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 mr1187 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
vg0406862378 sf0406857823 4 6862378 8.44E-07 8.44E-07
vg0517418107 sf0517357750 5 17418107 2.58E-06 2.58E-06
vg1002941211 sf1002940188 10 2941211 3.94E-06 3.94E-06
vg1114873399 sf1114409713 11 14873399 3.98E-06 3.98E-06
vg1119341200 sf1118874888 11 19341200 4.65E-06 4.65E-06
vg0820694826 sf0820692113 8 20694826 8.35E-06 8.35E-06