Supplemental Material for Hartanto et al., 2020

Figure S1. Density distribution of the absolute eQTL effect, -log(p), and explained phenotypic variance (R2) for local and distant eQTLs.<br>Figure S2. The histogram of the number of distant eQTLs per marker location for the PD2 (A) and RP4 (B) hotspot.<br>Supplementary Table 1. Gene ontology enrichment for genes with distinctive expression patterns during seed germination.<br>Supplementary Table 2. Distant eQTL hotspots of the four seed germination stages<br>Supplementary Table 3. The mean rank and standard deviation of candidate genes as the most likely causal genes for the RP4 hotspot across different thresholds<br>Supplementary Table 4. The mean rank and standard deviation of candidate genes as the most likely causal genes for the PD2 hotspot across different thresholds.<br>Supplementary Table 5. The location and type of SNPs on candidate genes for the RP4 eQTL hotspot and MUM2.<br>Supplementary Table 6. The location and type of SNPs on candidate genes for the PD2 eQTL hotspot.<br>Supplementary Table 7. The list of genetic markers used for QTL mapping.<br>Supplementary Table 8. The genetic map of Bay-0 x Sha parents and the RIL population. <br>Supplementary Table 9. Gene expression levels of Bay-0 x Sha parents and the RIL population. <br>Supplementary Table 10. Phenotype measurements of Bay-0 x Sha parents and the RIL population. <br>Supplementary Table 11. Metabolite measurements of Bay-0 x Sha parents and the RIL population. <br>Supplementary Table 12. Differentially expressed genes between any of two consecutive stages.<br>Supplementary Table 13. The list of expression QTL.<br>Supplementary Table 14. The list of phenotype QTL.<br>Supplementary Table 15. The list of metabolite QTL.<br>