miRNA display CGI


Results 1 - 20 of 64 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
17080 3' -57.5 NC_004333.2 + 168 0.68 0.474369
Target:  5'- aCGAU-CGGCGCCUGGCGcgaguccACUGCcCGu -3'
miRNA:   3'- cGCUAcGCUGCGGGCCGC-------UGAUGaGC- -5'
17080 3' -57.5 NC_004333.2 + 3279 0.68 0.475363
Target:  5'- gGCGG-GCGGCGCgCCGGgcCGGCUcaccggccucguGCUCa -3'
miRNA:   3'- -CGCUaCGCUGCG-GGCC--GCUGA------------UGAGc -5'
17080 3' -57.5 NC_004333.2 + 3455 0.67 0.505651
Target:  5'- cGCGAcgacgGCGACG-CCGGuCGACauuguuccGCUCGa -3'
miRNA:   3'- -CGCUa----CGCUGCgGGCC-GCUGa-------UGAGC- -5'
17080 3' -57.5 NC_004333.2 + 3647 0.66 0.589869
Target:  5'- cGCGAUGUGGCGCacuauguggUCGGCcgacgcGCUGCgCGg -3'
miRNA:   3'- -CGCUACGCUGCG---------GGCCGc-----UGAUGaGC- -5'
17080 3' -57.5 NC_004333.2 + 5521 0.66 0.611416
Target:  5'- cGCGGggauauaggucaUGcCGugG-CCGGCGACgGCUUGg -3'
miRNA:   3'- -CGCU------------AC-GCugCgGGCCGCUGaUGAGC- -5'
17080 3' -57.5 NC_004333.2 + 6397 0.67 0.547249
Target:  5'- cGCGGUGCGGuCGUCCucaCGGCUGCg-- -3'
miRNA:   3'- -CGCUACGCU-GCGGGcc-GCUGAUGagc -5'
17080 3' -57.5 NC_004333.2 + 6677 0.73 0.253
Target:  5'- uGCGAcUGCGGCGCUgGGCGGCgcgccgugGCggCGa -3'
miRNA:   3'- -CGCU-ACGCUGCGGgCCGCUGa-------UGa-GC- -5'
17080 3' -57.5 NC_004333.2 + 6837 0.66 0.578073
Target:  5'- gGCGggGCacucgucGGCuaCCGGCGGCUGCg-- -3'
miRNA:   3'- -CGCuaCG-------CUGcgGGCCGCUGAUGagc -5'
17080 3' -57.5 NC_004333.2 + 8035 0.7 0.381692
Target:  5'- aCGAagguUGCcACGUauGGCGACUACUCGu -3'
miRNA:   3'- cGCU----ACGcUGCGggCCGCUGAUGAGC- -5'
17080 3' -57.5 NC_004333.2 + 8648 0.76 0.157891
Target:  5'- uCGgcGCGGCGCCCGGC--UUGCUCGu -3'
miRNA:   3'- cGCuaCGCUGCGGGCCGcuGAUGAGC- -5'
17080 3' -57.5 NC_004333.2 + 9008 0.66 0.589869
Target:  5'- gGCGuucGCGGCuuGCCaGGCGGCgcGCUCGc -3'
miRNA:   3'- -CGCua-CGCUG--CGGgCCGCUGa-UGAGC- -5'
17080 3' -57.5 NC_004333.2 + 9199 0.7 0.347823
Target:  5'- cGCGAcgUGCGuuacgUGCUCGGCGGCgacauugcGCUCGa -3'
miRNA:   3'- -CGCU--ACGCu----GCGGGCCGCUGa-------UGAGC- -5'
17080 3' -57.5 NC_004333.2 + 9534 0.66 0.60063
Target:  5'- gGCGGUGCGgcacccGCGCCUGGUGcGCaggACggCGa -3'
miRNA:   3'- -CGCUACGC------UGCGGGCCGC-UGa--UGa-GC- -5'
17080 3' -57.5 NC_004333.2 + 10016 0.69 0.427008
Target:  5'- uGCGGUuCGACggcaaacaccuGCgCGGCGAcCUGCUCGu -3'
miRNA:   3'- -CGCUAcGCUG-----------CGgGCCGCU-GAUGAGC- -5'
17080 3' -57.5 NC_004333.2 + 11701 0.66 0.589869
Target:  5'- uCGAcGCaGCGCCgGGCGGCgUGCUgGc -3'
miRNA:   3'- cGCUaCGcUGCGGgCCGCUG-AUGAgC- -5'
17080 3' -57.5 NC_004333.2 + 11735 0.66 0.557825
Target:  5'- aCGAaaUGaaGCGCCUGcGCGACUACUgGc -3'
miRNA:   3'- cGCU--ACgcUGCGGGC-CGCUGAUGAgC- -5'
17080 3' -57.5 NC_004333.2 + 13085 0.66 0.611416
Target:  5'- cGCGcagGCguuGAUGCCCGGCgcgaacgucGAUUugUCGa -3'
miRNA:   3'- -CGCua-CG---CUGCGGGCCG---------CUGAugAGC- -5'
17080 3' -57.5 NC_004333.2 + 13827 0.74 0.190311
Target:  5'- cGCGA-GCGGCGCgCGGCGucCUacgcGCUCGa -3'
miRNA:   3'- -CGCUaCGCUGCGgGCCGCu-GA----UGAGC- -5'
17080 3' -57.5 NC_004333.2 + 14575 0.66 0.60063
Target:  5'- uGCGAUGCGACGUUCaaGGaCGGCcagGCgucCGa -3'
miRNA:   3'- -CGCUACGCUGCGGG--CC-GCUGa--UGa--GC- -5'
17080 3' -57.5 NC_004333.2 + 18950 0.68 0.455681
Target:  5'- uCGAUGCGuucuggGCGcCCCGGCGGCaaUGCguugCGc -3'
miRNA:   3'- cGCUACGC------UGC-GGGCCGCUG--AUGa---GC- -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.