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 mr1812 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
vg0126711643 sf0126710599 1 26711643 2.82E-06 2.82E-06
vg0208987778 sf0208987776 2 8987778 3.17E-06 3.17E-06
vg1218655720 sf1218627155 12 18655720 3.51E-06 3.51E-06
vg0306330280 sf0306329280 3 6330280 4.41E-06 4.41E-06
vg1010153625 sf1010082446 10 10153625 4.74E-06 4.74E-06
vg0815890904 sf0815888190 8 15890904 4.91E-06 4.91E-06