Mouse gene models derived from FANTOM5 TSS and ENCODE ChIP data. Gene models for Foxg1 (panel a), Mecp2 (panel b) and Cdkl5 (panel c) were drawn for the main TSS for each gene and the ENCODE histone ChIP marks for 8 week mouse cortex. For Foxg1, the enhancer mark was 1 kb upstream and the promoter mark was 1.1 kb downstream of the TSS. For Mecp2, the TSS was upstream of the overlapping promoter and enhancer mark. For Cdkl5, the TSS was within the promoter and the enhancer was upstream of the TSS.