Fig. 3
Number and length of redundant-UC/redundant-AG (r-UC/r-AG) motifs in Rsx/Xist RNAs available for triplex structures. a Three domains of Rsx RNA with r-UC/r-AG motif distributions are mapped. The distribution of three representative motifs (AG-12a, b, and c) and other AG-12 motifs is depicted at the bottom along the AG-12 domain. b r-AG or r-UC/r-AG motif–length distributions in four regions of Rsx RNA (indicated with black brackets in (a)). Upper and lower panels show the distributions before and after the analyses based on the predicted RNA secondary structures by the Mfold web server (unafold.rna.albany.edu/?/q=mfold), respectively. The numbers in square brackets indicate the positions of the sequences studied. c The inverted region in XistINV RNA allele (Top) and r-UC/r-AG motif–length distributions (wild-type vs. inverted; Left and Right) before and after Mfold analyses (Center and Bottom, respectively). E repeat is located directly downstream of the inverted region. d r-UC/r-AG motif–length distributions in Xist RNA based on SHAPE-MaP analyses (before and after in Top and Bottom, respectively) [44]. nt, nucleotides