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 mr1263 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
vg0427274146 sf0427089015 4 27274146 2.02E-11 9.56E-06
vg0400111548 sf0400110548 4 111548 3.16E-11 2.49E-06
vg1011340216 sf1011269036 10 11340216 7.83E-11 6.36E-06
vg0209035448 sf0209035446 2 9035448 2.37E-09 NA
vg0918235838 sf0918234837 9 18235838 5.26E-09 NA
vg0826915985 sf0826913271 8 26915985 8.73E-06 NA