Figure 6. mRNA sequence, structure, and length correlate with IE.
(A) Reduced IE values for genes with at least one upstream AUG (i.e., an AUG codon located within the annotated 5' UTR). The plots indicated the median (line), quartile (box) and 1st and 99th percentiles (whiskers) of the distributions.
(B) Inverse relationship between IE and the folding energy of predicted RNA secondary structure near the cap (Cap-folding energy). RNAfold was used to estimate folding energies for the first 70 nt of the mRNA. Gray bars indicate 1 SD of IE values for genes binned by predicted folding energy. The best linear least-squares fit to the data is shown (solid line), with the Pearson R.
(C) Inverse relationship between IE and ORF length. The best linear least-squares fit to the data is shown (solid line), with the Pearson R.
See also Figure S7.