miRNA display CGI


Results 1 - 20 of 71 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
17135 3' -55.8 NC_004333.2 + 8015 0.66 0.642412
Target:  5'- -cGAcuacUCGUcCGaCGGCG-ACAGCGGCGc -3'
miRNA:   3'- uaCU----AGCAcGC-GCUGCuUGUCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 41688 0.66 0.642412
Target:  5'- ---cUCGUGCuCGACGcg-GGCGGCAa -3'
miRNA:   3'- uacuAGCACGcGCUGCuugUCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 22484 0.66 0.642412
Target:  5'- cUGAUCgGUGCGCGcaugcgccGCGAagccucgaccugGCAGaCGGCc -3'
miRNA:   3'- uACUAG-CACGCGC--------UGCU------------UGUC-GCCGu -5'
17135 3' -55.8 NC_004333.2 + 8786 0.66 0.642412
Target:  5'- gAUGAUCGcgGacucgaGCGGCGucACGGuCGGCAc -3'
miRNA:   3'- -UACUAGCa-Cg-----CGCUGCu-UGUC-GCCGU- -5'
17135 3' -55.8 NC_004333.2 + 17556 0.66 0.642412
Target:  5'- -cGGUCGaGUGCGAgcagcgUGAgcGCGGCGGCc -3'
miRNA:   3'- uaCUAGCaCGCGCU------GCU--UGUCGCCGu -5'
17135 3' -55.8 NC_004333.2 + 1180 0.66 0.642412
Target:  5'- -cGAcuUCGcGCGCGACugcgacguGAACuuGCGGCAc -3'
miRNA:   3'- uaCU--AGCaCGCGCUG--------CUUGu-CGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 17487 0.66 0.635707
Target:  5'- uUGAUCGUcaGCGCGucgugaccgcgcugcGCGAGCAGCucgauGCGc -3'
miRNA:   3'- uACUAGCA--CGCGC---------------UGCUUGUCGc----CGU- -5'
17135 3' -55.8 NC_004333.2 + 18601 0.66 0.631237
Target:  5'- -cGAcCG-GCGCGGCaGGCgcgGGCGGCAa -3'
miRNA:   3'- uaCUaGCaCGCGCUGcUUG---UCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 31628 0.66 0.631237
Target:  5'- uGUGGcCGcGCGCG-UGAACAGuCGGCc -3'
miRNA:   3'- -UACUaGCaCGCGCuGCUUGUC-GCCGu -5'
17135 3' -55.8 NC_004333.2 + 12673 0.66 0.631237
Target:  5'- -gGGUCGacCGCGcCGAACAGCGaCAa -3'
miRNA:   3'- uaCUAGCacGCGCuGCUUGUCGCcGU- -5'
17135 3' -55.8 NC_004333.2 + 20628 0.66 0.631237
Target:  5'- -cGA-CGcGC-CGACGAuCAGCGGCGc -3'
miRNA:   3'- uaCUaGCaCGcGCUGCUuGUCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 5065 0.66 0.620061
Target:  5'- --cGUCG-GCGCGGCGcugAACAGCGucaGCAg -3'
miRNA:   3'- uacUAGCaCGCGCUGC---UUGUCGC---CGU- -5'
17135 3' -55.8 NC_004333.2 + 15666 0.66 0.608897
Target:  5'- ----cCGUGaC-CGACGAGCAGCGuGCGa -3'
miRNA:   3'- uacuaGCAC-GcGCUGCUUGUCGC-CGU- -5'
17135 3' -55.8 NC_004333.2 + 806 0.66 0.608897
Target:  5'- -cGGUCGccgGCGCagGAcCGAACAGCuGCAc -3'
miRNA:   3'- uaCUAGCa--CGCG--CU-GCUUGUCGcCGU- -5'
17135 3' -55.8 NC_004333.2 + 23674 0.66 0.608897
Target:  5'- -aGGUCGcGCGCaucgcuuggugGAUGAugcuCGGCGGCGg -3'
miRNA:   3'- uaCUAGCaCGCG-----------CUGCUu---GUCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 25473 0.66 0.608897
Target:  5'- -gGAUCGU-CGCGGCG-ACAGcCGGg- -3'
miRNA:   3'- uaCUAGCAcGCGCUGCuUGUC-GCCgu -5'
17135 3' -55.8 NC_004333.2 + 6785 0.66 0.602208
Target:  5'- -cGAUCGcauacgacaGCGCGcCGAucuucgccugucgcaACGGCGGCAc -3'
miRNA:   3'- uaCUAGCa--------CGCGCuGCU---------------UGUCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 2865 0.66 0.597754
Target:  5'- -cGG-CGUuCGCGaACGAcgucGCAGCGGCGa -3'
miRNA:   3'- uaCUaGCAcGCGC-UGCU----UGUCGCCGU- -5'
17135 3' -55.8 NC_004333.2 + 14755 0.66 0.597754
Target:  5'- -gGGUCGUucaGCGCGGgGAacgACAGCaGCGu -3'
miRNA:   3'- uaCUAGCA---CGCGCUgCU---UGUCGcCGU- -5'
17135 3' -55.8 NC_004333.2 + 29121 0.66 0.597754
Target:  5'- ---cUCG-GCGCGAUcGugGGCGGCGc -3'
miRNA:   3'- uacuAGCaCGCGCUGcUugUCGCCGU- -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.