Fig. 2.

IRF4 and IRF8 spec-seq with BATF/BATF2/BATF3 and JUNB. a Two modes of potential BATFx–JUNB–IRFx hetero-trimer binding to DNA [14]. The IRFx can bind either 0 or 4 nucleotides away from the BATFx–JUNB binding site. b Oligos used to generated the library used in the Spec-seq experiment. Each oligo contains two potential IRF binding locations, either 0 or 4 nucleotides from the BATFx–JUNB binding site. The IRF site intended for binding test is randomized to NNNN while the IRF site not intended for IRF binding was mutated to ACGG, a sequence not preferred by either IRF. The BATFx–JUNB site is mutated to have a “C” instead of an “A” on the 7th position to facilitate BATFx–JUNB binding in only one direction. c Energy logos for BATFx–JUNB–IRFx hetero-trimer binding. Logos for two IRFx sites were generated separately and combined in a single logo. Single variants from the consensus IRFx binding site of GAAA were used to generate these logos. The Y-axis is negative energy (kT units) so the preferred sequence is on the top