Fig. 4: Genomic structure of the Y chromosome.
From: Telomere-to-telomere genome assembly of a male goat reveals variants associated with cashmere traits
a Genomic structure and features of the Y chromosome T2T-CHIY1.0. From top to bottom: collinearity of Y chromosomes between Saanen_v1.0 and T2T-goat1.0; Gene expression in blood and testis tissues; Protein-coding gene density; Pseudogene density; Methylation (5mC) levels estimated with ONT and HiFi reads; Satellite; Segmental duplication (SD); Class, the pseudoautosomal region (PAR) (blue), male-specific region of the Y chromosome (MSY, yellow), and ampliconic (red) regions on T2T-CHIY1.0; TSPY genes highlighted for Clade I in black and Clade II in gray; HSFY genes; LTR density; LINE density; and SINE density. The density of methylation, Satellite, LINE, SINE, and LTR is shown in 50-kb windows. The pairwise 10-kb sequence identity (%) heatmap across T2T-CHIY1.0 is shown below, with color key in the bottom left corner.
