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 mr1318 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
vg0431889500 sf0431704395 4 31889500 1.02E-08 3.00E-06
vg1210329192 sf1210326605 12 10329192 4.84E-08 NA
vg1125795181 sf1125329102 11 25795181 5.62E-08 NA
vg0605357766 sf0605356767 6 5357766 2.50E-07 2.22E-07
vg0605351193 sf0605350194 6 5351193 2.56E-07 2.27E-07
vg0105361518 sf0105360518 1 5361518 7.13E-07 NA
vg1224680553 sf1224647007 12 24680553 NA 6.15E-06