Expression-QTNs are under-represented in coding sequence introns, even after controlling for position effects.

The plot shows the odds ratios for the probability that a SNP in a particular part of the gene (e.g., coding exon) is inferred to be an eQTN, relative to that probability for a SNP in an “internal” intron (i.e., an intron within the coding sequence). The odds ratios are estimated using the hierarchical model with internal introns fixed at a value of 1, and control for SNP position using the TSS+TES model. The vertical bars show 95% confidence intervals.