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 mr1127 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
vg0220281817 sf0220275949 2 20281817 4.42E-06 1.65E-06
vg1220378676 sf1220350118 12 20378676 NA 2.27E-06
vg0435191414 sf0435006295 4 35191414 NA 2.91E-06
vg1000145945 sf1000144945 10 145945 NA 4.30E-06
vg1000122881 sf1000121881 10 122881 NA 6.32E-06
vg1012131910 sf1012060725 10 12131910 NA 7.36E-06