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 mr1785 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
vg0432523372 sf0432338264 4 32523372 9.99E-12 3.51E-10
vg0432418113 sf0432233004 4 32418113 1.71E-09 NA
vg0211208908 sf0211208905 2 11208908 2.16E-09 2.73E-06
vg0318829113 sf0318827873 3 18829113 6.31E-09 NA
vg0105735724 sf0105734724 1 5735724 7.04E-09 NA
vg0431515534 sf0431330433 4 31515534 2.45E-08 4.55E-06
vg1214822308 sf1214819649 12 14822308 5.93E-08 2.57E-06
vg0303678916 sf0303677912 3 3678916 2.06E-07 NA
vg0820374974 sf0820372261 8 20374974 5.14E-07 NA
vg0427400029 sf0427214893 4 27400029 7.88E-07 9.83E-06
vg0223425167 sf0223419298 2 23425167 1.23E-06 NA
vg0432588212 sf0432403103 4 32588212 NA 3.96E-06