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 mr1635 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
vg0315309471 sf0315308118 3 15309471 9.57E-08 NA
vg1001246161 sf1001245138 10 1246161 2.70E-06 4.66E-06
vg1215653812 sf1215651109 12 15653812 NA 2.67E-06
vg1218228895 sf1218200331 12 18228895 NA 4.26E-06
vg1119485334 sf1119019022 11 19485334 NA 4.86E-06