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 mr1914 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
vg0913096920 sf0913095919 9 13096920 6.37E-07 6.37E-07
vg0316893969 sf0316892843 3 16893969 8.62E-07 8.62E-07
vg0102718620 sf0102717620 1 2718620 8.99E-07 8.99E-07
vg0227578016 sf0227572147 2 27578016 3.07E-06 3.07E-06
vg0429922292 sf0429737159 4 29922292 4.16E-06 4.16E-06
vg0217125730 sf0217119860 2 17125730 7.32E-06 7.32E-06