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 mr1487 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
vg0217857667 sf0217851798 2 17857667 6.93E-07 6.93E-07
vg1213717963 sf1213715301 12 13717963 8.88E-07 8.88E-07
vg0810647541 sf0810646545 8 10647541 2.32E-06 2.32E-06
vg0102430888 sf0102429888 1 2430888 2.95E-06 2.95E-06
vg0803532222 sf0803531225 8 3532222 4.82E-06 4.83E-06