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 mr1887 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
vg1104601543 sf1104597445 11 4601543 3.37E-10 NA
vg1215123131 sf1215120467 12 15123131 2.41E-07 5.23E-06
vg0131880868 sf0131879824 1 31880868 2.22E-06 9.87E-07
vg0400675893 sf0400674892 4 675893 NA 1.93E-07
vg0433421597 sf0433236486 4 33421597 NA 2.12E-06
vg0433421279 sf0433236168 4 33421279 NA 2.39E-06
vg1004563375 sf1004579913 10 4563375 NA 7.84E-06