miRNA display CGI


Results 1 - 20 of 33 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
17027 5' -56.2 NC_004333.2 + 13646 0.66 0.600316
Target:  5'- cGCGcgGUACuCGG-GC-AGCUGcgcGAGCa -3'
miRNA:   3'- uCGCuaCAUG-GCCgCGuUCGAC---CUCG- -5'
17027 5' -56.2 NC_004333.2 + 30636 0.66 0.600316
Target:  5'- cAGCGcgGcaagGCgCGGCGUgcGCUGcucGAGCa -3'
miRNA:   3'- -UCGCuaCa---UG-GCCGCGuuCGAC---CUCG- -5'
17027 5' -56.2 NC_004333.2 + 14657 0.66 0.58925
Target:  5'- cGCuGAUGUugCGGCGCAuuucGCgc-AGCu -3'
miRNA:   3'- uCG-CUACAugGCCGCGUu---CGaccUCG- -5'
17027 5' -56.2 NC_004333.2 + 45979 0.66 0.578221
Target:  5'- cGUGGUGUcccggccugccACuCGGCGCcgaGGGCUGGcacGGCc -3'
miRNA:   3'- uCGCUACA-----------UG-GCCGCG---UUCGACC---UCG- -5'
17027 5' -56.2 NC_004333.2 + 36209 0.66 0.578221
Target:  5'- cGCGAUcGUcgacGCUGcGUGCAAGgcgcucgaccgcCUGGAGCg -3'
miRNA:   3'- uCGCUA-CA----UGGC-CGCGUUC------------GACCUCG- -5'
17027 5' -56.2 NC_004333.2 + 26580 0.66 0.57712
Target:  5'- uGCGAUcGUGucguugaacguggUCGGCGCGuucacgacaaAGCUGGcGGCg -3'
miRNA:   3'- uCGCUA-CAU-------------GGCCGCGU----------UCGACC-UCG- -5'
17027 5' -56.2 NC_004333.2 + 13970 0.67 0.556308
Target:  5'- aGGCGGcg-GCCGGUGCGcgcgAGCUGcGcGCg -3'
miRNA:   3'- -UCGCUacaUGGCCGCGU----UCGAC-CuCG- -5'
17027 5' -56.2 NC_004333.2 + 8948 0.67 0.54544
Target:  5'- cGGCGcUGUccAUCGcguGCGCGGGCUGGAu- -3'
miRNA:   3'- -UCGCuACA--UGGC---CGCGUUCGACCUcg -5'
17027 5' -56.2 NC_004333.2 + 44401 0.67 0.534641
Target:  5'- uGCGcgGUacaacggccuGCCGGgcuCGCuGGCUGGuGCg -3'
miRNA:   3'- uCGCuaCA----------UGGCC---GCGuUCGACCuCG- -5'
17027 5' -56.2 NC_004333.2 + 19490 0.67 0.523919
Target:  5'- uGCGAUcgGcGCUGGCGC--GCUGGcGGCg -3'
miRNA:   3'- uCGCUA--CaUGGCCGCGuuCGACC-UCG- -5'
17027 5' -56.2 NC_004333.2 + 29979 0.68 0.502731
Target:  5'- cGCGcUGccACCGGCGCcGAGC-GcGAGCa -3'
miRNA:   3'- uCGCuACa-UGGCCGCG-UUCGaC-CUCG- -5'
17027 5' -56.2 NC_004333.2 + 48066 0.68 0.501681
Target:  5'- cGCGAUGUcgugcugcucgguGCCgacgaGGCGCAGGCggcaaccGGGCg -3'
miRNA:   3'- uCGCUACA-------------UGG-----CCGCGUUCGac-----CUCG- -5'
17027 5' -56.2 NC_004333.2 + 7706 0.68 0.492277
Target:  5'- uAGCGGUG-AUCGGCGCGgacAGCgacGGAu- -3'
miRNA:   3'- -UCGCUACaUGGCCGCGU---UCGa--CCUcg -5'
17027 5' -56.2 NC_004333.2 + 27724 0.68 0.492277
Target:  5'- uGCGucacgACCGGCGCAGGCUuc-GCg -3'
miRNA:   3'- uCGCuaca-UGGCCGCGUUCGAccuCG- -5'
17027 5' -56.2 NC_004333.2 + 13886 0.68 0.481925
Target:  5'- cGCGAaGUcgGCCGGCaCGGGCUGcGcGGCg -3'
miRNA:   3'- uCGCUaCA--UGGCCGcGUUCGAC-C-UCG- -5'
17027 5' -56.2 NC_004333.2 + 16867 0.69 0.412692
Target:  5'- gGGCGccGUGCuCGGCGUcGGCgcaGGuGCg -3'
miRNA:   3'- -UCGCuaCAUG-GCCGCGuUCGa--CCuCG- -5'
17027 5' -56.2 NC_004333.2 + 3984 0.69 0.412692
Target:  5'- -uCGAUGUugCGGCGUuuAGCUGcuGCg -3'
miRNA:   3'- ucGCUACAugGCCGCGu-UCGACcuCG- -5'
17027 5' -56.2 NC_004333.2 + 47981 0.69 0.411748
Target:  5'- cGGCGGUGUGCggcugugcuacauCGGCGCGuuCUGGcuuGCc -3'
miRNA:   3'- -UCGCUACAUG-------------GCCGCGUucGACCu--CG- -5'
17027 5' -56.2 NC_004333.2 + 4538 0.69 0.40331
Target:  5'- uGGUGGUGcagGCCGGaCGCAcgGGCcGuGAGCu -3'
miRNA:   3'- -UCGCUACa--UGGCC-GCGU--UCGaC-CUCG- -5'
17027 5' -56.2 NC_004333.2 + 22978 0.69 0.40331
Target:  5'- cAGCGucgcgGUACCGGuCGCcgaGAGCaGGaAGCg -3'
miRNA:   3'- -UCGCua---CAUGGCC-GCG---UUCGaCC-UCG- -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.