miRNA display CGI


Results 1 - 20 of 46 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
8110 3' -53.8 NC_001978.2 + 12259 0.66 0.739098
Target:  5'- uGCGCgGCUgacgacGUCGGCAGCGGA--CGg -3'
miRNA:   3'- -CGCGaCGGua----CAGCCGUUGCUUcaGC- -5'
8110 3' -53.8 NC_001978.2 + 26606 0.66 0.739098
Target:  5'- aUGCUGaCCuUGUCGGCuacauGCGucggcuuGUCGg -3'
miRNA:   3'- cGCGAC-GGuACAGCCGu----UGCuu-----CAGC- -5'
8110 3' -53.8 NC_001978.2 + 25723 0.66 0.739098
Target:  5'- cGCGCucacUGCCGUaucgGUCGGCuauGACGccGUUGc -3'
miRNA:   3'- -CGCG----ACGGUA----CAGCCG---UUGCuuCAGC- -5'
8110 3' -53.8 NC_001978.2 + 21989 0.66 0.739098
Target:  5'- uCGCUGCCAUcUUGGCuugccACGggG-Ca -3'
miRNA:   3'- cGCGACGGUAcAGCCGu----UGCuuCaGc -5'
8110 3' -53.8 NC_001978.2 + 28967 0.66 0.728261
Target:  5'- aGgGC-GCCGgauUCGGCAaggucuacggggGCGGAGUCGc -3'
miRNA:   3'- -CgCGaCGGUac-AGCCGU------------UGCUUCAGC- -5'
8110 3' -53.8 NC_001978.2 + 4476 0.66 0.728261
Target:  5'- aCGCUGCgA-GUCGGCGAagaccgUGAAGgCGg -3'
miRNA:   3'- cGCGACGgUaCAGCCGUU------GCUUCaGC- -5'
8110 3' -53.8 NC_001978.2 + 36152 0.66 0.728261
Target:  5'- cGCGC-GCCcagGUGUCGGCGGguGAGUgGc -3'
miRNA:   3'- -CGCGaCGG---UACAGCCGUUgcUUCAgC- -5'
8110 3' -53.8 NC_001978.2 + 28885 0.66 0.728261
Target:  5'- aGCGCUGCCAacaCGcGCAuuuCGAuugccugaaAGUCGa -3'
miRNA:   3'- -CGCGACGGUacaGC-CGUu--GCU---------UCAGC- -5'
8110 3' -53.8 NC_001978.2 + 13196 0.66 0.706295
Target:  5'- aGCG-UGUCGggGUCGGCAGCGucGAG-CGg -3'
miRNA:   3'- -CGCgACGGUa-CAGCCGUUGC--UUCaGC- -5'
8110 3' -53.8 NC_001978.2 + 30392 0.66 0.705188
Target:  5'- cGCGUggcagggUGCCGUGUCGcuCGACaAGGUCa -3'
miRNA:   3'- -CGCG-------ACGGUACAGCc-GUUGcUUCAGc -5'
8110 3' -53.8 NC_001978.2 + 12325 0.67 0.672803
Target:  5'- cCGCUGCCGacGUCGucagccgcGCAACGAucaAGUCc -3'
miRNA:   3'- cGCGACGGUa-CAGC--------CGUUGCU---UCAGc -5'
8110 3' -53.8 NC_001978.2 + 28733 0.67 0.66605
Target:  5'- aCGCUGCCGUcGUCGGauugGAUGAuucgccgcgcgauuGUCGg -3'
miRNA:   3'- cGCGACGGUA-CAGCCg---UUGCUu-------------CAGC- -5'
8110 3' -53.8 NC_001978.2 + 10522 0.67 0.661541
Target:  5'- ----aGCCG-GUCGGCGACGAAGa-- -3'
miRNA:   3'- cgcgaCGGUaCAGCCGUUGCUUCagc -5'
8110 3' -53.8 NC_001978.2 + 24557 0.67 0.650251
Target:  5'- aGUGUucaaUGCguUcGUCGGCGGCGucauGGUCGg -3'
miRNA:   3'- -CGCG----ACGguA-CAGCCGUUGCu---UCAGC- -5'
8110 3' -53.8 NC_001978.2 + 30856 0.67 0.638943
Target:  5'- cGCGCgaaucgGCCAUG-CGGUcgucACGAAcGUCa -3'
miRNA:   3'- -CGCGa-----CGGUACaGCCGu---UGCUU-CAGc -5'
8110 3' -53.8 NC_001978.2 + 9809 0.67 0.638943
Target:  5'- aCGCUggGCaagGUCGacggcGCGGCGAAGUCGg -3'
miRNA:   3'- cGCGA--CGguaCAGC-----CGUUGCUUCAGC- -5'
8110 3' -53.8 NC_001978.2 + 36901 0.68 0.616319
Target:  5'- cCGCUGCCG-GUCGGCAcccugccaccuGCGGaagaAGUUc -3'
miRNA:   3'- cGCGACGGUaCAGCCGU-----------UGCU----UCAGc -5'
8110 3' -53.8 NC_001978.2 + 40424 0.68 0.616319
Target:  5'- cCGCUGUgcUGU-GGUGACGGAGUCa -3'
miRNA:   3'- cGCGACGguACAgCCGUUGCUUCAGc -5'
8110 3' -53.8 NC_001978.2 + 16215 0.68 0.615189
Target:  5'- aGCGUggcaacGCCGgacgcaacucccuUGUCGGCAACGGGaaucgccccgacGUCGg -3'
miRNA:   3'- -CGCGa-----CGGU-------------ACAGCCGUUGCUU------------CAGC- -5'
8110 3' -53.8 NC_001978.2 + 34287 0.68 0.609539
Target:  5'- cGCGUUGCgcuCAgcgugGUCGGCAAcacaguucgcauaguCGGAGUUGg -3'
miRNA:   3'- -CGCGACG---GUa----CAGCCGUU---------------GCUUCAGC- -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.