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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 mr1454 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
vg1116500286 sf1116035163 11 16500286 1.49E-06 1.49E-06
vg0601090807 sf0601089808 6 1090807 3.45E-06 3.45E-06
vg1204273636 sf1204272624 12 4273636 4.44E-06 4.44E-06
vg1005237092 sf1005253629 10 5237092 4.45E-06 4.45E-06
vg0434764872 sf0434579763 4 34764872 4.98E-06 4.98E-06