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 mr1296 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
vg1010405672 sf1010334493 10 10405672 9.24E-08 NA
vg0629695392 sf0629694394 6 29695392 9.67E-08 NA
vg0800736683 sf0800735683 8 736683 1.74E-06 NA
vg1207120422 sf1207119312 12 7120422 2.13E-06 7.82E-07
vg0114197089 sf0114196063 1 14197089 2.83E-06 NA