miRNA display CGI


Results 1 - 20 of 140 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
28936 3' -61.5 NC_006146.1 + 4515 1.11 0.000883
Target:  5'- cGGGCCAGCGGGGGGUGACCAUCUCGGu -3'
miRNA:   3'- -CCCGGUCGCCCCCCACUGGUAGAGCC- -5'
28936 3' -61.5 NC_006146.1 + 135121 0.79 0.14829
Target:  5'- uGGGuuugcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 33380 0.79 0.150824
Target:  5'- cGGGCCgcugccccgcuccgGGUGGGGGGUGGCCcgCcUGGg -3'
miRNA:   3'- -CCCGG--------------UCGCCCCCCACUGGuaGaGCC- -5'
28936 3' -61.5 NC_006146.1 + 136693 0.78 0.162132
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGgccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa---GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 33134 0.78 0.174199
Target:  5'- cGGGCCgcugccccgcuccgGGUGGGGGGUGGCCcggCUgGGc -3'
miRNA:   3'- -CCCGG--------------UCGCCCCCCACUGGua-GAgCC- -5'
28936 3' -61.5 NC_006146.1 + 33258 0.78 0.174199
Target:  5'- cGGGCCgcugccccgcuccgGGUGGGGGGUGGCCcggCUgGGc -3'
miRNA:   3'- -CCCGG--------------UCGCCCCCCACUGGua-GAgCC- -5'
28936 3' -61.5 NC_006146.1 + 135949 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 136042 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 136135 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 136228 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 136321 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 136414 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135856 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135763 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135671 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135578 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135485 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135392 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 135299 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -5'
28936 3' -61.5 NC_006146.1 + 136507 0.78 0.182682
Target:  5'- uGGGuccgcugccccgcuCCGGCGGGGGGUGGCCGggccgCUgcCGGg -3'
miRNA:   3'- -CCC--------------GGUCGCCCCCCACUGGUa----GA--GCC- -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.