Figure 6

PCR-mapping of genes putatively located on the 5AL-10 deleted region. The example reported refers to the sequence corresponding to probe set Ta.9404.1.A1_at. The sequence is moderately similar to a rice kinase (Os03g0107400). A) Alignment between the sequence used to design the probe set (Hapl a) and a homoeologous gene (Hapl b). Sequences used to design the primers are highlighted. The forward (FOR) primer is haplotype-specific, while the reverse (REV) primer is common. B) PCR reaction performed using the primers shown in A). Since the primer pair for Hapl a amplified the target sequence in both CS and Creso and no amplicon was observed in CS-5AL-10, the haplotype ''a'' correspond to a sequence located on to the 5AL-10 deleted region. 5AL: CS-5AL-10 deletion line. CS: Chinese Spring. CR: Creso; S1: Haplotype 1 – specific primers; S2: Haplotype 2 – specific primers.