Fig. 3

FISH analysis of the mouse Xi. a Examples of nuclei after RNA-FISH for Xist (red) in neuronal cells show a bipartite structure for the Xi, consistent with the 3D structure detected by DNase Hi-C. b DNA-FISH for Dxz4 (red) following RNA-FISH for Xist (green) in MEFs shows that Dxz4 is located between the two regions coated by Xist RNA, consistent with Dxz4 location at the hinge region. Note that there are two inactive Xs marked by Xist RNA clouds in this MEF line. c While RNA-FISH for Xist (red) in Patski cells shows the bipartite structure, DNA-FISH using a mouse X chromosome paint probe (green) shows only a condensed structure for the Xi. d DNA-FISH using both a mouse X paint (green) and Dxz4 (red) shows that Dxz4 is located at the edge of the condensed Xi in MEFs and Patski cells. MEF nucleus is stained with DAPI (blue). The arrows mark Dxz4 on the Xi