Fig. 2

Sry gene mapping in RNAseq. a–e All panels of Sry mapped data are aligned relative to the transcript positions with the coding region marked by gray lines. a Depth of reads aligned to Sry for each sample representing different embryonic stages. b Single nucleotide variants along the Sry genes used for determining Sry copies expressed. c SRY protein corresponding to regions of the gene aligned to panels a and b. d Total read mapping over the Sry gene from all datasets. e The percent of each base (y-axis) at positions along the Sry gene (x-axis). Bases with values between 0 and 100 are those with variants in the different Sry genes seen in reads generated from all experiments. Values of 0 and 100 are shown as black line with any positions outside of these shown. Bases are listed as A = red, C = blue, G = orange, and T = gray. f, g The percent of each Sry gene using markers from panel b for the various days of experiment 1 (f) and analysis of multiple E12 (21 ts, tail somites) embryos in experiment 2 (g) with standard deviation shown as error bars. The high percentage expression of Sry2 at E11, despite its low abundance (h), results from the absence of expression of other Sry genes at E11. h Conversion of total Sry TPM using percent of each Sry gene to determine the individual Sry gene TPMs. In experiment 1, two samples were measured on E11 and 13. In experiment 2, 5 samples were measured from fetuses with 21 tail somites