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 mr1266 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
vg0818577556 sf0818574843 8 18577556 1.42E-09 5.29E-07
vg1118314461 sf1117848319 11 18314461 4.68E-08 NA
vg0315356877 sf0315355524 3 15356877 6.94E-08 NA
vg1117625330 sf1117159186 11 17625330 8.77E-08 7.18E-06
vg0408141966 sf0408137240 4 8141966 8.25E-07 8.48E-07
vg0818727476 sf0818724763 8 18727476 1.30E-06 2.58E-06
vg0818610974 sf0818608261 8 18610974 1.50E-06 3.99E-06
vg0818628912 sf0818626199 8 18628912 2.13E-06 1.87E-06
vg0819114272 sf0819111559 8 19114272 NA 9.49E-09