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 mr1876 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
vg0417819644 sf0417647683 4 17819644 5.25E-08 5.25E-08
vg1119471259 sf1119004947 11 19471259 2.58E-07 2.58E-07
vg1217862937 sf1217834371 12 17862937 2.59E-07 2.59E-07
vg0218261105 sf0218255236 2 18261105 2.86E-07 2.86E-07
vg1109337009 sf1109331586 11 9337009 4.60E-06 4.60E-06
vg0221209437 sf0221203569 2 21209437 4.83E-06 4.83E-06