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
17079 3' -52.7 NC_004333.2 + 10678 0.66 0.824442
Target:  5'- uGGCcgUgGCcgGCGGCCcauUGCUCGa -3'
miRNA:   3'- uCCGuaAgCGa-UGCUGGuucACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 42017 0.66 0.824442
Target:  5'- -cGCGUgaagCGC-GCGGCCAAcgagcggggcGUGCUCGc -3'
miRNA:   3'- ucCGUAa---GCGaUGCUGGUU----------CACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 6705 0.66 0.814901
Target:  5'- gGGcGCAUUgGCgacgagccaUGCGugCAAcGUGCUCa -3'
miRNA:   3'- -UC-CGUAAgCG---------AUGCugGUU-CACGAGc -5'
17079 3' -52.7 NC_004333.2 + 35411 0.66 0.795216
Target:  5'- aAGGCGagaUUCGCgucuggUACGACUAcGUGCgcgCGu -3'
miRNA:   3'- -UCCGU---AAGCG------AUGCUGGUuCACGa--GC- -5'
17079 3' -52.7 NC_004333.2 + 30041 0.66 0.795216
Target:  5'- uGGCGUUCGUcuUGAUgccGUGCUCGa -3'
miRNA:   3'- uCCGUAAGCGauGCUGguuCACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 19129 0.66 0.774805
Target:  5'- cGGCGcgaUCGUggGCGGCgcGGUGCUCGc -3'
miRNA:   3'- uCCGUa--AGCGa-UGCUGguUCACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 7387 0.67 0.752699
Target:  5'- gGGGCGagCGacaugacgcgugcCUGCGGCCAGGUcugcgcgaugcGCUCGa -3'
miRNA:   3'- -UCCGUaaGC-------------GAUGCUGGUUCA-----------CGAGC- -5'
17079 3' -52.7 NC_004333.2 + 48001 0.67 0.743041
Target:  5'- cGGGCAguggacUCGCgccagGCG-CCGAucguGUGCUCGc -3'
miRNA:   3'- -UCCGUa-----AGCGa----UGCuGGUU----CACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 36205 0.67 0.736548
Target:  5'- cGGCcgcgaucgucgaCGCUGCGugCAAGgcGCUCGa -3'
miRNA:   3'- uCCGuaa---------GCGAUGCugGUUCa-CGAGC- -5'
17079 3' -52.7 NC_004333.2 + 9490 0.68 0.710201
Target:  5'- cGGGaauUUCaGCgcgGCGGCCAGcUGCUCGa -3'
miRNA:   3'- -UCCgu-AAG-CGa--UGCUGGUUcACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 22192 0.68 0.710201
Target:  5'- cGGCgGUUCggcgGCUGCGGCC---UGCUCGa -3'
miRNA:   3'- uCCG-UAAG----CGAUGCUGGuucACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 45835 0.68 0.699074
Target:  5'- -aGCug-CGCaACGGCCGcacGGUGCUCGc -3'
miRNA:   3'- ucCGuaaGCGaUGCUGGU---UCACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 47840 0.68 0.699074
Target:  5'- cGGGCAUUucgggCGgUACGGCCAuuccGGUGCa-- -3'
miRNA:   3'- -UCCGUAA-----GCgAUGCUGGU----UCACGagc -5'
17079 3' -52.7 NC_004333.2 + 10477 0.68 0.699074
Target:  5'- cAGGaCAUUCGCUACuACCugaacGGcaucuUGCUCGa -3'
miRNA:   3'- -UCC-GUAAGCGAUGcUGGu----UC-----ACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 9007 0.68 0.687878
Target:  5'- cGGCGUUCGCgGCuuGCCAGGcggcgcGCUCGc -3'
miRNA:   3'- uCCGUAAGCGaUGc-UGGUUCa-----CGAGC- -5'
17079 3' -52.7 NC_004333.2 + 16879 0.68 0.686755
Target:  5'- cGGCGUcggCGCaggUGCGGCCGgucucgccggcauGGUGCUUGc -3'
miRNA:   3'- uCCGUAa--GCG---AUGCUGGU-------------UCACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 44421 0.68 0.686755
Target:  5'- cGGGC--UCGCUggcugguGCGugCGAGgcGCUCGg -3'
miRNA:   3'- -UCCGuaAGCGA-------UGCugGUUCa-CGAGC- -5'
17079 3' -52.7 NC_004333.2 + 36285 0.69 0.653996
Target:  5'- cGGGC---CGCgACGACaAGGUGCUCGc -3'
miRNA:   3'- -UCCGuaaGCGaUGCUGgUUCACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 39225 0.69 0.653996
Target:  5'- cGGCcga-GCUGCGugCAA-UGCUCGa -3'
miRNA:   3'- uCCGuaagCGAUGCugGUUcACGAGC- -5'
17079 3' -52.7 NC_004333.2 + 17502 0.69 0.63128
Target:  5'- cGGCGgcggCGCgaACGGCUucaugaAGGUGCUCGa -3'
miRNA:   3'- uCCGUaa--GCGa-UGCUGG------UUCACGAGC- -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.