Fig. 5

Identification of the qFLA2 candidate gene. (a) Local Manhattan graph based on a single polymorphism and LD heatmap of the candidate gene FLA2. (b) Two haplotypes of FLA2 were identified based on 1 SNP in all the evaluated rice materials. In the gene structure map of FLA2 (http://rice.plantbiology.msu.edu), the promoter is indicated by the white box; exons are represented by blue boxes; introns and intergenic regions are marked with blue lines. The thin black line represents the genomic location of each SNP. (c) Tukey’s test was used to analyse the differences between haplotypes. ** indicates significance at the p < 0.01 level. (d) The amino acid sequences of HapA and HapB were compared, and the red line indicates the amino acid length of the protein encoded by the FLA2 gene