Translation of the genomic RNA uORF.

<p><b>(A)</b> RiboSeq (CHX and HAR) and RNASeq (RNA) counts are shown for repeat 1 at 5 h p.i.; RiboSeq HAR counts are also shown for the high MOI infection. Histograms show the positions of the 5′ ends of reads with a +12 nt offset to map the approximate P-site. Reads whose 5′ ends map to the first, second or third positions of codons relative to the reading frames of the uORFs and ORF1a (which are in phase) are indicated in purple, blue or orange, respectively. Note that the illustrated region does not extend to the genomic 5′ terminus. <b>(B)</b> Comparison of RiboSeq CHX densities summed over all host NCBI RefSeq mRNAs and summed over mRNAs whose annotated coding sequences begin with AUG-CCN (Met-Pro). Histograms show the positions of the 5′ ends of reads, e.g. RPFs of ribosomes paused during initiation (AUG in the P-site at position 0 to 2) have 5′ ends that map predominantly to −12 or −13.