Figure 4

The FLC:SVP complex binds to distinctive cis -elements. (A) The sequence logos for CArG-box, G-box and CE-box. (B) Bar plot showing motifs enriched in different ChIP-seq peak regions. The CArG-box (blue) was enriched in all ChIP regions whereas the G-box (green) was enriched only when both the SVP and FLC binding site co-localized. The newly identified CE-box motif (red) was enriched only in UB and 2TF subsets of the SVP:GFP ChIP dataset. (C) Nucleotide distribution at the de novo discovered CArG-box (CC(A/T)₆GG) motif for FLC and SVP ChIP-seq regions defined in (B). The A/T stretch shows differences in its nucleotide distribution for 1TF, UB and 2TF. The CArG-box motif is highlighted in grey. (D) Bar plot showing significant co-occurrences observed for CArG-box and G-box. Significant co-occurrences were observed for CArG-box and G-box when both FLC and SVP binding sites co-localized. (E) Histogram displaying the distribution of relative distance observed between nearest CArG-box and G-box occurrences for the different datasets. For FLC binding: 1TF (orange), UB (red), 2TF (green). For SVP binding: 1TF (blue), UB (cyan), 2TF (brown). CArG-box and G-box motifs most often occur within a sequence window of 100 to 200 bp.