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 mr1736 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
vg1214822308 sf1214819649 12 14822308 1.64E-07 1.64E-07
vg1107375253 sf1107370998 11 7375253 2.51E-06 2.51E-06
vg0431614108 sf0431429003 4 31614108 3.78E-06 3.78E-06
vg0519836648 sf0519774124 5 19836648 4.00E-06 4.00E-06
vg1107331327 sf1107327072 11 7331327 4.29E-06 4.29E-06
vg0816756907 sf0816754193 8 16756907 4.43E-06 4.43E-06
vg1109530380 sf1109524957 11 9530380 4.91E-06 4.91E-06