miRNA display CGI


Results 1 - 20 of 139 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
16991 5' -53.3 NC_004333.2 + 128 0.7 0.564087
Target:  5'- uCGUGACGACgAUgagauaGUCGugauuCGGCGCGa -3'
miRNA:   3'- cGCACUGCUGgUG------UAGCuu---GCCGUGC- -5'
16991 5' -53.3 NC_004333.2 + 2025 0.7 0.564087
Target:  5'- aCGUcACGGCCGCAUCGAucACGucgacgcccGCGCGa -3'
miRNA:   3'- cGCAcUGCUGGUGUAGCU--UGC---------CGUGC- -5'
16991 5' -53.3 NC_004333.2 + 2969 0.66 0.8323
Target:  5'- aGCGUGACG-CC-CGUCaacgGAAugccuagacgcucgcCGGCGCGu -3'
miRNA:   3'- -CGCACUGCuGGuGUAG----CUU---------------GCCGUGC- -5'
16991 5' -53.3 NC_004333.2 + 3141 0.66 0.807181
Target:  5'- aGCGUuuGCGcGCCGCcagcgccacgcgcgGUCGAGCGGC-CGg -3'
miRNA:   3'- -CGCAc-UGC-UGGUG--------------UAGCUUGCCGuGC- -5'
16991 5' -53.3 NC_004333.2 + 3850 0.67 0.739454
Target:  5'- aGCGUGuCGAaCACuucaucuUCGGACgGGCGCa -3'
miRNA:   3'- -CGCACuGCUgGUGu------AGCUUG-CCGUGc -5'
16991 5' -53.3 NC_004333.2 + 5037 0.7 0.564087
Target:  5'- gGCGgccaGGCGGCCggcuguuggccgACGUCGGcGCGGCGCu -3'
miRNA:   3'- -CGCa---CUGCUGG------------UGUAGCU-UGCCGUGc -5'
16991 5' -53.3 NC_004333.2 + 6572 0.69 0.630252
Target:  5'- cGCGUacgcGCGAaagcCCGCAUCGccgccACGGCGCGc -3'
miRNA:   3'- -CGCAc---UGCU----GGUGUAGCu----UGCCGUGC- -5'
16991 5' -53.3 NC_004333.2 + 6579 0.7 0.60477
Target:  5'- aGCGcGugGGCCGCAgugcaaccaggcagUcaaCGAAUGGCGCGu -3'
miRNA:   3'- -CGCaCugCUGGUGU--------------A---GCUUGCCGUGC- -5'
16991 5' -53.3 NC_004333.2 + 6726 0.66 0.819457
Target:  5'- uGCGUGcaACGugCuCAauUCGAGCGcCACGg -3'
miRNA:   3'- -CGCAC--UGCugGuGU--AGCUUGCcGUGC- -5'
16991 5' -53.3 NC_004333.2 + 6732 0.67 0.770598
Target:  5'- ---cGACGGCCgacucgcccGCGUCGAGCaGCGCc -3'
miRNA:   3'- cgcaCUGCUGG---------UGUAGCUUGcCGUGc -5'
16991 5' -53.3 NC_004333.2 + 7032 0.67 0.760346
Target:  5'- cGCGUcGAacaGACCGCAcugcgUGAGCGGaACGg -3'
miRNA:   3'- -CGCA-CUg--CUGGUGUa----GCUUGCCgUGC- -5'
16991 5' -53.3 NC_004333.2 + 7192 0.72 0.458936
Target:  5'- uCGUcGACGAgCACgaaGUCGAACGGCcCGa -3'
miRNA:   3'- cGCA-CUGCUgGUG---UAGCUUGCCGuGC- -5'
16991 5' -53.3 NC_004333.2 + 7473 0.69 0.641341
Target:  5'- -gGUGACGAUCGCggCGAuCGGguUGg -3'
miRNA:   3'- cgCACUGCUGGUGuaGCUuGCCguGC- -5'
16991 5' -53.3 NC_004333.2 + 8155 0.7 0.579414
Target:  5'- gGUGUGGCGacaggucgGCCGCGUCcaucgcguacucaguGAGCGGCGuCGa -3'
miRNA:   3'- -CGCACUGC--------UGGUGUAG---------------CUUGCCGU-GC- -5'
16991 5' -53.3 NC_004333.2 + 8376 0.85 0.071749
Target:  5'- cGCGUucgGACGGCCACAgcgCGAGCGGCGuCGg -3'
miRNA:   3'- -CGCA---CUGCUGGUGUa--GCUUGCCGU-GC- -5'
16991 5' -53.3 NC_004333.2 + 8615 0.66 0.837677
Target:  5'- cGCGaUGcACGaagccgaugcGCgACGUCGAGCucGGCGCGg -3'
miRNA:   3'- -CGC-AC-UGC----------UGgUGUAGCUUG--CCGUGC- -5'
16991 5' -53.3 NC_004333.2 + 9279 0.68 0.707321
Target:  5'- cCGUGcCGAUCAgCG-CGaAGCGGCGCGg -3'
miRNA:   3'- cGCACuGCUGGU-GUaGC-UUGCCGUGC- -5'
16991 5' -53.3 NC_004333.2 + 9623 0.66 0.828672
Target:  5'- aGCuGUGucguugccgUGAgCGCGUCGGACGGCAaCGc -3'
miRNA:   3'- -CG-CACu--------GCUgGUGUAGCUUGCCGU-GC- -5'
16991 5' -53.3 NC_004333.2 + 9897 0.75 0.323477
Target:  5'- cGCGUGcauCGAUCuCGUCGAACaGGCACu -3'
miRNA:   3'- -CGCACu--GCUGGuGUAGCUUG-CCGUGc -5'
16991 5' -53.3 NC_004333.2 + 9931 0.73 0.401057
Target:  5'- gGCGUG-C-AUCACGUugaCGAACGGCGCGg -3'
miRNA:   3'- -CGCACuGcUGGUGUA---GCUUGCCGUGC- -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.