Fig. 5

Epigenetic changes after disconnecting the HoxD cluster from its flanking 3′-TAD. a On top, a Hi-C profile of distal limb bud cells shows the HoxD-associated TADs. The panels below show a comparison of 4C-seq tracks between control (Wt from [34]) and inv(attP-Itga6)-mutant distal limb cells. Either the Hoxd4 gene (top two panels) or the CS38 region (bottom two panels) was used as baits (yellow vertical bars). The red bars indicate the locations of the loxP sequences used to generate the inversion. After inversion, contacts between Hoxd4 and the 3′-TAD are all lost, while they barely change when region CS38 is used as bait. b H3K27me3 ChIP profiles in control (Wt) and either the inv(attP-Itga6) inversion (top two profiles) or the inv(Nsi-Itga6) inversion (bottom two profiles). Below each mutant track, a comparison between mutant and control data is shown. The red bars indicate the inversion breakpoints. In the inv(attP-Itga6) track, an additional peak appears at the 5′ extreme of the HoxD cluster (black asterisk), corresponding to an ectopic sequence introduced when building the attP breakpoint. The red asterisk indicates an artifactual signal. The number of replicates is shown for each track. Below each mutant track, a difference profile of mutant versus control signals is represented