miRNA display CGI


Results 1 - 20 of 243 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
28768 3' -59 NC_006146.1 + 105699 0.66 0.810064
Target:  5'- cCGGGCUcccagGGcCCCCAGAgcgcCUAGG-GCUc -3'
miRNA:   3'- uGUCCGG-----UC-GGGGUCUa---GAUCCuCGG- -5'
28768 3' -59 NC_006146.1 + 158726 0.66 0.810064
Target:  5'- -aGGaGCCcgaGGCCCCcgAGAUCacgUAGGGGUCu -3'
miRNA:   3'- ugUC-CGG---UCGGGG--UCUAG---AUCCUCGG- -5'
28768 3' -59 NC_006146.1 + 2912 0.66 0.810064
Target:  5'- -aGGGCCugacGCCcaccauguuuaCCGGGgagCUGGGAGUCa -3'
miRNA:   3'- ugUCCGGu---CGG-----------GGUCUa--GAUCCUCGG- -5'
28768 3' -59 NC_006146.1 + 167817 0.66 0.810064
Target:  5'- cGCGuGGCCcGcCCCCGGGUCUucccGGGCUc -3'
miRNA:   3'- -UGU-CCGGuC-GGGGUCUAGAuc--CUCGG- -5'
28768 3' -59 NC_006146.1 + 168749 0.66 0.810064
Target:  5'- cGCGuGGCCcGcCCCCGGGUCUucccGGGCUc -3'
miRNA:   3'- -UGU-CCGGuC-GGGGUCUAGAuc--CUCGG- -5'
28768 3' -59 NC_006146.1 + 74970 0.66 0.810064
Target:  5'- -gGGGCCAGUacagagUCCAGAagc-GGGGCCa -3'
miRNA:   3'- ugUCCGGUCG------GGGUCUagauCCUCGG- -5'
28768 3' -59 NC_006146.1 + 52820 0.66 0.810064
Target:  5'- -gAGGCCGuGCCCaGGAUgcGGaGGGCCg -3'
miRNA:   3'- ugUCCGGU-CGGGgUCUAgaUC-CUCGG- -5'
28768 3' -59 NC_006146.1 + 119250 0.66 0.810064
Target:  5'- gGCAccGGCCcuGGCCCC----CUGGGAGUCc -3'
miRNA:   3'- -UGU--CCGG--UCGGGGucuaGAUCCUCGG- -5'
28768 3' -59 NC_006146.1 + 34080 0.66 0.810064
Target:  5'- -gGGGCCgggGGUCCCGGG---GGGcAGCCg -3'
miRNA:   3'- ugUCCGG---UCGGGGUCUagaUCC-UCGG- -5'
28768 3' -59 NC_006146.1 + 52988 0.66 0.810064
Target:  5'- gGCGGGCgucucgaGGCCCCucuUCUGGcccuGGGCCu -3'
miRNA:   3'- -UGUCCGg------UCGGGGucuAGAUC----CUCGG- -5'
28768 3' -59 NC_006146.1 + 169681 0.66 0.810064
Target:  5'- cGCGuGGCCcGcCCCCGGGUCUucccGGGCUc -3'
miRNA:   3'- -UGU-CCGGuC-GGGGUCUAGAuc--CUCGG- -5'
28768 3' -59 NC_006146.1 + 127447 0.66 0.810064
Target:  5'- -gAGGCUgccGCUCCAGAUgUGGcGGCCc -3'
miRNA:   3'- ugUCCGGu--CGGGGUCUAgAUCcUCGG- -5'
28768 3' -59 NC_006146.1 + 33189 0.66 0.809201
Target:  5'- gUAGGCCcgGGCaCCCccggggggaggccGGAgg-GGGAGCCg -3'
miRNA:   3'- uGUCCGG--UCG-GGG-------------UCUagaUCCUCGG- -5'
28768 3' -59 NC_006146.1 + 134740 0.66 0.804864
Target:  5'- cCAGGCCAGCcaggccaacgcucguCCCAGAg-UGGGAuuuCCa -3'
miRNA:   3'- uGUCCGGUCG---------------GGGUCUagAUCCUc--GG- -5'
28768 3' -59 NC_006146.1 + 25921 0.66 0.801368
Target:  5'- cCAGuCCAGaCCCAGAgacgCccAGGAGCCc -3'
miRNA:   3'- uGUCcGGUCgGGGUCUa---Ga-UCCUCGG- -5'
28768 3' -59 NC_006146.1 + 157624 0.66 0.801368
Target:  5'- cGCGGGCgGGCaccgCCUGGGUCUuGGGcaccAGCCc -3'
miRNA:   3'- -UGUCCGgUCG----GGGUCUAGA-UCC----UCGG- -5'
28768 3' -59 NC_006146.1 + 43178 0.66 0.801368
Target:  5'- cCGGGcCCAGCCCCAucagCUccucgcGGGAGgCg -3'
miRNA:   3'- uGUCC-GGUCGGGGUcua-GA------UCCUCgG- -5'
28768 3' -59 NC_006146.1 + 156572 0.66 0.801368
Target:  5'- cGCAuGGCCugAGUCCCuacuUUUAGGGGCUc -3'
miRNA:   3'- -UGU-CCGG--UCGGGGucu-AGAUCCUCGG- -5'
28768 3' -59 NC_006146.1 + 153494 0.66 0.801368
Target:  5'- cGCAuGGCCugAGUCCCuacuUUUAGGGGCUc -3'
miRNA:   3'- -UGU-CCGG--UCGGGGucu-AGAUCCUCGG- -5'
28768 3' -59 NC_006146.1 + 150416 0.66 0.801368
Target:  5'- cGCAuGGCCugAGUCCCuacuUUUAGGGGCUc -3'
miRNA:   3'- -UGU-CCGG--UCGGGGucu-AGAUCCUCGG- -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.