miRNA display CGI


Results 1 - 20 of 105 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
30237 3' -58.3 NC_006273.1 + 226719 0.66 0.905777
Target:  5'- -cGAGACAGuuGGUGGUaaccguguuuUCGgcgcaaacGGCCACg -3'
miRNA:   3'- guCUUUGUCggCCGCCA----------GGC--------UCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 69745 0.66 0.905777
Target:  5'- aCAGAGACcgGGCC-GCGGcaCCGuGCUGCg -3'
miRNA:   3'- -GUCUUUG--UCGGcCGCCa-GGCuCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 152404 0.66 0.90398
Target:  5'- aCAGcAGCuugucgcgcucauaAGCCaGCGGUUCGGccGCCACg -3'
miRNA:   3'- -GUCuUUG--------------UCGGcCGCCAGGCU--CGGUG- -5'
30237 3' -58.3 NC_006273.1 + 104505 0.66 0.899712
Target:  5'- -cGAAcGCGaUCGGCGG-CCGGGUCGCg -3'
miRNA:   3'- guCUU-UGUcGGCCGCCaGGCUCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 144693 0.66 0.899712
Target:  5'- aCAGucAGCAGUCGGUGaG-CUGGcGCCACa -3'
miRNA:   3'- -GUCu-UUGUCGGCCGC-CaGGCU-CGGUG- -5'
30237 3' -58.3 NC_006273.1 + 68812 0.66 0.893433
Target:  5'- cCGGAcGCguAGCCGGCGGcgCCGcGCguCa -3'
miRNA:   3'- -GUCUuUG--UCGGCCGCCa-GGCuCGguG- -5'
30237 3' -58.3 NC_006273.1 + 202474 0.66 0.893433
Target:  5'- uGGAAGCuGCUGGUGGUgacCCaGGGUCAg -3'
miRNA:   3'- gUCUUUGuCGGCCGCCA---GG-CUCGGUg -5'
30237 3' -58.3 NC_006273.1 + 213687 0.66 0.886942
Target:  5'- cCAGGucGCAGga-GCGGUCCGAGUgGCg -3'
miRNA:   3'- -GUCUu-UGUCggcCGCCAGGCUCGgUG- -5'
30237 3' -58.3 NC_006273.1 + 230861 0.66 0.886942
Target:  5'- gGGGAACGGgUCGGCGG-CCG-GUCGg -3'
miRNA:   3'- gUCUUUGUC-GGCCGCCaGGCuCGGUg -5'
30237 3' -58.3 NC_006273.1 + 84110 0.66 0.886942
Target:  5'- cCAGGAAC-GCUuGaaaGGUCCGcGCCGCg -3'
miRNA:   3'- -GUCUUUGuCGGcCg--CCAGGCuCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 127323 0.66 0.886942
Target:  5'- gGGGGccACAGCCGGUGGU-CGuGCaGCg -3'
miRNA:   3'- gUCUU--UGUCGGCCGCCAgGCuCGgUG- -5'
30237 3' -58.3 NC_006273.1 + 189529 0.66 0.886942
Target:  5'- gGGAAGcCAGuCCGGUaccgccgaGGagcccgacgCCGAGCCACa -3'
miRNA:   3'- gUCUUU-GUC-GGCCG--------CCa--------GGCUCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 75486 0.66 0.886942
Target:  5'- gCAGGAcCcGCCGGCGcUUCG-GCCGCc -3'
miRNA:   3'- -GUCUUuGuCGGCCGCcAGGCuCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 233376 0.66 0.880243
Target:  5'- -------cGCCGGCGGccuccgucUCCGuGCCGCu -3'
miRNA:   3'- gucuuuguCGGCCGCC--------AGGCuCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 205145 0.66 0.880243
Target:  5'- aAGAuACAGCCucgGGCGcggaaaguGUCCucGCCACg -3'
miRNA:   3'- gUCUuUGUCGG---CCGC--------CAGGcuCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 184417 0.66 0.880243
Target:  5'- cCGGugucuauguCGGCCGGCGGUgCUGGcGUCACc -3'
miRNA:   3'- -GUCuuu------GUCGGCCGCCA-GGCU-CGGUG- -5'
30237 3' -58.3 NC_006273.1 + 38483 0.66 0.880243
Target:  5'- -------cGCCGGCGGccuccgucUCCGuGCCGCu -3'
miRNA:   3'- gucuuuguCGGCCGCC--------AGGCuCGGUG- -5'
30237 3' -58.3 NC_006273.1 + 171650 0.66 0.878878
Target:  5'- uCAGAGacacgauACAGCCGGCGGUaUCGAuaaucuuGUUGCg -3'
miRNA:   3'- -GUCUU-------UGUCGGCCGCCA-GGCU-------CGGUG- -5'
30237 3' -58.3 NC_006273.1 + 109590 0.66 0.873339
Target:  5'- uCGGAGACGGUCaGcGCGGagaaggauucgCCGAGCgGCa -3'
miRNA:   3'- -GUCUUUGUCGG-C-CGCCa----------GGCUCGgUG- -5'
30237 3' -58.3 NC_006273.1 + 111325 0.66 0.873339
Target:  5'- gGGAGGCcuGGCCGcauagcGCGG-CCGcGCCGCu -3'
miRNA:   3'- gUCUUUG--UCGGC------CGCCaGGCuCGGUG- -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.