Phenotype and GWAS Information:

Agronomic Traits

Note: All the agronomic trait is from the article Breeding signatures of rice improvement revealed by a genomic variation map from a large germplasm collection.

Metabolic Traits

Note: All the metabolic trait is from the article Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism. Some metabolics have two replications, the second replication is end with '_2', like 'mr1002_2'.

Search Results:

The detailed information about mr1806 can be find at here.

GWAS Results:

Note: If the P-value of Linear Regression (LR) or Linear Mixed Model (LMM) ≤ 1e-5 or the rank ≤ 20000, the results are saved. Only the LMM results are plotted below.

Significant Candidate Loci (Lead SNP):

Variation IDVariation ID V6ChromosomePositionLR P-value LMM P-value
vg0817489232 sf0817486518 8 17489232 3.02E-07 3.02E-07
vg0815545983 sf0815543269 8 15545983 5.57E-07 5.57E-07
vg1219758226 sf1219729696 12 19758226 1.20E-06 1.20E-06
vg0815795226 sf0815792512 8 15795226 2.77E-06 2.77E-06
vg1008172373 sf1008101235 10 8172373 3.26E-06 3.26E-06
vg0814594496 sf0814591782 8 14594496 4.73E-06 4.73E-06