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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 mr1747 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
vg0208276077 sf0208276076 2 8276077 9.94E-07 9.94E-07
vg0206747581 sf0206747581 2 6747581 1.37E-06 1.37E-06
vg0800161026 sf0800160026 8 161026 1.39E-06 1.39E-06
vg0328682119 sf0328675173 3 28682119 1.57E-06 1.57E-06
vg0626641166 sf0626640169 6 26641166 5.68E-06 5.68E-06
vg0914404286 sf0914403285 9 14404286 7.01E-06 7.01E-06