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 mr1992 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
vg0522014819 sf0521952261 5 22014819 3.60E-08 3.60E-08
vg1102424189 sf1102420093 11 2424189 1.17E-07 1.17E-07
vg0526174504 sf0526111924 5 26174504 1.01E-06 1.01E-06
vg0919035988 sf0919034988 9 19035988 2.50E-06 2.50E-06
vg0132046030 sf0132044986 1 32046030 2.68E-06 2.68E-06
vg0100619901 sf0100618901 1 619901 4.19E-06 4.19E-06