miRNA display CGI


Results 1 - 20 of 67 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
27028 5' -56.5 NC_005832.1 + 1237 0.68 0.74361
Target:  5'- gCCGGCugGGCcaccAGGCCC--GACGCCGUg -3'
miRNA:   3'- -GGCUG--CCGu---UCUGGGagUUGCGGCAg -5'
27028 5' -56.5 NC_005832.1 + 1739 0.67 0.766819
Target:  5'- -aGACGGUggacaacugccuccaGcAGGCCCUCAuggccacaGCCGUCa -3'
miRNA:   3'- ggCUGCCG---------------U-UCUGGGAGUug------CGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 2132 0.69 0.69357
Target:  5'- uCCGAgGGggaCAGGGCCaCgaccaUGACGCCGUCg -3'
miRNA:   3'- -GGCUgCC---GUUCUGG-Ga----GUUGCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 2276 0.73 0.443541
Target:  5'- cCCGGUGGCGuugcuGGCCgUCuccAACGCCGUCa -3'
miRNA:   3'- -GGCUGCCGUu----CUGGgAG---UUGCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 2418 0.66 0.818023
Target:  5'- cCUGACGGCGuuggAGACggCCagCAACGCCa-- -3'
miRNA:   3'- -GGCUGCCGU----UCUG--GGa-GUUGCGGcag -5'
27028 5' -56.5 NC_005832.1 + 4934 0.68 0.753357
Target:  5'- -gGACGGCGAG-CCCgagaCGAUGCC-UCc -3'
miRNA:   3'- ggCUGCCGUUCuGGGa---GUUGCGGcAG- -5'
27028 5' -56.5 NC_005832.1 + 6988 0.69 0.673123
Target:  5'- aCGGCGGgCAcggcauGGACCCUCAGaggUGCUGgUCg -3'
miRNA:   3'- gGCUGCC-GU------UCUGGGAGUU---GCGGC-AG- -5'
27028 5' -56.5 NC_005832.1 + 7074 0.67 0.791166
Target:  5'- cCCcAUGGCGu--CCCUCAcugUGCCGUCg -3'
miRNA:   3'- -GGcUGCCGUucuGGGAGUu--GCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 7535 0.74 0.399132
Target:  5'- cCCGAgGGCAcGGACCC-CG-CGUCGUCc -3'
miRNA:   3'- -GGCUgCCGU-UCUGGGaGUuGCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 9102 0.66 0.843332
Target:  5'- gCGugGGguauaAAGuCCCUCc-UGCCGUCa -3'
miRNA:   3'- gGCugCCg----UUCuGGGAGuuGCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 9613 1.12 0.001286
Target:  5'- gCCGACGGCAAGACCCUCAACGCCGUCa -3'
miRNA:   3'- -GGCUGCCGUUCUGGGAGUUGCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 9619 0.66 0.851388
Target:  5'- cCUGG-GGCAGGcuguCCCUCAG-GUCGUCu -3'
miRNA:   3'- -GGCUgCCGUUCu---GGGAGUUgCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 10191 0.67 0.809231
Target:  5'- -aGGCGGUggagAGGAUCCUCAugacuucCGCCGcCg -3'
miRNA:   3'- ggCUGCCG----UUCUGGGAGUu------GCGGCaG- -5'
27028 5' -56.5 NC_005832.1 + 11816 0.68 0.733762
Target:  5'- cCUGGCucuGGCcGGGCuCCUCGugauggcCGCCGUCg -3'
miRNA:   3'- -GGCUG---CCGuUCUG-GGAGUu------GCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 12011 0.66 0.835081
Target:  5'- -aGACGGa---GCCCUCAcCGCCGa- -3'
miRNA:   3'- ggCUGCCguucUGGGAGUuGCGGCag -5'
27028 5' -56.5 NC_005832.1 + 12068 0.67 0.809231
Target:  5'- gCCGGCGGCAaacgcagaaGGAUCggUCAcguAgGCCGUCu -3'
miRNA:   3'- -GGCUGCCGU---------UCUGGg-AGU---UgCGGCAG- -5'
27028 5' -56.5 NC_005832.1 + 12848 0.69 0.673123
Target:  5'- uCC-ACGGCGAaACCCUCAcUGCCauGUCa -3'
miRNA:   3'- -GGcUGCCGUUcUGGGAGUuGCGG--CAG- -5'
27028 5' -56.5 NC_005832.1 + 12895 0.7 0.621561
Target:  5'- cCUGGCGuGCGGGGCCCUgcACGgCGUg -3'
miRNA:   3'- -GGCUGC-CGUUCUGGGAguUGCgGCAg -5'
27028 5' -56.5 NC_005832.1 + 13440 0.67 0.772517
Target:  5'- aUGGcCGGCAAGACCau---CGCCGUg -3'
miRNA:   3'- gGCU-GCCGUUCUGGgaguuGCGGCAg -5'
27028 5' -56.5 NC_005832.1 + 19707 0.69 0.683368
Target:  5'- uCCGAaacCGGcCAAGACCgUCAGgGggaCCGUCa -3'
miRNA:   3'- -GGCU---GCC-GUUCUGGgAGUUgC---GGCAG- -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.