Characterization of ncRNAs associated with Hoxb5/Hoxb6 and Evx1 loci. (A) Genomic context of Hoxb5/Hoxb6 (top) and Evx1 (bottom) and their associated ncRNAs, Hoxb5/6as, and Evx1as. (B) Relative expression profiles of Hoxb5, Hoxb6, and Hoxb5/6as (left) and Evx1 and Evx1as (right) during EB differentiation as determined by qRT-PCR (relative to day 0; primer positions indicated in A). Error bars show standard deviation (SD) determined from three replicates. (C) Whole-mount ISH showing expression of Hoxb6 and Hoxb5/6as (upper panels) and Evx1 and Evx1as (lower panels) in the tail bud of E9.5 mouse embryos. (D) Association of Hoxb5/6as and Evx1as RNAs with H3K4me3 chromatin and MLL1 fractions, as detected by ChIP followed by RT-PCR detection (see Methods). Normal IgG was used as a negative control antibody, and input corresponds to RNA present in the samples before ChIP.
