miRNA display CGI


Results 1 - 17 of 17 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
343 3' -55.2 AC_000011.1 + 16984 0.66 0.592514
Target:  5'- cGGUAgCCCGGCGUGGggaugauggaAGGAuGCAGc -3'
miRNA:   3'- -UCGU-GGGCCGCGUCaag-------UCCUuUGUC- -5'
343 3' -55.2 AC_000011.1 + 5297 0.66 0.583422
Target:  5'- cGGCGCCCuGCGCGucGgcCAGGuAGCAa -3'
miRNA:   3'- -UCGUGGGcCGCGU--CaaGUCCuUUGUc -5'
343 3' -55.2 AC_000011.1 + 12856 0.66 0.583422
Target:  5'- uGCGCCUGGCcgauggccucGCGGUaCAGGuuaauCAGg -3'
miRNA:   3'- uCGUGGGCCG----------CGUCAaGUCCuuu--GUC- -5'
343 3' -55.2 AC_000011.1 + 13814 0.66 0.583422
Target:  5'- uGCGCCCgauacgggGGCGCAGgUgAGcGAACGGg -3'
miRNA:   3'- uCGUGGG--------CCGCGUCaAgUCcUUUGUC- -5'
343 3' -55.2 AC_000011.1 + 10873 0.66 0.560826
Target:  5'- cGCAUCUGcCGCAGUaCGGGAuGCAu -3'
miRNA:   3'- uCGUGGGCcGCGUCAaGUCCUuUGUc -5'
343 3' -55.2 AC_000011.1 + 21946 0.66 0.549617
Target:  5'- cAGCuuCC-GCGCAGUUgCAGGGcgcccAGCAGg -3'
miRNA:   3'- -UCGugGGcCGCGUCAA-GUCCU-----UUGUC- -5'
343 3' -55.2 AC_000011.1 + 22601 0.66 0.548499
Target:  5'- cGCACCCGGUGCacucccAGUUCuugugggcgaucuGGGAAugcGCGu -3'
miRNA:   3'- uCGUGGGCCGCG------UCAAG-------------UCCUU---UGUc -5'
343 3' -55.2 AC_000011.1 + 22370 0.67 0.494775
Target:  5'- cGCACCCGGCGUcGUgCAcGcAGCAGc -3'
miRNA:   3'- uCGUGGGCCGCGuCAaGUcCuUUGUC- -5'
343 3' -55.2 AC_000011.1 + 2179 0.68 0.470386
Target:  5'- uGCGCCgGGUGCugacuaggucuucgAGUggUCGGGAGAgGGg -3'
miRNA:   3'- uCGUGGgCCGCG--------------UCA--AGUCCUUUgUC- -5'
343 3' -55.2 AC_000011.1 + 11123 0.68 0.463085
Target:  5'- cGCgGCCCGGUuccacGCGGggCGGGAGcuGCGGc -3'
miRNA:   3'- uCG-UGGGCCG-----CGUCaaGUCCUU--UGUC- -5'
343 3' -55.2 AC_000011.1 + 8471 0.68 0.432492
Target:  5'- cGCGCCgGGCgGCAGgggCGgcucggggcccGGAGGCAGg -3'
miRNA:   3'- uCGUGGgCCG-CGUCaa-GU-----------CCUUUGUC- -5'
343 3' -55.2 AC_000011.1 + 13984 0.69 0.422559
Target:  5'- cGGUACCUGGCGCcua-CGGaGggGCGGa -3'
miRNA:   3'- -UCGUGGGCCGCGucaaGUC-CuuUGUC- -5'
343 3' -55.2 AC_000011.1 + 25194 0.69 0.384238
Target:  5'- cAGCAgCUGGggguUGCAGgcCAGGGAGCGGu -3'
miRNA:   3'- -UCGUgGGCC----GCGUCaaGUCCUUUGUC- -5'
343 3' -55.2 AC_000011.1 + 22190 0.71 0.28681
Target:  5'- cGCACCCGGgcuugugguugcaauCGCAGUgCAGGggGauCAGc -3'
miRNA:   3'- uCGUGGGCC---------------GCGUCAaGUCCuuU--GUC- -5'
343 3' -55.2 AC_000011.1 + 20009 0.71 0.283823
Target:  5'- uAGgACCCGG-GCAGgagCAGGAGGCu- -3'
miRNA:   3'- -UCgUGGGCCgCGUCaa-GUCCUUUGuc -5'
343 3' -55.2 AC_000011.1 + 24005 0.73 0.241936
Target:  5'- uGCGgUUGGCGCGG--CAGGAGACGGg -3'
miRNA:   3'- uCGUgGGCCGCGUCaaGUCCUUUGUC- -5'
343 3' -55.2 AC_000011.1 + 2228 1.09 0.000486
Target:  5'- cAGCACCCGGCGCAGUUCAGGAAACAGg -3'
miRNA:   3'- -UCGUGGGCCGCGUCAAGUCCUUUGUC- -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.