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 mr1597 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
vg0816276034 sf0816273320 8 16276034 1.14E-06 1.14E-06
vg0601409744 sf0601408745 6 1409744 1.48E-06 1.48E-06
vg0432569391 sf0432384282 4 32569391 1.62E-06 1.62E-06
vg0402384313 sf0402379908 4 2384313 2.19E-06 2.19E-06
vg0414249582 sf0414240295 4 14249582 5.51E-06 5.51E-06
vg0723551233 sf0723550240 7 23551233 5.64E-06 5.65E-06