miRNA display CGI


Results 1 - 20 of 68 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
28130 5' -53.9 NC_005887.1 + 12966 0.99 0.004713
Target:  5'- uACAGCAAU-CCAGACCGAAGCGGCGAc -3'
miRNA:   3'- -UGUCGUUAuGGUCUGGCUUCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 14704 0.76 0.208688
Target:  5'- cGCGGCGGg--CGGGCCGGGcGCGGCGAu -3'
miRNA:   3'- -UGUCGUUaugGUCUGGCUU-CGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 12282 0.74 0.28708
Target:  5'- uGCAGCaAAUGCCGGAUggcaaugCGAAGCGGUu- -3'
miRNA:   3'- -UGUCG-UUAUGGUCUG-------GCUUCGCCGcu -5'
28130 5' -53.9 NC_005887.1 + 5394 0.73 0.303111
Target:  5'- cCAGCGcgACCGGugaACCGGcgGGCGGCGc -3'
miRNA:   3'- uGUCGUuaUGGUC---UGGCU--UCGCCGCu -5'
28130 5' -53.9 NC_005887.1 + 23525 0.73 0.326367
Target:  5'- cCGGC--UGCCGGGCUuccggugGAAGCGGCGGg -3'
miRNA:   3'- uGUCGuuAUGGUCUGG-------CUUCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 13372 0.72 0.352661
Target:  5'- cCGGCGAUGgCgcucgcgcugaAGGCCGgcGCGGCGGa -3'
miRNA:   3'- uGUCGUUAUgG-----------UCUGGCuuCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 40420 0.72 0.365018
Target:  5'- gGCGGCAcgGCCGcGCuCGAcggccaguccauuucGGCGGCGAa -3'
miRNA:   3'- -UGUCGUuaUGGUcUG-GCU---------------UCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 40807 0.71 0.379503
Target:  5'- aACGGCGAUcGCCucGACgCG-GGCGGCGAc -3'
miRNA:   3'- -UGUCGUUA-UGGu-CUG-GCuUCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 38138 0.71 0.416383
Target:  5'- cGCGGCGAUgaaaaugccggacAUCAGGCCGAgcgcgaaauaGGCGGUGu -3'
miRNA:   3'- -UGUCGUUA-------------UGGUCUGGCU----------UCGCCGCu -5'
28130 5' -53.9 NC_005887.1 + 5508 0.71 0.421268
Target:  5'- gGCAGgAGUGCCAGcgggcgcguggucgcGCCGGucgcuGCGGCGc -3'
miRNA:   3'- -UGUCgUUAUGGUC---------------UGGCUu----CGCCGCu -5'
28130 5' -53.9 NC_005887.1 + 14305 0.7 0.436127
Target:  5'- gGCGGCAagaucggAUGCCGcGCCGAAcagcGCGGCGc -3'
miRNA:   3'- -UGUCGU-------UAUGGUcUGGCUU----CGCCGCu -5'
28130 5' -53.9 NC_005887.1 + 21580 0.7 0.437128
Target:  5'- cCGGCA--GCCGGcgucguugcGCCGAuugccGGCGGCGAu -3'
miRNA:   3'- uGUCGUuaUGGUC---------UGGCU-----UCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 35978 0.7 0.437128
Target:  5'- gACGGCcgcGCCgAGAUCGAAGUGcGCGAc -3'
miRNA:   3'- -UGUCGuuaUGG-UCUGGCUUCGC-CGCU- -5'
28130 5' -53.9 NC_005887.1 + 29611 0.7 0.457426
Target:  5'- -gAGaaccuGUGCCAGGCCGucGCGcGCGAc -3'
miRNA:   3'- ugUCgu---UAUGGUCUGGCuuCGC-CGCU- -5'
28130 5' -53.9 NC_005887.1 + 12994 0.7 0.467763
Target:  5'- cGCGGCAccgacCCGGACC-AGGCGGCu- -3'
miRNA:   3'- -UGUCGUuau--GGUCUGGcUUCGCCGcu -5'
28130 5' -53.9 NC_005887.1 + 7602 0.7 0.467763
Target:  5'- -aAGCGGcGCCGguuGAUCGAugGGCGGCGAc -3'
miRNA:   3'- ugUCGUUaUGGU---CUGGCU--UCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 2555 0.7 0.476118
Target:  5'- gGCGGCuacugcuuccGCCGcauGGCCGuGAGCGGCGAg -3'
miRNA:   3'- -UGUCGuua-------UGGU---CUGGC-UUCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 4660 0.7 0.478219
Target:  5'- uCAGCGAcGCgCAGACCGcugcgcAGaCGGCGAg -3'
miRNA:   3'- uGUCGUUaUG-GUCUGGCu-----UC-GCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 10739 0.7 0.478219
Target:  5'- gAUGGCGAcauggaAUCGGACUGgcGCGGCGGg -3'
miRNA:   3'- -UGUCGUUa-----UGGUCUGGCuuCGCCGCU- -5'
28130 5' -53.9 NC_005887.1 + 30452 0.69 0.488788
Target:  5'- -gGGCAuguUGCCGGGCUGGaacaGGCGGUGc -3'
miRNA:   3'- ugUCGUu--AUGGUCUGGCU----UCGCCGCu -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.