miRNA display CGI


Results 1 - 20 of 39 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
21238 3' -54.8 NC_004778.3 + 14342 0.66 0.919119
Target:  5'- cCGCCAGCu-GUGUcauguUGCuGGuGCCGGCg -3'
miRNA:   3'- uGUGGUUGuuCACAc----ACG-UC-CGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 25632 0.66 0.919119
Target:  5'- uCGCC-GCAAaUGauUGUGCaagcuugcgcggGGGCCGGCg -3'
miRNA:   3'- uGUGGuUGUUcAC--ACACG------------UCCGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 113435 0.66 0.919119
Target:  5'- aACugCAGCAAGUGUGgGUucacuaaCCGGUa -3'
miRNA:   3'- -UGugGUUGUUCACACaCGucc----GGCCG- -5'
21238 3' -54.8 NC_004778.3 + 121432 0.66 0.919119
Target:  5'- cUACCAGCAGGagcaaacgGUGUGCcGGCaGaGCg -3'
miRNA:   3'- uGUGGUUGUUCa-------CACACGuCCGgC-CG- -5'
21238 3' -54.8 NC_004778.3 + 34451 0.66 0.919119
Target:  5'- cGCGCCGGCAcuUGcUGcucucGUAGGCgGGCu -3'
miRNA:   3'- -UGUGGUUGUucAC-ACa----CGUCCGgCCG- -5'
21238 3' -54.8 NC_004778.3 + 121238 0.66 0.906996
Target:  5'- aACugCGGCGAGUcgggGUcUGCGGcggggucgcucuGCCGGCa -3'
miRNA:   3'- -UGugGUUGUUCA----CAcACGUC------------CGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 25859 0.66 0.906364
Target:  5'- aAUugCGGCGauaauuagGGUGUGUGCcggcgcgaccgugGGcGCUGGCa -3'
miRNA:   3'- -UGugGUUGU--------UCACACACG-------------UC-CGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 49594 0.66 0.900562
Target:  5'- gGCACCGACAGGUagccGUGCGagcgcacuGCgGGCg -3'
miRNA:   3'- -UGUGGUUGUUCAca--CACGUc-------CGgCCG- -5'
21238 3' -54.8 NC_004778.3 + 81773 0.66 0.900562
Target:  5'- uGCGCCggUAGGUGcGcggccUGcCGGGgCGGCg -3'
miRNA:   3'- -UGUGGuuGUUCACaC-----AC-GUCCgGCCG- -5'
21238 3' -54.8 NC_004778.3 + 33176 0.66 0.900562
Target:  5'- aGCACgCGGCAAGg--GUGCuGGaacgCGGCg -3'
miRNA:   3'- -UGUG-GUUGUUCacaCACGuCCg---GCCG- -5'
21238 3' -54.8 NC_004778.3 + 96540 0.66 0.893882
Target:  5'- aGCGCCugcCAAGUgaccaGUGUGCuuugacggugGGGCCaGCg -3'
miRNA:   3'- -UGUGGuu-GUUCA-----CACACG----------UCCGGcCG- -5'
21238 3' -54.8 NC_004778.3 + 1989 0.66 0.893882
Target:  5'- aGCAUgGAcCAGGUGUGgaaccccgccGCAGGCgCGGg -3'
miRNA:   3'- -UGUGgUU-GUUCACACa---------CGUCCG-GCCg -5'
21238 3' -54.8 NC_004778.3 + 95511 0.66 0.886961
Target:  5'- cCGCCAGCucGuUGUG-GuCGGGCCGcGCc -3'
miRNA:   3'- uGUGGUUGuuC-ACACaC-GUCCGGC-CG- -5'
21238 3' -54.8 NC_004778.3 + 43401 0.66 0.886961
Target:  5'- uUugCGGCAGGc--GUGCGaGCCGGCg -3'
miRNA:   3'- uGugGUUGUUCacaCACGUcCGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 50630 0.67 0.879803
Target:  5'- aGCGCCAAUAAaaucGUGUucaaGGGCUGGCu -3'
miRNA:   3'- -UGUGGUUGUUca--CACAcg--UCCGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 77289 0.67 0.872413
Target:  5'- aAUACCAGCGAGUG-GUucGCgaaGGGCaCGcGCg -3'
miRNA:   3'- -UGUGGUUGUUCACaCA--CG---UCCG-GC-CG- -5'
21238 3' -54.8 NC_004778.3 + 52695 0.67 0.870151
Target:  5'- -gGCCAACuGGUGgcguuuUGCAacacgcaguuggccGGCCGGCu -3'
miRNA:   3'- ugUGGUUGuUCACac----ACGU--------------CCGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 95673 0.67 0.848903
Target:  5'- cACGCCAAUggGcagGUGUGgAcGGCCGa- -3'
miRNA:   3'- -UGUGGUUGuuCa--CACACgU-CCGGCcg -5'
21238 3' -54.8 NC_004778.3 + 61341 0.67 0.848903
Target:  5'- uACGCC-GCAGGUucggcuucaUGUGCGGacggcGCCGGCg -3'
miRNA:   3'- -UGUGGuUGUUCAc--------ACACGUC-----CGGCCG- -5'
21238 3' -54.8 NC_004778.3 + 36863 0.68 0.843972
Target:  5'- gGCGCCGgcggugcgcgucuugGCGAGcgcgGUGuUGCccacGGCCGGCc -3'
miRNA:   3'- -UGUGGU---------------UGUUCa---CAC-ACGu---CCGGCCG- -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.