Figure 4

Analysis of BACs with amplicons spanning SNP assays. Sequences of PCR amplicons established for representative BACs are shown below six different SNP assay sequences. Horizontal arrows represent the extent of the assay nucleotides. Vertical arrows mark the positions of the SNP assay nucleotides. Differences between A and C subgenome BACs are highlighted in red and blue, respectively. BAC sequences spanning #11396, #11392a and #11372 are monomorphic at the site of the assay nucleotides, nonetheless A and C subgenome BACs can be distinguished based on sequence differences. For amplicon 11372 the region corresponding to the assay is shown and a region mapping approximately 300 bp apart. For the latter the BAC sequences are shown underneath the amplicon sequence of Brassica napus var. Express.