miRNA display CGI


Results 1 - 20 of 26 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
12681 3' -51.3 NC_003345.1 + 32219 0.66 0.973287
Target:  5'- gGGUUGUUgACGAuaaccuucaccagcuCCUCGUcguucacGAgGCCGGu -3'
miRNA:   3'- -CCAGCAAgUGCU---------------GGAGCA-------CUaUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 43072 0.66 0.972429
Target:  5'- -cUCGUUCAgCGGgUUCG-GAUGCCGc -3'
miRNA:   3'- ccAGCAAGU-GCUgGAGCaCUAUGGCc -5'
12681 3' -51.3 NC_003345.1 + 25773 0.66 0.969423
Target:  5'- -cUCGUugaaguucagcUCAacuucccacgccUGACCUCGguaGAUACCGGa -3'
miRNA:   3'- ccAGCA-----------AGU------------GCUGGAGCa--CUAUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 37673 0.66 0.969423
Target:  5'- cGGg-GUUCugGaacGCCUCGUGGUcaACCa- -3'
miRNA:   3'- -CCagCAAGugC---UGGAGCACUA--UGGcc -5'
12681 3' -51.3 NC_003345.1 + 2662 0.66 0.969423
Target:  5'- aGGgagUGUUCGaccCGACCgaugugaGUGGUAUCGGu -3'
miRNA:   3'- -CCa--GCAAGU---GCUGGag-----CACUAUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 12373 0.66 0.96619
Target:  5'- aGUCGUUCAuCGGCUcCGgcccACCGGa -3'
miRNA:   3'- cCAGCAAGU-GCUGGaGCacuaUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 40519 0.66 0.96619
Target:  5'- gGGuUCGggCGCGGgugguauauCCUCG-GAUGCCGc -3'
miRNA:   3'- -CC-AGCaaGUGCU---------GGAGCaCUAUGGCc -5'
12681 3' -51.3 NC_003345.1 + 14591 0.66 0.962724
Target:  5'- uGGagCGUUcCACGGCgCUCGUGGgucGCCa- -3'
miRNA:   3'- -CCa-GCAA-GUGCUG-GAGCACUa--UGGcc -5'
12681 3' -51.3 NC_003345.1 + 21755 0.67 0.960529
Target:  5'- cGUCGUcgUCGCcGCCcgaguuggcgauaGUGAUACCGGc -3'
miRNA:   3'- cCAGCA--AGUGcUGGag-----------CACUAUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 60867 0.67 0.958633
Target:  5'- ---gGUUgACGACCUCGaUGAUGuugcgucCCGGc -3'
miRNA:   3'- ccagCAAgUGCUGGAGC-ACUAU-------GGCC- -5'
12681 3' -51.3 NC_003345.1 + 65313 0.67 0.955066
Target:  5'- gGGcCGUucccgUCACGGuCUUCGUGAgcgUACCGc -3'
miRNA:   3'- -CCaGCA-----AGUGCU-GGAGCACU---AUGGCc -5'
12681 3' -51.3 NC_003345.1 + 22556 0.67 0.955066
Target:  5'- uGUCc-UUGCcACCUCGUGAgagGCCGGu -3'
miRNA:   3'- cCAGcaAGUGcUGGAGCACUa--UGGCC- -5'
12681 3' -51.3 NC_003345.1 + 63392 0.67 0.950863
Target:  5'- aGGUCaacCGCGACCgCGUag-ACCGGg -3'
miRNA:   3'- -CCAGcaaGUGCUGGaGCAcuaUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 27528 0.67 0.946406
Target:  5'- uGGUCGgUCACuuCCUCGcaa-ACCGGa -3'
miRNA:   3'- -CCAGCaAGUGcuGGAGCacuaUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 53883 0.68 0.936202
Target:  5'- cGGUCGgggUCACaACCUCccggccaacuccgGUGAgcuggucgugACCGGg -3'
miRNA:   3'- -CCAGCa--AGUGcUGGAG-------------CACUa---------UGGCC- -5'
12681 3' -51.3 NC_003345.1 + 60266 0.68 0.931475
Target:  5'- cGG-CGUUCAuCGGCCUCGguuUGGUcgGCCa- -3'
miRNA:   3'- -CCaGCAAGU-GCUGGAGC---ACUA--UGGcc -5'
12681 3' -51.3 NC_003345.1 + 73570 0.68 0.920205
Target:  5'- aGGUCGUgaACGACCgCGUucucGAacagGCCGGu -3'
miRNA:   3'- -CCAGCAagUGCUGGaGCA----CUa---UGGCC- -5'
12681 3' -51.3 NC_003345.1 + 39564 0.69 0.907882
Target:  5'- aGGUCGUcuuUCugGuuUUCG-GGUAUCGGg -3'
miRNA:   3'- -CCAGCA---AGugCugGAGCaCUAUGGCC- -5'
12681 3' -51.3 NC_003345.1 + 45928 0.69 0.901329
Target:  5'- cGGUCGgagcgauagUCGUGAUgUUGUGGUugCGGa -3'
miRNA:   3'- -CCAGCa--------AGUGCUGgAGCACUAugGCC- -5'
12681 3' -51.3 NC_003345.1 + 63484 0.69 0.89452
Target:  5'- cGGUCGcgguUGACCUCGUGGacguUACgGGc -3'
miRNA:   3'- -CCAGCaaguGCUGGAGCACU----AUGgCC- -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.