Chromatin accessibility profiles in the <i>T</i>. <i>gondii</i> genome indicate incomplete annotations of genes.

The chromatin accessibility pattern at all of the ATAC-seq peaks in the T. gondii genome at the tachyzoite stage of its life cycle is shown in (A). When the subset within ±5 kb of annotated T. gondii transcription start sites (TSS) is plotted with the associated genes represented to the right of the TSS (B, blue line), the patterns shows a skewing relative to the distributions of all peaks from panel (A) (gray distribution). Examples of genes are show to represent how the annotated TSS can be several kilobases (kb) from the upstream ATAC-seq peak and the start of the RNA-seq reads, with examples of 1.53 kb (C) and 4.03 kb (D) differences illustrated. In (E) we gain the additional insight that the two annotated genes are only associated with a single upstream ATAC-seq peak, indicating that there is only one transcript at this locus and the genes could be combined into a single annotation.