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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 mr1922 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
vg0125636633 sf0125635589 1 25636633 2.83E-07 2.76E-06
vg1102239989 sf1102235847 11 2239989 3.25E-06 3.56E-06
vg0126650164 sf0126649120 1 26650164 3.44E-06 2.82E-06
vg0212831375 sf0212831371 2 12831375 4.93E-06 4.41E-06
vg1213278568 sf1213275906 12 13278568 5.11E-06 4.73E-06
vg0230907885 sf0230902016 2 30907885 8.98E-06 2.65E-06