Figure 6

ChIP-qPCR of the potential enhancer regions that may be associated with CACNA1D gene activities. A) Mapped ChIP-seq reads on and near CACNA1D; ChIP-seq on histone markers H3K4me1, H3K27ac, and H3K27me3 was performed for undifferentiated feather epithelium from embryonic day 7 (E7fe) and undifferentiated scale epithelium from embryonic day 9 (E9se). The positions chosen for ChIP-qPCR amplifications (black vertical bars) were designed based on the most differentially marked regions identified by MACS peak calling analysis. B-D) ChIP-qPCR results for enhancer-associated histone markers: H3K4me1, H3K27ac, and H3K27me3, respectively. Results are arranged in sequence from left to right, matching the sites for ChIP-qPCR amplification in A). “US” denotes primer set targeting the region upstream of the gene; “IN” denotes primer set targeting the intron of the gene. *represents p-values < 0.05 for the bracketed comparisons.