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 mr1827 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
vg0319337714 sf0319336225 3 19337714 1.49E-06 1.49E-06
vg0318242446 sf0318241228 3 18242446 2.09E-06 2.09E-06
vg0406639350 sf0406634794 4 6639350 2.33E-06 2.34E-06
vg1127460166 sf1126988553 11 27460166 2.46E-06 2.46E-06
vg0208608994 sf0208608993 2 8608994 5.62E-06 5.62E-06
vg0816202787 sf0816200073 8 16202787 8.49E-06 8.49E-06