Fig. 6.

NC2 occupancy at core promoters. (a) Relation between frequencies of core promoter elements and NC2α occupancy. The indicated NC2α enrichment classes were referenced to a survey of the core promoter composition of 9,010 annotated transcription start site sequences (24) to relate the relative frequency of TATA box (TATA), initiator (INR), downstream promoter element (DPE), TFIIB recognition element (BRE), and motif 10 element (MTE) to NC2α occupancy levels. (b) Core promoter regions of the indicated genes were assayed by conventional qPCR for occupancy by NC2α (red bars), TFIIB (green bars), and TBP (black bars). Values represent mean and standard deviation of two independent ChIP experiments. The genes are sorted from left to right to reflect increasing median fold enrichment values on the microarray, with the vertical line indicating the threshold of 1.2-fold enrichment (compare with SI Table 1). Chr.7 control denotes a transcriptionally inactive intergenic region on chromosome 7 that was used as a reference.