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 mr1265 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
vg0307546989 sf0307545927 3 7546989 1.29E-06 1.29E-06
vg1211463415 sf1211460751 12 11463415 1.81E-06 1.81E-06
vg0128156866 sf0128155822 1 28156866 2.24E-06 2.24E-06
vg1209715824 sf1209713233 12 9715824 3.26E-06 3.26E-06
vg1221792676 sf1221759223 12 21792676 4.14E-06 4.13E-06