Extended Data Fig. 7: Differential translational efficiency and enrichment of RBP motifs across stages in oocyte and embryonic development.

a, The oRNAment matrix similarity score⁵⁶ was computed for maternal and paternal SNPs that intersect RBP motifs, and the max absolute difference in scores was determined. SNP-motifs in the 95th percentile of the absolute differences are shown. A positive difference (yellow) indicates the paternal SNP more closely matches the RBP motif, while a negative difference (blue) indicates a better match for the maternal SNP. RBPs with a shared motif are comma-delimited. SNP coordinates are relative to the mm10 build. b, Schematic of a predicted upstream open reading frame (uORF) in Tmppe. uORF value and intensity of fill indicate the efficiency of the corresponding non-canonical translation initiation sites from mouse PD-31 cells⁷⁹. c, The mean ratio of allele-specific reads in ribosome profiling (n = 4) to RNA-seq (n = 4) was plotted after aggregating data across SNPs and experiments. Each experiment is normalized to 10k SNP-informative reads to account for differences in sequencing depth. The error bars correspond to the 80% confidence interval calculated using bootstrap sampling of replicates. A pseudocount of 0.5 was added to both normalized RNA-seq and ribosome profiling counts. d,e, Volcano plots depict the statistical significance (y-axis) and log₂ fold-change (x-axis) in translation efficiency between the GV- to MII-stage oocytes and between the 2-cell to 4-cell stage embryos. The purple and blue points indicate transcripts with a significant difference in translation efficiency between the compared stages (FDR < 0.01). f, Enrichment and depletion of RBP motifs in genes with increased TE between MII and GV stages was determined by Transite⁵⁵ (Benjamini-Hochberg adjusted p-value < 0.0001, Supplementary Table 5) and annotated with oRNAment⁵⁶ RBPs. RBPs that share the same consensus motif are comma-delimited, and RBPs with no detectable expression are marked with an asterisk.