Table 3.

Analysis of the conserved MYB and bHLH core consensus sequences in the region upstream of the putative transcription start site of differentially expressed seed coat genes

	Conserved regulatory sequence	Percentage of genes containing putative binding site
		Non-darkening RIL upregulated genes	Darkening RIL upregulated genes	Cluster 2 genes
MYB-core	C[AGCT]GTT[AG]	53.8	55.6	72.5
bHLH E-box	CACGTG	19.7	26.1	66.7

The percentage of genes containing a putative binding site is expressed as the number of genes containing the conserved regulatory sequence divided by the total number of genes in the group. The total number of annotated genes in each group is provided in brackets: Non-darkening RIL upregulated genes (529); Darkening RIL upregulated genes (804); Cluster 2 genes (51)