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 mr1751 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
vg1104978992 sf1104974803 11 4978992 1.94E-09 8.42E-07
vg0805546679 sf0805545682 8 5546679 2.03E-08 7.97E-06
vg1119925512 sf1119459435 11 19925512 9.76E-08 NA
vg0222196910 sf0222191041 2 22196910 8.42E-07 6.13E-06
vg0802040250 sf0802039253 8 2040250 1.67E-06 NA
vg1109530111 sf1109524688 11 9530111 2.28E-06 4.36E-06