miRNA display CGI


Results 1 - 20 of 29 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
9035 5' -56.4 NC_002512.2 + 82488 0.66 0.964392
Target:  5'- gCCguuUgACGCCgguCCUCUGcaUGGCGUGGu -3'
miRNA:   3'- aGGau-AgUGCGG---GGAGGC--ACUGCACC- -5'
9035 5' -56.4 NC_002512.2 + 116720 0.66 0.964392
Target:  5'- gCCgGUCGCGUCCCgcccggCCGcGGCGaGGc -3'
miRNA:   3'- aGGaUAGUGCGGGGa-----GGCaCUGCaCC- -5'
9035 5' -56.4 NC_002512.2 + 125743 0.66 0.964392
Target:  5'- gUCCggGUCGCGUCCCccagcccgUCCGUGAUc--- -3'
miRNA:   3'- -AGGa-UAGUGCGGGG--------AGGCACUGcacc -5'
9035 5' -56.4 NC_002512.2 + 217683 0.66 0.964074
Target:  5'- cUCUAUCAguuuucauauuuuCGCCCCUCUuauauGCGUGGu -3'
miRNA:   3'- aGGAUAGU-------------GCGGGGAGGcac--UGCACC- -5'
9035 5' -56.4 NC_002512.2 + 97829 0.66 0.963111
Target:  5'- cUCCUGuuggacuguUCGCGCaCCCUCCGgucccuggccgacGACGUc- -3'
miRNA:   3'- -AGGAU---------AGUGCG-GGGAGGCa------------CUGCAcc -5'
9035 5' -56.4 NC_002512.2 + 60259 0.66 0.961129
Target:  5'- aCCUAUCAgGCCCCUCUcauauagGACu--- -3'
miRNA:   3'- aGGAUAGUgCGGGGAGGca-----CUGcacc -5'
9035 5' -56.4 NC_002512.2 + 165781 0.66 0.961129
Target:  5'- cUCCUG-CGCGCCCgUCgagGACGUcuGGg -3'
miRNA:   3'- -AGGAUaGUGCGGGgAGgcaCUGCA--CC- -5'
9035 5' -56.4 NC_002512.2 + 205425 0.66 0.961129
Target:  5'- cUCCUAUgCuaagagGCGCCCCaCCGUG-CGUucGGa -3'
miRNA:   3'- -AGGAUA-G------UGCGGGGaGGCACuGCA--CC- -5'
9035 5' -56.4 NC_002512.2 + 185449 0.66 0.961129
Target:  5'- gUCCUGUC-CGCCCucugCUCCuucGcCGUGGu -3'
miRNA:   3'- -AGGAUAGuGCGGG----GAGGca-CuGCACC- -5'
9035 5' -56.4 NC_002512.2 + 139187 0.66 0.961129
Target:  5'- cCCUGUCACGCCgaCgCCGUcgagGACcUGGc -3'
miRNA:   3'- aGGAUAGUGCGGg-GaGGCA----CUGcACC- -5'
9035 5' -56.4 NC_002512.2 + 171971 0.66 0.957666
Target:  5'- uUCCUcUUACGUCCCgCCuuagGAgGUGGg -3'
miRNA:   3'- -AGGAuAGUGCGGGGaGGca--CUgCACC- -5'
9035 5' -56.4 NC_002512.2 + 193919 0.66 0.953997
Target:  5'- ---gAUCGCGUCCCggacUCCGcUGACGgccgGGg -3'
miRNA:   3'- aggaUAGUGCGGGG----AGGC-ACUGCa---CC- -5'
9035 5' -56.4 NC_002512.2 + 47713 0.66 0.951695
Target:  5'- aUCCUG-CGCGCCgCCUCgCGggagGAgggcucggaacagauCGUGGa -3'
miRNA:   3'- -AGGAUaGUGCGG-GGAG-GCa---CU---------------GCACC- -5'
9035 5' -56.4 NC_002512.2 + 206029 0.67 0.941725
Target:  5'- aCCUGauaCACGuCCCCuUCCGUcgUGUGGa -3'
miRNA:   3'- aGGAUa--GUGC-GGGG-AGGCAcuGCACC- -5'
9035 5' -56.4 NC_002512.2 + 68385 0.67 0.932466
Target:  5'- gUCCgcgcaGCGCaccaggUCCUCCuUGACGUGGg -3'
miRNA:   3'- -AGGauag-UGCG------GGGAGGcACUGCACC- -5'
9035 5' -56.4 NC_002512.2 + 83394 0.68 0.916385
Target:  5'- cCCg--CGCGUCCCcgCCGUGGggguuucCGUGGu -3'
miRNA:   3'- aGGauaGUGCGGGGa-GGCACU-------GCACC- -5'
9035 5' -56.4 NC_002512.2 + 226410 0.68 0.911322
Target:  5'- aCCcGUCGCGUCCgcguCUCCG-GACGcGGg -3'
miRNA:   3'- aGGaUAGUGCGGG----GAGGCaCUGCaCC- -5'
9035 5' -56.4 NC_002512.2 + 212010 0.68 0.905492
Target:  5'- gCCUAUCACGUCCC-CCG-GGCc--- -3'
miRNA:   3'- aGGAUAGUGCGGGGaGGCaCUGcacc -5'
9035 5' -56.4 NC_002512.2 + 24790 0.68 0.899446
Target:  5'- gUCCgggCGCGCCCC-CCGagGACGg-- -3'
miRNA:   3'- -AGGauaGUGCGGGGaGGCa-CUGCacc -5'
9035 5' -56.4 NC_002512.2 + 163129 0.68 0.892551
Target:  5'- cUCCUAUCACuucgucucccguaGCCucaccgccaCCUUCGUGACG-GGc -3'
miRNA:   3'- -AGGAUAGUG-------------CGG---------GGAGGCACUGCaCC- -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.