Figure 3—figure supplement 3.

(A) Volcano plot of RNA-seq data from Nr2f2^pos and Nr2f2^neg cells quantified using V4.3. Numbers of differentially expressed genes are shown. Selected known venous endothelial genes are indicated with green dots, as is erg, which is not detected as differentially expressed by Ens95. Genes with significant differences (padj <0.05) are red (log₂ fold change pos/neg > 1) or blue (Nr2f2^pos-enriched, log₂ fold change pos/neg <-1). (B) Venn diagram showing intersection of reference genes (using commonly annotated NCBI ID) that are significantly enriched in Nr2f2^pos-cells in each indicated annotation. (C) Volcano plot of Nr2f2^pos-enriched reference genes identified only by Ens95 in comparison to RefSeq. Indicated values are from the same genes quantified using V4.3. Red dots indicate log₂ fold change<-1 and adjp <0.05. (D) 3' UTR lengths and (E) log₁₀ average expression (n = 3) for reference genes in Ens95 and V4.3 for the indicated dataset. (D, E) Data are normally distributed, paired t-test, p values are indicated. Error bars denote mean and standard deviation.