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
21964 3' -54.4 NC_004914.1 + 60335 0.66 0.774039
Target:  5'- cCAGCcACAGCGCaCcAUAGccaACCGCCAg -3'
miRNA:   3'- -GUCGuUGUCGUG-GuUGUCc--UGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 39752 0.66 0.763789
Target:  5'- gGGCAGC--CAgCAACAGG-CCACCc -3'
miRNA:   3'- gUCGUUGucGUgGUUGUCCuGGUGGu -5'
21964 3' -54.4 NC_004914.1 + 47218 0.66 0.762756
Target:  5'- aCGGUAauuGCAGUaaugaaaGCCAuCAGGGCCGCa- -3'
miRNA:   3'- -GUCGU---UGUCG-------UGGUuGUCCUGGUGgu -5'
21964 3' -54.4 NC_004914.1 + 4682 0.66 0.7534
Target:  5'- aCAGCAGgaAGCGCCAaaaGCGGuuUCGCCGg -3'
miRNA:   3'- -GUCGUUg-UCGUGGU---UGUCcuGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 3848 0.66 0.7534
Target:  5'- aAGCAACGG-GCCgAACAGGaaGCCGCa- -3'
miRNA:   3'- gUCGUUGUCgUGG-UUGUCC--UGGUGgu -5'
21964 3' -54.4 NC_004914.1 + 16071 0.66 0.752354
Target:  5'- uCAGCAcugagcacagaacGCAGCACCAAaaa-GCCAUCAg -3'
miRNA:   3'- -GUCGU-------------UGUCGUGGUUguccUGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 60346 0.66 0.732254
Target:  5'- aGGCGAaugcCACCAuuacugacauGCAGGugCGCCAg -3'
miRNA:   3'- gUCGUUguc-GUGGU----------UGUCCugGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 19683 0.67 0.721521
Target:  5'- uCAGguACAagcGCACCAAuCAGGuuuacacccuucGCCACCc -3'
miRNA:   3'- -GUCguUGU---CGUGGUU-GUCC------------UGGUGGu -5'
21964 3' -54.4 NC_004914.1 + 20366 0.67 0.710697
Target:  5'- cCGGCAACcGCACCGAauGGAgCCcCCAu -3'
miRNA:   3'- -GUCGUUGuCGUGGUUguCCU-GGuGGU- -5'
21964 3' -54.4 NC_004914.1 + 7999 0.67 0.710697
Target:  5'- gAGCAaauauuacccugACGGCGCUGACAGuuUCACCGg -3'
miRNA:   3'- gUCGU------------UGUCGUGGUUGUCcuGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 9584 0.67 0.710697
Target:  5'- aCAGguGCGGCagGCCcgGugGGGGCgACCGg -3'
miRNA:   3'- -GUCguUGUCG--UGG--UugUCCUGgUGGU- -5'
21964 3' -54.4 NC_004914.1 + 32108 0.67 0.699794
Target:  5'- gGGCAcucCAGCGCCAGCAuGGuCUACa- -3'
miRNA:   3'- gUCGUu--GUCGUGGUUGU-CCuGGUGgu -5'
21964 3' -54.4 NC_004914.1 + 9544 0.67 0.688824
Target:  5'- -uGCGGCAgGC-CCGGCAGGcCCACa- -3'
miRNA:   3'- guCGUUGU-CGuGGUUGUCCuGGUGgu -5'
21964 3' -54.4 NC_004914.1 + 26699 0.68 0.655624
Target:  5'- cCGGCAGCacgGGaCGCCGuCAGGucacccGCCGCCAc -3'
miRNA:   3'- -GUCGUUG---UC-GUGGUuGUCC------UGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 17008 0.68 0.644498
Target:  5'- uGGCAuUAGCGCCGGugcCAGGuguuuuagcACCGCCAc -3'
miRNA:   3'- gUCGUuGUCGUGGUU---GUCC---------UGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 62025 0.68 0.630018
Target:  5'- uGGCugaGACAGCACCAAaacuucgugcugacCGGGaaagaaucaacGCCGCCAg -3'
miRNA:   3'- gUCG---UUGUCGUGGUU--------------GUCC-----------UGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 62604 0.68 0.622221
Target:  5'- -cGUAGCGGUGCCAGCGGuGGCUAUa- -3'
miRNA:   3'- guCGUUGUCGUGGUUGUC-CUGGUGgu -5'
21964 3' -54.4 NC_004914.1 + 44790 0.68 0.622221
Target:  5'- aAGCAAUAcuGUACCAGCAG-AUUACCAg -3'
miRNA:   3'- gUCGUUGU--CGUGGUUGUCcUGGUGGU- -5'
21964 3' -54.4 NC_004914.1 + 3191 0.69 0.555907
Target:  5'- gGGCAcauGCAGCugCAcaACGGGAUaauGCCAg -3'
miRNA:   3'- gUCGU---UGUCGugGU--UGUCCUGg--UGGU- -5'
21964 3' -54.4 NC_004914.1 + 4721 0.7 0.53421
Target:  5'- aAGCAcgaaGCAG-ACCAgcGCGGGugCGCCGg -3'
miRNA:   3'- gUCGU----UGUCgUGGU--UGUCCugGUGGU- -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.