miRNA display CGI


Results 1 - 7 of 7 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
1313 3' -55.3 NC_001331.1 + 964 1.1 3.6e-05
Target:  5'- cACCGAUGGCCAGGGCGAUAUGAAGGCc -3'
miRNA:   3'- -UGGCUACCGGUCCCGCUAUACUUCCG- -5'
1313 3' -55.3 NC_001331.1 + 4280 0.76 0.028984
Target:  5'- cGCCGccGGCCGGGagcgcaaggcaugaGCGAUAggccGAAGGCg -3'
miRNA:   3'- -UGGCuaCCGGUCC--------------CGCUAUa---CUUCCG- -5'
1313 3' -55.3 NC_001331.1 + 3539 0.75 0.032478
Target:  5'- uGCCGGUGGCCGuGGacuGGUA-GAGGGCg -3'
miRNA:   3'- -UGGCUACCGGUcCCg--CUAUaCUUCCG- -5'
1313 3' -55.3 NC_001331.1 + 6889 0.67 0.14764
Target:  5'- gACCGGaucGGCCAcggugcGGGCGGcuUGGaucAGGCa -3'
miRNA:   3'- -UGGCUa--CCGGU------CCCGCUauACU---UCCG- -5'
1313 3' -55.3 NC_001331.1 + 915 0.66 0.184073
Target:  5'- uGCCGGccuucGCCGGGGUGAUcgacaccagcgcgGUGGAaucGGCg -3'
miRNA:   3'- -UGGCUac---CGGUCCCGCUA-------------UACUU---CCG- -5'
1313 3' -55.3 NC_001331.1 + 352 0.66 0.167879
Target:  5'- gGCCGG-GGCUuGGGCGGUcgGcgccaucGGCu -3'
miRNA:   3'- -UGGCUaCCGGuCCCGCUAuaCuu-----CCG- -5'
1313 3' -55.3 NC_001331.1 + 4134 0.66 0.181186
Target:  5'- -aCGAUGGUCAGcGGCGAcuggccccuggccgGUGcgucugcgGAGGCg -3'
miRNA:   3'- ugGCUACCGGUC-CCGCUa-------------UAC--------UUCCG- -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.