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Fig. 3 | BMC Genomics

Fig. 3

From: Uncovering the genetic mechanisms regulating panicle architecture in rice with GPWAS and GWAS

Fig. 3

Identification of candidate gene associated with total spikelets number per panicle (TSNP). a Manhattan plot of TSNP with general linear model method. The red arrow indicates the interested QTL (S1_2122019) region. b Zoom in Manhattan plots of S1_2122019 and linkage disequilibrium (LD) heatmap (bottom). LD block was defined by the solid spine method. The gene structure is shown in the middle, the yellow, pink, and orange color indicate coding sequence (CDS), untranslated region (UTR), and intergenic regions, respectively. c Haplotype analysis of two non-synonymous SNPs in Os01g0140100. d Haplotype distribution in the different subgroups of the RDP1

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