Fig. 1.

Schematic diagram of the HSV-1 genome and the LAT locus. (a) Schematic of the 8.3 kb primary LAT. The black rectangle represents the stable 2 kb LAT intron. The arrow at +1 denotes the start of LAT transcription. (b) Expanded view of the first 1.5 kb of the LAT coding sequence and the region upstream of this. The LAT promoter, the start of LAT transcription (arrow, +1; nt 118801) and the first 1.5 kb of the LAT coding sequence are shown. Restriction enzyme sites are shown for reference. The positions of the UOL transcript, AL transcript, the two LAT small RNAs (s-RNAs) located within the first 1.5 kb of the LAT coding sequences (Peng et al., 2008) and ORFs located on the opposite strand to LAT (AL2 and AL3) are shown. Nucleotide positions relative to the start of LAT transcription are shown in parentheses. Numbers not in parentheses represent HSV-1 nucleotide positions. (c) Schematic of the AL3 gene. The ORF encoding the putative AL3 protein is denoted by a grey rectangle. The putative AL3 promoter is between LAT nt +1356 and +1499. Primers K and C (Supplementary Table S1) were used for amplifying AL3 RNA. Asterisks above the AL3 ORF denote the positions of peptides used to generate AL3-specific antiserum.