miRNA display CGI


Results 1 - 20 of 56 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
17136 3' -55.2 NC_004333.2 + 11607 1.1 0.000942
Target:  5'- uCCUGAAACGCGCCGGCCGUCACUUCGc -3'
miRNA:   3'- -GGACUUUGCGCGGCCGGCAGUGAAGC- -5'
17136 3' -55.2 NC_004333.2 + 47570 0.77 0.173578
Target:  5'- aCUGGu-CGCGCCGGCCGgCGCcUCGu -3'
miRNA:   3'- gGACUuuGCGCGGCCGGCaGUGaAGC- -5'
17136 3' -55.2 NC_004333.2 + 25415 0.77 0.188195
Target:  5'- gCCUGcAGCGUGCCggcggcGGCCGUCACgcCGg -3'
miRNA:   3'- -GGACuUUGCGCGG------CCGGCAGUGaaGC- -5'
17136 3' -55.2 NC_004333.2 + 4740 0.75 0.244938
Target:  5'- uCCUGAAgaaagacccGCGCGCCGGCCugcccGUCGCcaugaUCGc -3'
miRNA:   3'- -GGACUU---------UGCGCGGCCGG-----CAGUGa----AGC- -5'
17136 3' -55.2 NC_004333.2 + 10634 0.74 0.267244
Target:  5'- gCCUGcGAUGCGCCcgauaaacgcgcgauGGCCGUCugUUgCGa -3'
miRNA:   3'- -GGACuUUGCGCGG---------------CCGGCAGugAA-GC- -5'
17136 3' -55.2 NC_004333.2 + 23226 0.74 0.271347
Target:  5'- uCUUGAucacggcggcgAACGCGCCGGUCGUgUugUUCGu -3'
miRNA:   3'- -GGACU-----------UUGCGCGGCCGGCA-GugAAGC- -5'
17136 3' -55.2 NC_004333.2 + 46499 0.74 0.299998
Target:  5'- gCUGcAAGCGCGCCGGUgGUCugUc-- -3'
miRNA:   3'- gGAC-UUUGCGCGGCCGgCAGugAagc -5'
17136 3' -55.2 NC_004333.2 + 18664 0.73 0.307516
Target:  5'- gCCUGc--CGCGCCGGUCGUUugUUg- -3'
miRNA:   3'- -GGACuuuGCGCGGCCGGCAGugAAgc -5'
17136 3' -55.2 NC_004333.2 + 19547 0.73 0.307516
Target:  5'- gCUGAuGgGCGCCGGUCG-CACggUCGg -3'
miRNA:   3'- gGACUuUgCGCGGCCGGCaGUGa-AGC- -5'
17136 3' -55.2 NC_004333.2 + 47493 0.73 0.347257
Target:  5'- gCUGAacGAgGCGCCGGCCGgCGCg--- -3'
miRNA:   3'- gGACU--UUgCGCGGCCGGCaGUGaagc -5'
17136 3' -55.2 NC_004333.2 + 13868 0.72 0.390539
Target:  5'- aUUG-AGCGCGCCGcGCCG-CGCgaagUCGg -3'
miRNA:   3'- gGACuUUGCGCGGC-CGGCaGUGa---AGC- -5'
17136 3' -55.2 NC_004333.2 + 22366 0.7 0.456734
Target:  5'- aCCUGcgccgcACGCGCCgaggauGGCCGUCugccaggucgagGCUUCGc -3'
miRNA:   3'- -GGACuu----UGCGCGG------CCGGCAG------------UGAAGC- -5'
17136 3' -55.2 NC_004333.2 + 25657 0.7 0.456734
Target:  5'- --cGaAAGCGUcuuGCCGGCCGUCGCgaacgCGg -3'
miRNA:   3'- ggaC-UUUGCG---CGGCCGGCAGUGaa---GC- -5'
17136 3' -55.2 NC_004333.2 + 47951 0.7 0.466678
Target:  5'- gCUGcucGGCGCGCUGGUCGUCGgCgucaUCGg -3'
miRNA:   3'- gGACu--UUGCGCGGCCGGCAGU-Ga---AGC- -5'
17136 3' -55.2 NC_004333.2 + 33245 0.7 0.476732
Target:  5'- uCCUGAAggaaGCGCuuaGCCGGCCGcgugCcgGCUUCu -3'
miRNA:   3'- -GGACUU----UGCG---CGGCCGGCa---G--UGAAGc -5'
17136 3' -55.2 NC_004333.2 + 30125 0.7 0.486894
Target:  5'- aCUGGAagaugcccuGCGCGCCuuGGCCGcCGCcuUUCGu -3'
miRNA:   3'- gGACUU---------UGCGCGG--CCGGCaGUG--AAGC- -5'
17136 3' -55.2 NC_004333.2 + 11893 0.7 0.497156
Target:  5'- gCUGGAGCGCGCCgucgcgcugauGGCCGcgucgUACUUgCGc -3'
miRNA:   3'- gGACUUUGCGCGG-----------CCGGCa----GUGAA-GC- -5'
17136 3' -55.2 NC_004333.2 + 17360 0.7 0.497156
Target:  5'- --gGAcGCuGCGCCGGCCGgcguUCACgUCGa -3'
miRNA:   3'- ggaCUuUG-CGCGGCCGGC----AGUGaAGC- -5'
17136 3' -55.2 NC_004333.2 + 26859 0.7 0.501288
Target:  5'- --cGAAGCGCGCCuacucgucggcagacGGCUuUUACUUCGg -3'
miRNA:   3'- ggaCUUUGCGCGG---------------CCGGcAGUGAAGC- -5'
17136 3' -55.2 NC_004333.2 + 31314 0.69 0.539108
Target:  5'- aCC-GAGACgGCGCugcgccgcgCGGCCGUCGCgcCGg -3'
miRNA:   3'- -GGaCUUUG-CGCG---------GCCGGCAGUGaaGC- -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.