miRNA display CGI


Results 1 - 20 of 21 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
33139 3' -55.5 NC_007497.1 + 42824 0.66 0.629464
Target:  5'- gGCG--CCCGUGCGCGCGCGaaagaugggagaGGCAa- -3'
miRNA:   3'- -UGUagGGGUAUGCGUGCGCg-----------UCGUac -5'
33139 3' -55.5 NC_007497.1 + 35833 0.66 0.609168
Target:  5'- cGCGUUgCU-UGCGCgAUGCGCAGCAc- -3'
miRNA:   3'- -UGUAGgGGuAUGCG-UGCGCGUCGUac -5'
33139 3' -55.5 NC_007497.1 + 36431 0.66 0.597917
Target:  5'- gGCAgCCgaCAUcUGCGCGCGCAGCu-- -3'
miRNA:   3'- -UGUaGGg-GUAuGCGUGCGCGUCGuac -5'
33139 3' -55.5 NC_007497.1 + 25758 0.66 0.586697
Target:  5'- cGCAUCCCgcuUAUACGCA-GCaGCGGCu-- -3'
miRNA:   3'- -UGUAGGG---GUAUGCGUgCG-CGUCGuac -5'
33139 3' -55.5 NC_007497.1 + 28108 0.67 0.575518
Target:  5'- uCGUCUugCCGUcaaagGCGC-CGCGCAGCAc- -3'
miRNA:   3'- uGUAGG--GGUA-----UGCGuGCGCGUCGUac -5'
33139 3' -55.5 NC_007497.1 + 29323 0.67 0.564387
Target:  5'- cGCGaCUCCGUACGCGaaUGCGaCAGCGc- -3'
miRNA:   3'- -UGUaGGGGUAUGCGU--GCGC-GUCGUac -5'
33139 3' -55.5 NC_007497.1 + 22852 0.67 0.553313
Target:  5'- uGCggCCgCCAUcguuCGCGCGCGCuGCGa- -3'
miRNA:   3'- -UGuaGG-GGUAu---GCGUGCGCGuCGUac -5'
33139 3' -55.5 NC_007497.1 + 31976 0.67 0.542306
Target:  5'- cCAUCgCCGaacccggccuUGCGCACaCGCAGCGUc -3'
miRNA:   3'- uGUAGgGGU----------AUGCGUGcGCGUCGUAc -5'
33139 3' -55.5 NC_007497.1 + 30108 0.67 0.531372
Target:  5'- uCAUgCUUCAccuCGCGCGCGgAGCAUGg -3'
miRNA:   3'- uGUA-GGGGUau-GCGUGCGCgUCGUAC- -5'
33139 3' -55.5 NC_007497.1 + 27925 0.68 0.499082
Target:  5'- uCAUCCCCGUAgacgccuuugggUGCACGCagauaGCGGC-UGa -3'
miRNA:   3'- uGUAGGGGUAU------------GCGUGCG-----CGUCGuAC- -5'
33139 3' -55.5 NC_007497.1 + 23850 0.69 0.447344
Target:  5'- gACGUugCUCCAgGCGCGCGCGgcacucaucCGGCGUGa -3'
miRNA:   3'- -UGUA--GGGGUaUGCGUGCGC---------GUCGUAC- -5'
33139 3' -55.5 NC_007497.1 + 6588 0.69 0.427494
Target:  5'- aACAUUCCCgAUGCGCucaaguucCGCGCAGgGUu -3'
miRNA:   3'- -UGUAGGGG-UAUGCGu-------GCGCGUCgUAc -5'
33139 3' -55.5 NC_007497.1 + 18266 0.69 0.417767
Target:  5'- uACGUCgCgCGUGUGCGCGCGCAGaaCGUGa -3'
miRNA:   3'- -UGUAGgG-GUAUGCGUGCGCGUC--GUAC- -5'
33139 3' -55.5 NC_007497.1 + 1870 0.69 0.408176
Target:  5'- cUAUCCUCG-ACGCACuCGCGGCAg- -3'
miRNA:   3'- uGUAGGGGUaUGCGUGcGCGUCGUac -5'
33139 3' -55.5 NC_007497.1 + 9213 0.69 0.408176
Target:  5'- gGCGUggCCG-ACGCgaucGCGCGCGGCAUGg -3'
miRNA:   3'- -UGUAggGGUaUGCG----UGCGCGUCGUAC- -5'
33139 3' -55.5 NC_007497.1 + 9985 0.7 0.362349
Target:  5'- gGCGUCgCUG-GCGUugGCGCAGCAg- -3'
miRNA:   3'- -UGUAGgGGUaUGCGugCGCGUCGUac -5'
33139 3' -55.5 NC_007497.1 + 42722 0.71 0.345046
Target:  5'- -gGUCCCCGgcUGCGCAgCGUGuCAcGCAUGg -3'
miRNA:   3'- ugUAGGGGU--AUGCGU-GCGC-GU-CGUAC- -5'
33139 3' -55.5 NC_007497.1 + 31142 0.72 0.267582
Target:  5'- gGCGUCCCC-UGCgGCcCGUGCGGCGg- -3'
miRNA:   3'- -UGUAGGGGuAUG-CGuGCGCGUCGUac -5'
33139 3' -55.5 NC_007497.1 + 31076 0.72 0.267582
Target:  5'- gGCGUCCCC-UGCgGCcCGUGCGGCGa- -3'
miRNA:   3'- -UGUAGGGGuAUG-CGuGCGCGUCGUac -5'
33139 3' -55.5 NC_007497.1 + 1578 0.8 0.077585
Target:  5'- cACAUCCCCGUacagaACGCAUGCaGCAGCGc- -3'
miRNA:   3'- -UGUAGGGGUA-----UGCGUGCG-CGUCGUac -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.