miRNA display CGI


Results 1 - 20 of 54 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
12772 3' -57.5 NC_003387.1 + 52119 0.96 0.004165
Target:  5'- cCUGCucgGCCUGAGCGUCAAUCGCCGCAAu -3'
miRNA:   3'- -GACG---CGGACUCGCAGUUAGCGGCGUU- -5'
12772 3' -57.5 NC_003387.1 + 51787 0.76 0.128128
Target:  5'- -gGUGgCUGGGCGUCGAUCGCCcCGAg -3'
miRNA:   3'- gaCGCgGACUCGCAGUUAGCGGcGUU- -5'
12772 3' -57.5 NC_003387.1 + 26118 0.75 0.151475
Target:  5'- cCUGCGCCaGGucggcGCGUCcGUCGCCGCu- -3'
miRNA:   3'- -GACGCGGaCU-----CGCAGuUAGCGGCGuu -5'
12772 3' -57.5 NC_003387.1 + 36752 0.74 0.164546
Target:  5'- -aGCGCCUGGGCGUCAc-CGUCaGCGAc -3'
miRNA:   3'- gaCGCGGACUCGCAGUuaGCGG-CGUU- -5'
12772 3' -57.5 NC_003387.1 + 20196 0.73 0.199045
Target:  5'- gCUGCGCCUcgcacggccGGGCGUgcacgcagcggCAGUCGUCGCAc -3'
miRNA:   3'- -GACGCGGA---------CUCGCA-----------GUUAGCGGCGUu -5'
12772 3' -57.5 NC_003387.1 + 37789 0.73 0.215671
Target:  5'- -cGCGCCUGGGCGcagcacccgCGGUCGCaGCAGc -3'
miRNA:   3'- gaCGCGGACUCGCa--------GUUAGCGgCGUU- -5'
12772 3' -57.5 NC_003387.1 + 21037 0.72 0.251842
Target:  5'- gCUaCGCCUGAccagucgGCGUCGAaCGCCGCGu -3'
miRNA:   3'- -GAcGCGGACU-------CGCAGUUaGCGGCGUu -5'
12772 3' -57.5 NC_003387.1 + 36211 0.71 0.265874
Target:  5'- -gGCGCCUcGGCGUaaucgaGGUCGUCGCAu -3'
miRNA:   3'- gaCGCGGAcUCGCAg-----UUAGCGGCGUu -5'
12772 3' -57.5 NC_003387.1 + 39401 0.7 0.294342
Target:  5'- gUGCGCCUGGcgcgcgaguGgGUCGAggugaccgggCGCCGCAAg -3'
miRNA:   3'- gACGCGGACU---------CgCAGUUa---------GCGGCGUU- -5'
12772 3' -57.5 NC_003387.1 + 21637 0.7 0.294342
Target:  5'- -gGCGUC-GAGCGUCAgcucGUCGaCCGCGg -3'
miRNA:   3'- gaCGCGGaCUCGCAGU----UAGC-GGCGUu -5'
12772 3' -57.5 NC_003387.1 + 15123 0.7 0.294342
Target:  5'- -gGCGCCUGAcccugugcGCGaccCGAUUGCCGCGu -3'
miRNA:   3'- gaCGCGGACU--------CGCa--GUUAGCGGCGUu -5'
12772 3' -57.5 NC_003387.1 + 41332 0.7 0.333191
Target:  5'- -cGCgGCCaGcguGGCGcCGAUCGCCGCAAa -3'
miRNA:   3'- gaCG-CGGaC---UCGCaGUUAGCGGCGUU- -5'
12772 3' -57.5 NC_003387.1 + 16271 0.7 0.333191
Target:  5'- gCUGCGCCUGGGCGagcugcUCGcgCGUCaCGAa -3'
miRNA:   3'- -GACGCGGACUCGC------AGUuaGCGGcGUU- -5'
12772 3' -57.5 NC_003387.1 + 1843 0.7 0.333191
Target:  5'- gCUGCgGCCUGuuugagaacGGCGUCAA-CGCCGaCAc -3'
miRNA:   3'- -GACG-CGGAC---------UCGCAGUUaGCGGC-GUu -5'
12772 3' -57.5 NC_003387.1 + 42039 0.69 0.349751
Target:  5'- -aGCGCCaGGGCGcCAagAUCGaCCGCGg -3'
miRNA:   3'- gaCGCGGaCUCGCaGU--UAGC-GGCGUu -5'
12772 3' -57.5 NC_003387.1 + 30124 0.69 0.358248
Target:  5'- -aGgGCCUGAGCuUCGaccGUgGCCGCAc -3'
miRNA:   3'- gaCgCGGACUCGcAGU---UAgCGGCGUu -5'
12772 3' -57.5 NC_003387.1 + 49494 0.69 0.358248
Target:  5'- gUGCGCCcGcccGGCGUCGAcgUGUCGCAAu -3'
miRNA:   3'- gACGCGGaC---UCGCAGUUa-GCGGCGUU- -5'
12772 3' -57.5 NC_003387.1 + 24865 0.69 0.366888
Target:  5'- -cGCGCC--GGUGUCGAUCGUgGCGc -3'
miRNA:   3'- gaCGCGGacUCGCAGUUAGCGgCGUu -5'
12772 3' -57.5 NC_003387.1 + 50120 0.68 0.393658
Target:  5'- -aGCGCCUG-GUcaCGAUCGCCGUu- -3'
miRNA:   3'- gaCGCGGACuCGcaGUUAGCGGCGuu -5'
12772 3' -57.5 NC_003387.1 + 41668 0.68 0.402858
Target:  5'- aCUGCGaCCUGugguucGGCGUCAacccgacccggcGUCGCgGCGc -3'
miRNA:   3'- -GACGC-GGAC------UCGCAGU------------UAGCGgCGUu -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.