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
28836 3' -54.1 NC_006146.1 + 68415 1.09 0.005573
Target:  5'- aCUCUGUCAUCCGCGAGACCCUGAACGc -3'
miRNA:   3'- -GAGACAGUAGGCGCUCUGGGACUUGC- -5'
28836 3' -54.1 NC_006146.1 + 114696 0.77 0.475414
Target:  5'- gCUCgcgGcUCGUCCGCGAGACCC-GGGCc -3'
miRNA:   3'- -GAGa--C-AGUAGGCGCUCUGGGaCUUGc -5'
28836 3' -54.1 NC_006146.1 + 106405 0.73 0.729145
Target:  5'- cCUgUGcCAcggUCCGCcacaacaagguggugGAGACCCUGAGCGg -3'
miRNA:   3'- -GAgACaGU---AGGCG---------------CUCUGGGACUUGC- -5'
28836 3' -54.1 NC_006146.1 + 104627 0.71 0.79173
Target:  5'- aUCUGaUCAggaggacCCGCGAGACCCUGc--- -3'
miRNA:   3'- gAGAC-AGUa------GGCGCUCUGGGACuugc -5'
28836 3' -54.1 NC_006146.1 + 89658 0.7 0.824251
Target:  5'- gCUCUGUUcuagugugaaucauGUCCGacggaaGGGGCCCgggGAACGg -3'
miRNA:   3'- -GAGACAG--------------UAGGCg-----CUCUGGGa--CUUGC- -5'
28836 3' -54.1 NC_006146.1 + 20688 0.69 0.892063
Target:  5'- uUUUGUC-UCCGCGugcgcauaauggcGGCCCUGGACc -3'
miRNA:   3'- gAGACAGuAGGCGCu------------CUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 14532 0.69 0.892063
Target:  5'- uUUUGUC-UCCGCGugcgcauaauggcGGCCCUGGACc -3'
miRNA:   3'- gAGACAGuAGGCGCu------------CUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 17610 0.69 0.892063
Target:  5'- uUUUGUC-UCCGCGugcgcauaauggcGGCCCUGGACc -3'
miRNA:   3'- gAGACAGuAGGCGCu------------CUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 26844 0.69 0.892063
Target:  5'- uUUUGUC-UCCGCGugcgcauaauggcGGCCCUGGACc -3'
miRNA:   3'- gAGACAGuAGGCGCu------------CUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 23766 0.69 0.892063
Target:  5'- uUUUGUC-UCCGCGugcgcauaauggcGGCCCUGGACc -3'
miRNA:   3'- gAGACAGuAGGCGCu------------CUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 161759 0.69 0.894714
Target:  5'- -gCUGagGUCCGagGGGGCgCCUGGGCGg -3'
miRNA:   3'- gaGACagUAGGCg-CUCUG-GGACUUGC- -5'
28836 3' -54.1 NC_006146.1 + 42130 0.68 0.907416
Target:  5'- cCUCUGgCAcgCCGUGu--CCCUGAGCGu -3'
miRNA:   3'- -GAGACaGUa-GGCGCucuGGGACUUGC- -5'
28836 3' -54.1 NC_006146.1 + 111622 0.68 0.912827
Target:  5'- -aCUGcCAgcccaggUCCGCGAagacgucggccaGGCCCUGAACa -3'
miRNA:   3'- gaGACaGU-------AGGCGCU------------CUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 50301 0.68 0.924708
Target:  5'- aUCUGUCAggcgCCGCcGGGCCUUGucCa -3'
miRNA:   3'- gAGACAGUa---GGCGcUCUGGGACuuGc -5'
28836 3' -54.1 NC_006146.1 + 15451 0.68 0.929997
Target:  5'- -cCUGgcgCAgCagaGCGAGACCCUGAcCGa -3'
miRNA:   3'- gaGACa--GUaGg--CGCUCUGGGACUuGC- -5'
28836 3' -54.1 NC_006146.1 + 68782 0.67 0.93939
Target:  5'- gCUCUGUCAUCUGgaacaccaUGAucucucuGGCCgUGAGCGg -3'
miRNA:   3'- -GAGACAGUAGGC--------GCU-------CUGGgACUUGC- -5'
28836 3' -54.1 NC_006146.1 + 86295 0.67 0.948357
Target:  5'- cCUCUGUC--CgGCauggcuggaguagGAGGCCCUGGGCa -3'
miRNA:   3'- -GAGACAGuaGgCG-------------CUCUGGGACUUGc -5'
28836 3' -54.1 NC_006146.1 + 41039 0.67 0.952893
Target:  5'- uCUCcccccCGUCCGCGGcGGCCCUGGGgGc -3'
miRNA:   3'- -GAGaca--GUAGGCGCU-CUGGGACUUgC- -5'
28836 3' -54.1 NC_006146.1 + 52304 0.67 0.956776
Target:  5'- --aUGUCAUgCGCGuaggugcuGACCCUGA-CGu -3'
miRNA:   3'- gagACAGUAgGCGCu-------CUGGGACUuGC- -5'
28836 3' -54.1 NC_006146.1 + 160774 0.67 0.956776
Target:  5'- aCUUUGUCGUCCgggggcgaggGUGAGACCCa----- -3'
miRNA:   3'- -GAGACAGUAGG----------CGCUCUGGGacuugc -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.