Extended Data Figure 6: Location of 4C interactions with respect to topological domains and block of microsynteny.
From: Enhancer loops appear stable during development and are associated with paused polymerase
a, 900-kb region around the scyl and chrb loci. Top to bottom: regions of conserved synteny (grey)24; location of previously identified Hi-C interactions (light blue)15; 4C interaction map around the scyl and chrb loci (viewpoint location, red arrowhead); location of significant 4C interactions and known enhancers. The strong interaction with the scyl gene is highlighted (blue arrowhead). WE, whole embryo. b, Percentage of 4C interactions, averaged over all conditions per viewpoint, located in the same topological domain (TAD) as the viewpoint, or in adjacent TADs, if the viewpoint is on the edge of the domain (top) or in the middle (bottom). TADs were defined based on HiC data at 16–18 h of development15. Significant difference from the background (asterisk) and corresponding P values using a two-sided Mann–Whitney U-test are indicated. c, Percentage of interactions located in the same block of microsynteny as the viewpoint, or in adjacent blocks, if the viewpoint is on the edges of the block (top) or in the middle (bottom). Microsynteny was previously defined by Engström et al.24 based on 5 species spanning ∼50 million years of evolution. Significant differences between the observed and expected interactions (asterisk) were assessed using a two-sided Mann–Whitney U-test.
