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Table 2 The difference in characteristics of 5'-end proximal hairpins started in 6th – 20th CDS positions of human and mouse cDNAs characterized by optimal and suboptimal start codon contexts (purine (Pu) and pyrimidine (Py) in pos. -3 upstream AUG, respectively; Etot, energy of an eligible hairpin, kcal/mol; Est, energy of the hairpin stem region, kcal/mol; Lst, size of the hairpin stem region, base pairs)†

From: AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site

CDS pos. human mouse
  EtotPy-EtotPukcal/mol EstPy-EstPu kcal/mol LstPy-LstPu b.p. EtotPy-EtotPu kcal/mol EstPy-EstPu kcal/mol LstPy-LstPu b.p.
6 0.45 0.21 -0.14 0.09 -0.16 0.08
7 0.40 0.38 -0.19 0.02 0.35 -0.26
8 -0.25 0.15 -0.22 1.04 -0.027 -0.16
9 1.79 0.11 -0.203 0.24 -0.53 0.02
10 1.89 0.01 0.13 -0.47 -0.29 0.11
11 0.79 0.21 -0.09 -0.87 -0.80 0.16
12 1.12 0.11 -0.02 0.86 1.29 -0.64
13 -1.28* 0.39 -0.13 -3.65* -1.02* 0.19
14 -2.41* -1.09** 0.10 1.12 1.65 -0.74
15 -0.87 -0.29 0.09 -1.84 0.54 -0.47
16 -1.03** -0.53* 0.26* 3.42 -0.10 0.11
17 2.87 -1.15** 0.71* -3.73* -0.60* 0.46
18 -0.94 0.13 -0.24 3.08 -0.43 0.04
19 -2.99* 0.82 -0.48 1.88 0.75 0.10
20 -1.82 -0.58 0.06 -2.74 0.47 -0.32
  1. † CDS positions where mean Etot and Est values were significantly lower (and Lst values were significantly higher) in mRNA samples with a suboptimal start codon context are marked (EtotPy – EtotPu, EstPy – EstPu, and LstPy – LstPu values are bolded; the significance level (according to Mann-Whitney U-test or Kolmogorov-Smirnov two-sample test) is shown by numbers: * p < 0.05; ** p < 0.01;*** p < 0.001)