miRNA display CGI


Results 1 - 20 of 47 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
12446 5' -56.1 NC_003324.1 + 26487 1.11 0.000716
Target:  5'- aCCUCGGCAGCGCUCGACAUACCGUCGa -3'
miRNA:   3'- -GGAGCCGUCGCGAGCUGUAUGGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 44101 0.79 0.137255
Target:  5'- aCCUC-GCAGCGCUCGGCAUGaucCCGgCGg -3'
miRNA:   3'- -GGAGcCGUCGCGAGCUGUAU---GGCaGC- -5'
12446 5' -56.1 NC_003324.1 + 22094 0.77 0.199432
Target:  5'- ---aGGCuGCGCUCGACAUGCgccuCGUCGa -3'
miRNA:   3'- ggagCCGuCGCGAGCUGUAUG----GCAGC- -5'
12446 5' -56.1 NC_003324.1 + 25586 0.75 0.264312
Target:  5'- uCCUCGGCGGUGa-UGACAUAguCUGUCGg -3'
miRNA:   3'- -GGAGCCGUCGCgaGCUGUAU--GGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 13439 0.73 0.322332
Target:  5'- uCCguaCGGCAGCGCgucgcauguuuggucCGGCGcggcUGCCGUCGa -3'
miRNA:   3'- -GGa--GCCGUCGCGa--------------GCUGU----AUGGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 1991 0.72 0.36181
Target:  5'- --aCGGCuuCGCUCGACGUucucaACCGUCa -3'
miRNA:   3'- ggaGCCGucGCGAGCUGUA-----UGGCAGc -5'
12446 5' -56.1 NC_003324.1 + 43241 0.72 0.396446
Target:  5'- gCUCGGauuGGCGCUCGcucaACAagcucGCCGUCGa -3'
miRNA:   3'- gGAGCCg--UCGCGAGC----UGUa----UGGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 39500 0.71 0.411799
Target:  5'- uCgUCGGCAGagaacccggccaaaUGCUCGuACAUcaGCCGUCGu -3'
miRNA:   3'- -GgAGCCGUC--------------GCGAGC-UGUA--UGGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 51784 0.71 0.433145
Target:  5'- gCCUCGcugauauccuGCAGgCGCUCGACGcgaaCGUCGg -3'
miRNA:   3'- -GGAGC----------CGUC-GCGAGCUGUaug-GCAGC- -5'
12446 5' -56.1 NC_003324.1 + 11009 0.71 0.442625
Target:  5'- aCCcCGGCGGUGUUgGcauACAUACCGaUCGg -3'
miRNA:   3'- -GGaGCCGUCGCGAgC---UGUAUGGC-AGC- -5'
12446 5' -56.1 NC_003324.1 + 38354 0.7 0.452221
Target:  5'- aCCggGGCGGCGCUgGuC--GCCGUCGu -3'
miRNA:   3'- -GGagCCGUCGCGAgCuGuaUGGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 25325 0.7 0.459005
Target:  5'- gCCUUGGCuuuaagggcggccaGGUGCUCGA---ACCGUCa -3'
miRNA:   3'- -GGAGCCG--------------UCGCGAGCUguaUGGCAGc -5'
12446 5' -56.1 NC_003324.1 + 13165 0.7 0.47076
Target:  5'- gCgUCGGCGGCGgUCGGCggcggcgGUACCGg-- -3'
miRNA:   3'- -GgAGCCGUCGCgAGCUG-------UAUGGCagc -5'
12446 5' -56.1 NC_003324.1 + 32403 0.7 0.481668
Target:  5'- aCCUCGGCcGCGCUCu---UACCG-CGc -3'
miRNA:   3'- -GGAGCCGuCGCGAGcuguAUGGCaGC- -5'
12446 5' -56.1 NC_003324.1 + 33755 0.69 0.512014
Target:  5'- gCCUUGGCGGCaGCgcaGGCGUAUCGagCGu -3'
miRNA:   3'- -GGAGCCGUCG-CGag-CUGUAUGGCa-GC- -5'
12446 5' -56.1 NC_003324.1 + 47670 0.69 0.512014
Target:  5'- --cCGGU-GCGCUgGACAguuCCGUCGg -3'
miRNA:   3'- ggaGCCGuCGCGAgCUGUau-GGCAGC- -5'
12446 5' -56.1 NC_003324.1 + 49724 0.69 0.54312
Target:  5'- -aUCGGCAGCGUcgUCGAaGUugCGaUCGu -3'
miRNA:   3'- ggAGCCGUCGCG--AGCUgUAugGC-AGC- -5'
12446 5' -56.1 NC_003324.1 + 18897 0.69 0.55363
Target:  5'- gCUCGGUcGCGUUCGGC-UGCgCGcUCGa -3'
miRNA:   3'- gGAGCCGuCGCGAGCUGuAUG-GC-AGC- -5'
12446 5' -56.1 NC_003324.1 + 24821 0.68 0.574823
Target:  5'- gUUCGGCAggcggaucGCGC-CGACAaggucgGCCGUCu -3'
miRNA:   3'- gGAGCCGU--------CGCGaGCUGUa-----UGGCAGc -5'
12446 5' -56.1 NC_003324.1 + 30552 0.68 0.574823
Target:  5'- gCUCGGCGGCGCcgauUCGACccGCaaCGuUCGg -3'
miRNA:   3'- gGAGCCGUCGCG----AGCUGuaUG--GC-AGC- -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.