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 mr1775 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
vg1219408131 sf1219379601 12 19408131 7.09E-17 NA
vg1001364496 sf1001363473 10 1364496 1.22E-16 4.57E-06
vg0207238898 sf0207238898 2 7238898 1.24E-15 NA
vg0910747644 sf0910746643 9 10747644 5.59E-15 NA
vg1120726313 sf1120260216 11 20726313 5.72E-15 NA
vg0826494037 sf0826491323 8 26494037 NA 1.80E-06
vg1217900467 sf1217871901 12 17900467 NA 3.20E-06
vg1203658518 sf1203657517 12 3658518 NA 7.92E-06