Fig. 4

Deletion and inversion of each one of the two CTCF arrays at the TZ. a CRISPR targets were designed as depicted, to produce deletion and inversion of either centromeric (TZ-L) or telomeric (TZ-R) of the TZ CTCF arrays. b Comparison of the inter-domain contacts (ratio of the invasion reads to the control reads; see Additional file 1: Figure S2) of 4C-seq from the VP-Fam209 and VP-Spo11. * indicates p < 0.05 by one-sided permutation test against the Hap allele. c–h 4C-seq plots of the Hap cells (c), del2 (d), del-L (e), inv-L (f), del-R (g) and inv-R (h) from the viewpoints around the TZ region. The viewpoints are depicted under each plot. They were VP-Tdom to the left of the TZ-L, VP-TZL at the TZ-L, VP-TZmid between TZ-L3 and TZ-L4, VP-TZR at the TZ-R, and the VP-Bdom to the right of the TZ-R. i–n Directionality scores of chromatin folding of the viewpoints are plotted for each allele configuration. Directionality score was determined as the difference of the number of mapped reads between the left and right intervals within the 200-kb distance from the viewpoint, which was normalized by the sum of them. o The 4C-seq plot of wild-type ES cells from a viewpoint between TZ-L3 and VP-TZmid (VP-TZmid2). p The schema of the folding property of the TZ. The TZ-L and the TZ-R together generate the diverging directionality of the chromatin folding, thus establishing a boundary. However, the region between the TZ-L3 and TZ-L4 rather contacts with the both sides equivalently