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
18389 3' -55.1 NC_004681.1 + 23572 0.66 0.812777
Target:  5'- uUCCC-CGUCUGC-GAUGacCUUGGCGGCg -3'
miRNA:   3'- -AGGGcGUAGGCGaCUAC--GAGUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 27350 0.66 0.812777
Target:  5'- gCCCcCAUUCgaGCUGAccCUCAACGGCg -3'
miRNA:   3'- aGGGcGUAGG--CGACUacGAGUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 30660 0.66 0.803441
Target:  5'- uUCCCGCGgacgCCGC-GGUcaaGCUCGccuuccaucACGGCc -3'
miRNA:   3'- -AGGGCGUa---GGCGaCUA---CGAGU---------UGCUG- -5'
18389 3' -55.1 NC_004681.1 + 15148 0.66 0.797755
Target:  5'- gCCCGCAgcgugaaaucgccggUCUGCUcGGUGUcgaCAugGACg -3'
miRNA:   3'- aGGGCGU---------------AGGCGA-CUACGa--GUugCUG- -5'
18389 3' -55.1 NC_004681.1 + 50052 0.66 0.793931
Target:  5'- uUCUCGgGUCCGC----GCUUGGCGACu -3'
miRNA:   3'- -AGGGCgUAGGCGacuaCGAGUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 5307 0.66 0.784257
Target:  5'- gUCCUGCAUCUGUggcGAcaGCUCGGCcauGGCg -3'
miRNA:   3'- -AGGGCGUAGGCGa--CUa-CGAGUUG---CUG- -5'
18389 3' -55.1 NC_004681.1 + 25814 0.66 0.784257
Target:  5'- uUCaCCGCcaCCGC-GGUGCUCAugG-Ca -3'
miRNA:   3'- -AG-GGCGuaGGCGaCUACGAGUugCuG- -5'
18389 3' -55.1 NC_004681.1 + 13098 0.66 0.77443
Target:  5'- gCCaCGuCGUCCGC-GGUGC-CAGCGGu -3'
miRNA:   3'- aGG-GC-GUAGGCGaCUACGaGUUGCUg -5'
18389 3' -55.1 NC_004681.1 + 25111 0.66 0.76446
Target:  5'- -gCCGCGgacccaccCCGCUGGaGUaCAACGACg -3'
miRNA:   3'- agGGCGUa-------GGCGACUaCGaGUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 31930 0.67 0.75334
Target:  5'- aUCCCGaccucaaCAUCCuGCacGUGCUgAGCGACg -3'
miRNA:   3'- -AGGGC-------GUAGG-CGacUACGAgUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 65290 0.67 0.744135
Target:  5'- cUCCCaccagGCGUCCaGgUGgcGCUUGGCGGCg -3'
miRNA:   3'- -AGGG-----CGUAGG-CgACuaCGAGUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 72223 0.67 0.744135
Target:  5'- aUCCUGCAuaccgUCCGCgcgGcgGUUgAugGACu -3'
miRNA:   3'- -AGGGCGU-----AGGCGa--CuaCGAgUugCUG- -5'
18389 3' -55.1 NC_004681.1 + 1871 0.67 0.744135
Target:  5'- aUCCCGUagAUUCGCgGAcGCUCAccCGGCu -3'
miRNA:   3'- -AGGGCG--UAGGCGaCUaCGAGUu-GCUG- -5'
18389 3' -55.1 NC_004681.1 + 33266 0.67 0.733801
Target:  5'- gUCCuCGCAguUCCGCUGccggGUGUcaUCGACGcCg -3'
miRNA:   3'- -AGG-GCGU--AGGCGAC----UACG--AGUUGCuG- -5'
18389 3' -55.1 NC_004681.1 + 71714 0.67 0.723369
Target:  5'- gUCCGC-UCCGCUGAguuccacGCUCcGCG-Cg -3'
miRNA:   3'- aGGGCGuAGGCGACUa------CGAGuUGCuG- -5'
18389 3' -55.1 NC_004681.1 + 47106 0.67 0.723369
Target:  5'- -gCCGCcgCCGCUGAg---CGACGAg -3'
miRNA:   3'- agGGCGuaGGCGACUacgaGUUGCUg -5'
18389 3' -55.1 NC_004681.1 + 33041 0.68 0.688378
Target:  5'- aCCCGCcgCCGaugaaguccuucagcGAUGCcgCAGCGACc -3'
miRNA:   3'- aGGGCGuaGGCga-------------CUACGa-GUUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 35597 0.68 0.679795
Target:  5'- -aCUGCAUCUGCgGGUGgUCGgaggaagGCGACg -3'
miRNA:   3'- agGGCGUAGGCGaCUACgAGU-------UGCUG- -5'
18389 3' -55.1 NC_004681.1 + 30868 0.68 0.659307
Target:  5'- gCCCGCcgacCCGCUGGaGCcCcGCGACa -3'
miRNA:   3'- aGGGCGua--GGCGACUaCGaGuUGCUG- -5'
18389 3' -55.1 NC_004681.1 + 39169 0.68 0.648483
Target:  5'- aCCgGCAUccgggCCGCggaGAUGCUCGcccuCGACg -3'
miRNA:   3'- aGGgCGUA-----GGCGa--CUACGAGUu---GCUG- -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.