCGAu -3'
miRNA:   3'- gGGAGCGCGaGGU--UGGGGuGCG------UGCU- -5'
387 3' -59.5 AC_000011.1 + 6767 0.73 0.143399
Target:  5'- gCCCg-GgGCUCCucGCCCCcuCGCACGAg -3'
miRNA:   3'- -GGGagCgCGAGGu-UGGGGu-GCGUGCU- -5'
387 3' -59.5 AC_000011.1 + 7326 0.71 0.203607
Target:  5'- aCUUUCGCuuuGC-CCAACCCCgccuacaagaaGCGCACGGa -3'
miRNA:   3'- -GGGAGCG---CGaGGUUGGGG-----------UGCGUGCU- -5'
387 3' -59.5 AC_000011.1 + 11042 0.69 0.263858
Target:  5'- cCCCagGCGCgCCAGCCCCuCGCcCu- -3'
miRNA:   3'- -GGGagCGCGaGGUUGGGGuGCGuGcu -5'
387 3' -59.5 AC_000011.1 + 15544 0.69 0.27062
Target:  5'- gCgCUCGCcaacGCUCCAcgcaacACCCCGUGCGCGu -3'
miRNA:   3'- -GgGAGCG----CGAGGU------UGGGGUGCGUGCu -5'
387 3' -59.5 AC_000011.1 + 15791 0.69 0.277521
Target:  5'- aCCggCGCGCgUCC-GCCaCCACGCuguCGAu -3'
miRNA:   3'- gGGa-GCGCG-AGGuUGG-GGUGCGu--GCU- -5'
387 3' -59.5 AC_000011.1 + 7601 0.68 0.282435
Target:  5'- uUCCUC-CGCgCCAACCCCcaucucccgacuggGCGCuCGAg -3'
miRNA:   3'- -GGGAGcGCGaGGUUGGGG--------------UGCGuGCU- -5'
387 3' -59.5 AC_000011.1 + 9456 0.68 0.291742
Target:  5'- gUCUUCaCGCUgCGGCCCCGCGaggACGGg -3'
miRNA:   3'- -GGGAGcGCGAgGUUGGGGUGCg--UGCU- -5'
387 3' -59.5 AC_000011.1 + 7750 0.68 0.291742
Target:  5'- aUCUCGCcCUCCAGCUCaaaugggaucgCugGCACGGg -3'
miRNA:   3'- gGGAGCGcGAGGUUGGG-----------GugCGUGCU- -5'
387 3' -59.5 AC_000011.1 + 23457 0.68 0.299064
Target:  5'- gCCC-CGcCGC-CCAGCCCCGC-CACc- -3'
miRNA:   3'- -GGGaGC-GCGaGGUUGGGGUGcGUGcu -5'
387 3' -59.5 AC_000011.1 + 11210 0.68 0.299064
Target:  5'- gCUgaCGgGgaUCAGCCCCGCGCGCGc -3'
miRNA:   3'- -GGgaGCgCgaGGUUGGGGUGCGUGCu -5'
387 3' -59.5 AC_000011.1 + 9194 0.68 0.314132
Target:  5'- aCCUCGCGCUCgaaGGCCCC-CGgGa-- -3'
miRNA:   3'- gGGAGCGCGAGg--UUGGGGuGCgUgcu -5'
387 3' -59.5 AC_000011.1 + 21012 0.68 0.314132
Target:  5'- gUCCgaGUGCaCCAGCCCCAC-CGCGGc -3'
miRNA:   3'- -GGGagCGCGaGGUUGGGGUGcGUGCU- -5'
387 3' -59.5 AC_000011.1 + 16902 0.68 0.321879
Target:  5'- gCCCaacuaCGCGCugcauccuUCCAucauCCCCACGC-CGGg -3'
miRNA:   3'- -GGGa----GCGCG--------AGGUu---GGGGUGCGuGCU- -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.