Figure 5.

Genomic analysis of RNA level and ribosome initiation in wild type and a loc1Δ mutant. (A) Transcripts and protein produced from Ty1. The element was divided into regions uniquely assignable to Ty1 (red), or Ty1 and Ty1i transcripts (blue). Three proteins are presented, two overlapping in the zero frame (Gag and p22), and a third produced after the +1 frameshift (Pol). These were assigned to Gag (green), Gag or p22 (light blue), or Pol (orange). (B) RNA-seq read counts for all genes (black dots) between wild type and loc1Δ. Each point is the average of three biological replicas for each strain. Highlighted are RNA read counts uniquely assignable to Ty1 (red), or Ty1 and Ty1i (blue). (C) Ribo-seq read counts for all genes (black dots) between wild type and loc1Δ. Analysis was restricted to reads 28 bp in length, and each point is the average of three biological replicas for each strain. Highlighted are read counts uniquely assignable to GAG in the zero frame (green), to either GAG or p22 in the zero frame (light blue), and reads from the POL region in the +1 frame (orange).