Table I. Top scoring genes using a weighted scoring system based on the number of top 1,000, top 100, and top 20 SNPs associated with each gene

The complete list of top 1,000 SNPs (based on P value) and their associated genes is shown in Supplemental Table S2, and the scores for each gene with regions of interest marked are shown in Supplemental Table S3. SNP plots for each region of interest are shown in Supplemental Figure S1.

GeneTop 1,000 SNPsTop 100 SNPsTop 20 SNPsScoreRegionGene Description
AT4G2772014403463Major facilitator superfamily
AT3G297253223340Pseudogene
AT3G297273223340Transposable element
AT4G2773012403263Oligopeptide transporter6
AT5G549206313197Unknown
AT5G549305313097AT hook motif protein
AT5G549405313097Translation initiation factor family
AT5G549504312997Aconitase family
AT5G549604312997Pyruvate decarboxylase2
AT5G550403312898DNA-binding bromodomain
AT4G2770012302763Phosphatase
AT4G2771012302763CYP709B3
AT1G304731520259Heavy metal transporter
AT3G510505212545FG-GAP repeat protein
AT3G510905402546Unknown
AT3G511005402546Unknown
AT3G511105402546Tetratricopeptide repeat
AT4G2769010302563Vacuolar sorting protein26B
AT1G304701420249SIT4 phosphatase-associated family
AT2G366324212429Unknown
AT2G366404212429Embryonic cell protein63
AT4G3324042124651-Phosphatidylinositol-3-phosphate 5-kinase
AT1G304751320239Embryo-defective1303-like
AT2G366203212329RPL24
AT2G366303212329Sulfite exporter TauE/SafE family
AT2G366503212329Unknown
AT5G353603212381Biotin carboxylase subunit
AT5G535103212395Oligopeptide transporter9
AT5G549703212397Unknown
AT3G510572212245Unknown
AT4G332502212265Translation initiation factor3k
AT5G354052212281ECA1 gametogenesis-related protein
AT5G534862212295Unknown
AT5G534872212295Pre-tRNA, tRNA-Gly
AT5G550202212298MYB120 transcription factor
AT1G304801020209DNA damage-repair/toleration protein111
AT5G5482010202096F-box protein