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 mr1551 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
vg0702566842 sf0702565843 7 2566842 1.62E-09 1.62E-09
vg0400771373 sf0400770373 4 771373 6.29E-07 6.29E-07
vg1205581996 sf1205580982 12 5581996 1.21E-06 1.21E-06
vg1107896263 sf1107892008 11 7896263 1.74E-06 1.74E-06
vg0407737736 sf0407733003 4 7737736 3.22E-06 3.22E-06
vg1014161943 sf1014090709 10 14161943 4.94E-06 4.94E-06
vg0141597460 sf0141596417 1 41597460 6.03E-06 6.03E-06