Figure 1

Nkx2.2 binds to the alternative core sequence "GAGT". (A) Table showing E-score distribution of octamers. E-scores were generated using protein binding microarray data. Octamers were divided into AAGT containing, GAGT containing and all octamers (left column). The number of octamers in each group with an E-score above 0.45 is shown in the middle column. Average E-score from all octamers in each group is shown in the right column. (B) Histogram plot of E-score distribution for AAGT, GAGT, TAGT and CAGT. Each point represents the percentage of total sites within a 0.10 bin that contain the given core sequence. (C) EMSA analysis of the canonical AAGT containing consensus probe (Sup. Table 3: "Nkx2.2 AAGT"), a GAGT core containing probe (Sup. Table 3: "Nkx2.2 GAGT"), and a probe with no core sequence (Sup. Table 3: "Nkx2.2 No Core"). Each probe was incubated with in vitro synthesized Nkx2.2 (Myc tagged-Nkx2.2 TNT Protein) or αTC1 nuclear extract with or without transfected Myc tagged-Nkx2.2.