Fig. 6

Identification of the qFLA9.1 candidate gene. (a) Local Manhattan graph based on a single polymorphism and LD heatmap of the candidate gene FLA9. (b) Three FLA9 haplotypes were identified based on 5 SNPs in all the evaluated rice materials. In the gene structure map of FLA9 (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 < 0.05 level. (d) The amino acid sequences of HapA, HapB and HapC were compared, and the red line indicates the amino acid length of the protein encoded by the FLA9 gene