miRNA display CGI


Results 1 - 20 of 26 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
11686 3' -54.7 NC_003102.1 + 15726 1.08 0.003703
Target:  5'- uCGCCAUUGCCACCAUCGAAUCGGCCAc -3'
miRNA:   3'- -GCGGUAACGGUGGUAGCUUAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 71483 0.74 0.536327
Target:  5'- cCGCCGUUGCCGCCucuGUCGcuAUCggaauuuacauuuauGGCCAg -3'
miRNA:   3'- -GCGGUAACGGUGG---UAGCu-UAG---------------CCGGU- -5'
11686 3' -54.7 NC_003102.1 + 21040 0.73 0.604052
Target:  5'- uGCCAccGCCGCCccaaGUCGAcUCGGCUc -3'
miRNA:   3'- gCGGUaaCGGUGG----UAGCUuAGCCGGu -5'
11686 3' -54.7 NC_003102.1 + 59347 0.72 0.656081
Target:  5'- -aCCGUUGCCGCCGUCGccGUC-GCCGc -3'
miRNA:   3'- gcGGUAACGGUGGUAGCu-UAGcCGGU- -5'
11686 3' -54.7 NC_003102.1 + 44238 0.71 0.676813
Target:  5'- aCGCUAUUGUgaugaCAUCAUCGAuccAUCGGUCGc -3'
miRNA:   3'- -GCGGUAACG-----GUGGUAGCU---UAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 119479 0.71 0.707604
Target:  5'- aCGCCAccggcGCCGCCGUUug--CGGCCAa -3'
miRNA:   3'- -GCGGUaa---CGGUGGUAGcuuaGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 24110 0.71 0.717748
Target:  5'- uGCCAaUGCgUACCGuUUGAAuUCGGCCAu -3'
miRNA:   3'- gCGGUaACG-GUGGU-AGCUU-AGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 58655 0.7 0.737799
Target:  5'- uCGUCGacGUCGCCGUCGcAGUCGGCa- -3'
miRNA:   3'- -GCGGUaaCGGUGGUAGC-UUAGCCGgu -5'
11686 3' -54.7 NC_003102.1 + 29923 0.7 0.737799
Target:  5'- uGUUAUcGCCGCCGUUGuaacuuuuucaaAAUCGGCCGc -3'
miRNA:   3'- gCGGUAaCGGUGGUAGC------------UUAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 39693 0.7 0.757469
Target:  5'- gGCCGggaugUGCCAUCGUCGAAUUuGCg- -3'
miRNA:   3'- gCGGUa----ACGGUGGUAGCUUAGcCGgu -5'
11686 3' -54.7 NC_003102.1 + 21472 0.7 0.776679
Target:  5'- aGCCGgcaUGUUACCAUCucGAUCGGUCGg -3'
miRNA:   3'- gCGGUa--ACGGUGGUAGc-UUAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 42489 0.7 0.776679
Target:  5'- aCGCCGggugUGcCCGugAUCGAGUgGGCCGa -3'
miRNA:   3'- -GCGGUa---AC-GGUggUAGCUUAgCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 39304 0.69 0.791666
Target:  5'- aGCCGaaaugucuaacggUGCgCGCCGUcucgcgcaaacCGAAUCGGCCAu -3'
miRNA:   3'- gCGGUa------------ACG-GUGGUA-----------GCUUAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 113753 0.69 0.799019
Target:  5'- gGCUAUUcgaauuauuugagcgGCCGCCAcgUCGAuUCGGUCGa -3'
miRNA:   3'- gCGGUAA---------------CGGUGGU--AGCUuAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 57921 0.69 0.81342
Target:  5'- uCGCguUcGCCGCCGUCGAAgguauauucuuuUCGGgCAg -3'
miRNA:   3'- -GCGguAaCGGUGGUAGCUU------------AGCCgGU- -5'
11686 3' -54.7 NC_003102.1 + 63183 0.68 0.839219
Target:  5'- gCGCCuAUU-CgGCCGUCGuuUUGGCCAc -3'
miRNA:   3'- -GCGG-UAAcGgUGGUAGCuuAGCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 64074 0.68 0.839219
Target:  5'- uCGCCuUUGCggcaACCGUUGucugCGGCCAu -3'
miRNA:   3'- -GCGGuAACGg---UGGUAGCuua-GCCGGU- -5'
11686 3' -54.7 NC_003102.1 + 19546 0.68 0.844994
Target:  5'- cCGCCGaucucGCUcgucucuccuaaucACCAUCGAGUCGGgCAc -3'
miRNA:   3'- -GCGGUaa---CGG--------------UGGUAGCUUAGCCgGU- -5'
11686 3' -54.7 NC_003102.1 + 82482 0.68 0.855458
Target:  5'- aCGCUGUUGCucUugC-UCGAAUCGGCgGa -3'
miRNA:   3'- -GCGGUAACG--GugGuAGCUUAGCCGgU- -5'
11686 3' -54.7 NC_003102.1 + 69660 0.68 0.863267
Target:  5'- aCGCCAccuUUGUCACCAUCGGAccguauUCGaUCAc -3'
miRNA:   3'- -GCGGU---AACGGUGGUAGCUU------AGCcGGU- -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.