Motifs and their corresponding transcription factors exhibit specific preferences for promoters or distal enhancers in the genome. (A) Motifs with at least twofold enrichment at mouse gene promoters or distal CREBBP-bound enhancers, relative to corresponding flanking sequences. Motifs corresponding to CREB, RFX, and AP1 are labeled for the 10 most enriched motifs at gene promoters or distal enhancers. For colored motifs, enrichment at both classes of loci is significant (P < 10−5, Bonferroni-corrected binomial test). (B) Percentages of cortical neuron CREB, RFX, and AP1 ChIP-seq peaks located at gene promoters (top) and distal enhancers (bottom). Antibodies used were anti-CREB, anti-FOS (AP1), and anti-MYC (with MYC-tagged RFX dominant negative): (*) P < 10−14 by a hypergeometric test.
