Fig. 6

Region D3 on chromosome 1 related to RHD in ind. A Chromosome-wide Manhattan plots of HDRA SNPs (left) and all RICE-RP SNPs in a chromosome-wide scan (right). The grey region indicates the genomic region. B Comparison of the RHD phenotype between ind lines carrying the alternate and reference allele at the MS-SNP. Significance is indicated by a t-test. C Magnification of the RICE-RP chromosome-wide Manhattan plot of the genomic region. Genes are overlaid on this plot and colored as follows. Green genes are expressed in root hairs or root-hair forming cells according to Huang et al. [69], orange indicates no previous expression evidence, and white indicates transposable elements. Below, haplotypes 1–6 are displayed with blue representing the reference identity and yellow, alternate, across this region. D Phenotypes of the haplotype with p values from a Dunn posthoc test