This site contains genome assembly version 5 (2020), version 4 (2017), and the Y chromosome assembly.
The Genes, Pseudogenes, and Non-coding RNAs tracks contain annotations lifted over from Ensembl (release 95) as well as newly predicted annotations derived from the MAKER gene annotation pipeline.
The Repeats track contains annotations derived from RepeatModeler and RepeatMasker.
The browsers are built using the JBrowse platform, which allows for easy visualization of annotation tracks. Supported track formats are detailed here.
December 1, 2020: liftOver chain files between the v. 5 genome and previous assemblies (v. 1, v. 2, v. 3, and v. 4) have been added to the data download page.
December 1, 2020: Full-length isoform sequencing was conducted on eight different tissues (Naftaly et al. 2020) and added as gene annotation tracks.
November 18, 2020: SNP variants from Puget Sound and Lake Washington (Shanfelter et al. 2019) have been integrated as browsable VCF annotation tracks.
July 6, 2020: The Stn microsatellite markers (Peichel et al. 2001) have been integrated as a searchable annotation track.
July 6, 2020: The v. 5 annotation files on the download page have been updated to a GFF3 file format.
July 6, 2020: The unplaced contigs in chromosome Un. have been updated in the browser and on the download page.
June 23, 2020: Annotations will be added regularly to the genome browser. Check back for updates.
June 23, 2020: LiftOver files are coming soon. Stay tuned to the download page.