UCSC browser views of domains around the constitutive escapees Kdm6a. Allelic profiles of ATAC-seq reads and CTCF and RAD21 ChIP-seq reads on the Xa (blue) and Xi (green) are shown. Nine of 16 boundaries between the putative escape domain (yellow) and its flanking silent regions (blue) are marked by CTCF binding sites with divergent orientation (dotted ovals). Inside of the escape domain convergent arrays of CTCF binding sites and RAD21 peaks suggest loop interactions mediated by forward motifs and reverse motifs (black arrowheads). ENCODE cCREs are shown for promoters (red), enhancers (yellow/orange), and conserved CTCF sites (cyan). A strong putative proximal/distal enhancer cCRE of an escapee is marked by an orange arrow based on the highest Xi-H3K27ac enrichment close to this escapee (Additional file1: Fig. S3). Genes known to escape XCI are labeled in red, genes subject to XCI, in black, and genes that are not expressed or not assessable due to lack of SNPs, in grey. See Additional file 1 : Fig. S2A-F for profiles in mouse brain, and Fig. 1 for the profiles at the constitutive escapee Ddx3x and facultative escapee Car5b in Patski cells
