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
28784 5' -54.2 NC_006146.1 + 130298 0.66 0.970284
Target:  5'- -gCAGCGg-CGGCAUGCgGAGguUCGGc -3'
miRNA:   3'- gaGUUGUagGCCGUGCG-CUCguAGCU- -5'
28784 5' -54.2 NC_006146.1 + 3116 0.66 0.967266
Target:  5'- cCUC--UAUCCGGCAC-CGuGCGUCu- -3'
miRNA:   3'- -GAGuuGUAGGCCGUGcGCuCGUAGcu -5'
28784 5' -54.2 NC_006146.1 + 86254 0.66 0.964038
Target:  5'- gUUGACAgcaGGCACGUGGGCAgcaCGGc -3'
miRNA:   3'- gAGUUGUaggCCGUGCGCUCGUa--GCU- -5'
28784 5' -54.2 NC_006146.1 + 55506 0.66 0.964038
Target:  5'- -cCAGCugccUCCuGCACGCGAGCGgccaGGg -3'
miRNA:   3'- gaGUUGu---AGGcCGUGCGCUCGUag--CU- -5'
28784 5' -54.2 NC_006146.1 + 127948 0.66 0.964038
Target:  5'- gCUCAGCGUgcCCGGgGCGgaGGGCAggGAc -3'
miRNA:   3'- -GAGUUGUA--GGCCgUGCg-CUCGUagCU- -5'
28784 5' -54.2 NC_006146.1 + 3538 0.67 0.948915
Target:  5'- cCUCAGCccCCGGCcggcgccgccGCGCGuGCAgcCGAg -3'
miRNA:   3'- -GAGUUGuaGGCCG----------UGCGCuCGUa-GCU- -5'
28784 5' -54.2 NC_006146.1 + 2606 0.67 0.948915
Target:  5'- cCUCAGCccCCGGCcggcgccgccGCGCGuGCAgcCGAg -3'
miRNA:   3'- -GAGUUGuaGGCCG----------UGCGCuCGUa-GCU- -5'
28784 5' -54.2 NC_006146.1 + 1674 0.67 0.948915
Target:  5'- cCUCAGCccCCGGCcggcgccgccGCGCGuGCAgcCGAg -3'
miRNA:   3'- -GAGUUGuaGGCCG----------UGCGCuCGUa-GCU- -5'
28784 5' -54.2 NC_006146.1 + 743 0.67 0.948915
Target:  5'- cCUCAGCccCCGGCcggcgccgccGCGCGuGCAgcCGAg -3'
miRNA:   3'- -GAGUUGuaGGCCG----------UGCGCuCGUa-GCU- -5'
28784 5' -54.2 NC_006146.1 + 73854 0.67 0.935141
Target:  5'- uUCAGCAUCCcaaCACGCGAGCcAUaCGc -3'
miRNA:   3'- gAGUUGUAGGcc-GUGCGCUCG-UA-GCu -5'
28784 5' -54.2 NC_006146.1 + 32051 0.67 0.930073
Target:  5'- gUCAugAcCCgGGCgugGCGAGCAUCGGu -3'
miRNA:   3'- gAGUugUaGG-CCGug-CGCUCGUAGCU- -5'
28784 5' -54.2 NC_006146.1 + 135881 0.67 0.930073
Target:  5'- gUCAugAcCCgGGCgugGCGAGCAUCGGu -3'
miRNA:   3'- gAGUugUaGG-CCGug-CGCUCGUAGCU- -5'
28784 5' -54.2 NC_006146.1 + 64745 0.67 0.930073
Target:  5'- uCUgGAUggCCuGCAUGCGAGCGUCc- -3'
miRNA:   3'- -GAgUUGuaGGcCGUGCGCUCGUAGcu -5'
28784 5' -54.2 NC_006146.1 + 43283 0.68 0.919215
Target:  5'- cCUgGAgGUCCGGCAgGUGccuAGCGUcCGAa -3'
miRNA:   3'- -GAgUUgUAGGCCGUgCGC---UCGUA-GCU- -5'
28784 5' -54.2 NC_006146.1 + 2080 0.68 0.901137
Target:  5'- gUCGGCAUUCuauugGGCAacaGCGAGCAagGAg -3'
miRNA:   3'- gAGUUGUAGG-----CCGUg--CGCUCGUagCU- -5'
28784 5' -54.2 NC_006146.1 + 159266 0.68 0.901137
Target:  5'- -gCAACG-CCGcCACGCGGGCcUCGGg -3'
miRNA:   3'- gaGUUGUaGGCcGUGCGCUCGuAGCU- -5'
28784 5' -54.2 NC_006146.1 + 51969 0.69 0.894641
Target:  5'- -cCGACGgggaggucUCCGGCAUGCGGGC--CGGg -3'
miRNA:   3'- gaGUUGU--------AGGCCGUGCGCUCGuaGCU- -5'
28784 5' -54.2 NC_006146.1 + 105837 0.69 0.894641
Target:  5'- -cCGACAUCCGGagGCGCugccaaGAGC-UCGAg -3'
miRNA:   3'- gaGUUGUAGGCCg-UGCG------CUCGuAGCU- -5'
28784 5' -54.2 NC_006146.1 + 152480 0.69 0.880959
Target:  5'- -gCGACAUCUGGCGCGUGcGCcuugUGAg -3'
miRNA:   3'- gaGUUGUAGGCCGUGCGCuCGua--GCU- -5'
28784 5' -54.2 NC_006146.1 + 100699 0.73 0.663701
Target:  5'- cCUCGGCAcCCGGCGCuGCGGGgGUgGGu -3'
miRNA:   3'- -GAGUUGUaGGCCGUG-CGCUCgUAgCU- -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.