FIG. 6.

DRE distribution and TCDD-inducible AhR enrichment within Scd loci. (A) Genomic region spanning Scd1, Scd2, Scd3, and Scd4. (B) Scd1 genomic region only. Genomic DRE distributions and regions of AhR enrichment induced by TCDD were previously determined (Dere et al., 2011a; Dere et al., 2011b). Track 1: scale and chromosome position. Track 2: probe tiling across the Affymetrix 2.0R mouse array. Track 3: gene organization including TSS (closed arrow), exons (closed boxes), introns, and direction of transcription (solid arrowhead line). Track 4: location of DRE cores (5′-GCGTG-3′). Height of vertical bars indicate MSS for the 19 bp DRE sequence (Dere et al., 2011a). The horizontal line indicates the MSS = 0.8. MSSs greater than 0.8 are considered putative functional DREs. The asterisk (*) denotes 19 bp DRE sequences that bound TCDD-activated AhR in band shift assays. Track 5: regions of significant (FDR < 0.01) AhR enrichment in genome-wide ChIP-chip assays. Tracks 6 and 7: histograms depicting the signal intensities for the MA(blue, track 6) and log₂ fold enrichment (green, track 7) values for regions exhibiting AhR enrichment in genome-wide ChIP-chip assays. The above tracks were modified from the University of California–Santa Cruz genome browser. (B) Scd1 genomic region only. Track 4: yellow shading, putative DRE-AhR enrichment overlap; purple shading, putative DREs lacking Affymetrix tiling probes; gray shading, putative DREs that do not overlap with AhR enrichment; and green shading, putative DRE in an AhR region that failed to meet the FDR cutoff of 0.01. Track 5: orange shading, AhR-enriched regions that do not overlap with putative DREs. (C) Representative band shift assays with putative, functional DREs (track 4, asterisks [*]). The DRE position is numerically indicated relative to the Scd1 TSS. Solid arrows indicate a TCDD-inducible band shift. Hatched or dashed arrows indicate an AhR or ARNT supershift, respectively.