miRNA display CGI


Results 1 - 17 of 17 are showing below:
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Acc. No. Name Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 76020 0.66 0.999939
Target:  5'- --uGACGGCCCuaGAGGCCGUCu -3'
miRNA:   3'- gagUUGUCGGGc-UUUUGGUAGu -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 132561 0.66 0.999917
Target:  5'- --aGAguGCCCGAcacgguggAGGCCAUCAc -3'
miRNA:   3'- gagUUguCGGGCU--------UUUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 112140 0.66 0.999917
Target:  5'- -cCGGCAccacGCCCGggGGCCAggacUCAc -3'
miRNA:   3'- gaGUUGU----CGGGCuuUUGGU----AGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 69520 0.66 0.999917
Target:  5'- -gCAGCAGCCgGAGAGCgCAcgCAg -3'
miRNA:   3'- gaGUUGUCGGgCUUUUG-GUa-GU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 62960 0.66 0.999851
Target:  5'- aUCGAU-GCUCGAGAACUGUCGa -3'
miRNA:   3'- gAGUUGuCGGGCUUUUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 32052 0.67 0.999804
Target:  5'- --aGACAGcCCCGGGAGCCAc-- -3'
miRNA:   3'- gagUUGUC-GGGCUUUUGGUagu -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 34171 0.67 0.999804
Target:  5'- gUCAGCGGUggUCGAGgcGACCGUCGu -3'
miRNA:   3'- gAGUUGUCG--GGCUU--UUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 107084 0.67 0.999744
Target:  5'- aUCAACucuGGCCaCGAccGCCAUCGa -3'
miRNA:   3'- gAGUUG---UCGG-GCUuuUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 91019 0.67 0.999454
Target:  5'- gUguACGGCUCGAGAAgCAUCGg -3'
miRNA:   3'- gAguUGUCGGGCUUUUgGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 27651 0.68 0.999131
Target:  5'- -cCAAC-GCCCGGAAACCG-CAu -3'
miRNA:   3'- gaGUUGuCGGGCUUUUGGUaGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 94339 0.69 0.997542
Target:  5'- uUCcGCAGCCCGAcAACCGg-- -3'
miRNA:   3'- gAGuUGUCGGGCUuUUGGUagu -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 33117 0.71 0.988978
Target:  5'- --aGAC-GCCCGGAGACUAUCAg -3'
miRNA:   3'- gagUUGuCGGGCUUUUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 - 129058 0.71 0.988978
Target:  5'- aCUCAAggaGGCCUGAAgGGCCAUCGg -3'
miRNA:   3'- -GAGUUg--UCGGGCUU-UUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 84282 0.72 0.981077
Target:  5'- uUCGACAGCCCGAcuGGCUugucGUCAg -3'
miRNA:   3'- gAGUUGUCGGGCUu-UUGG----UAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 18340 0.73 0.972813
Target:  5'- gUCGACAGCCCgcgggaaucGAAAGCCAUg- -3'
miRNA:   3'- gAGUUGUCGGG---------CUUUUGGUAgu -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 94732 0.75 0.920926
Target:  5'- gUCAGCAGgCCGAucgAGGCCGUCGa -3'
miRNA:   3'- gAGUUGUCgGGCU---UUUGGUAGU- -5'
MIMAT0002189 kshv-miR-K12-6-3p -44.6 NC_003409.1 + 120644 1.02 0.055217
Target:  5'- gCUCAACAGCCCGAAAACCAUCAg -3'
miRNA:   3'- -GAGUUGUCGGGCUUUUGGUAGU- -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.