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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 mr1066 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
vg0818442017 sf0818439304 8 18442017 4.11E-07 4.11E-07
vg0322414125 sf0322412614 3 22414125 2.00E-06 2.00E-06
vg0112387565 sf0112386539 1 12387565 3.53E-06 3.53E-06
vg0321535444 sf0321533954 3 21535444 3.82E-06 3.82E-06
vg1218766903 sf1218738338 12 18766903 4.28E-06 4.28E-06