Differentially expressed genes between wild-type and <i>fpa-7</i>.

(A) Histogram of log2 fold change profiles for protein-coding genes differentially expressed (DE) between wild-type (WT) and fpa-7. (B) Reads mapping to the locus encoding SOC1. The SOC1 gene is orientated 5′–3′. (C) Reads mapping to the locus encoding FLC. Normalised reads are presented for WT and fpa. The top panel displays the reads corresponding to the FLC asRNAs and corresponds to the (+) strand while the bottom panel displays the reads corresponding to FLC mRNA and corresponds to the (−) strand. The FLC gene is orientated 3′–5′, while the reads corresponding to FLC asRNAs are orientated 5′–3′. Proximally polyadenylated ‘P’ FLC asRNAs were detected in fpa-7 and WT by the low number of reads at surrounding sites, while the distal ‘D’ cleavage sites were clearly defined. Exons are denoted by rectangles, UTRs by adjoining narrower rectangles and introns by lines. Images of normalised read alignments were made using the Integrated Genome Browser [55] and correspond to combined reads from the three sequenced biological replicates for each genotype.