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 mr1294 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
vg0810858584 sf0810857589 8 10858584 1.13E-07 1.06E-06
vg1221127987 sf1221094537 12 21127987 7.91E-07 NA
vg0619961711 sf0619960714 6 19961711 8.57E-07 NA
vg1215653812 sf1215651109 12 15653812 1.42E-06 1.59E-07
vg1009009289 sf1008938150 10 9009289 NA 1.67E-06
vg1214045971 sf1214043311 12 14045971 NA 4.81E-06
vg0302287012 sf0302286008 3 2287012 NA 7.32E-06