Vertebrate Genomes Project

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The Vertebrate Genomes Project (VGP) aims to generate near error-free reference genome assemblies of ~70,000 extant vertebrate species. These genomes will be used to address fundamental questions in biology and disease, to identify species most genetically at risk for extinction, and to preserve genetic information of life.

The VGP will be completed in four phases based on taxonomic hierarchy: a representative of each order (phase 1), followed by each family (phase 2), followed by each genus (phase 3), finally followed by all species (phase 4).

Ensembl is a partner in the VGP and we annotate the protein-coding and non-coding RNA gene structures using a re-engineered version of our Gene Annotation System (Aken et al, 2017). After QC, genomes and annotations are made available via our FTP site (see table below) before subsequently being made available in the Ensembl Genome Browser.

Image Species Accession Annotation Softmasked genome Repeat library Other data View in browser
Anabas testudineus GCA_900324465.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Aquila chrysaetos chrysaetos GCA_900496995.2 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Astatotilapia calliptera GCA_900246225.3 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Betta splendens GCA_900634795.2 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Cottoperca gobio GCA_900634415.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Denticeps clupeoides GCA_900700375.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Echeneis naucrates GCA_900747795.2 GTF, GFF3 FASTA FTP dumps ensembl.org
Erpetoichthys calabaricus GCA_900747795.2 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Gopherus_evgoodei GCA_007399415.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps Coming May 2020
Gouania willdenowi GCA_900634775.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Lynx canadensis GCA_007474595.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Mastacembelus armatus GCA_900324485.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Myripristis murdjan GCA_902150065.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Ornithorhynchus anatinus GCA_004115215.2 GTF, GFF3 FASTA FTP dumps Coming May 2020
Parambassis ranga GCA_900634625.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Rhinolophus ferrumequinum GCA_004115265.2 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Salarias fasciatus GCA_902148845.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Salmo trutta GCA_901001165.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Scleropages formosus GCA_900964775.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Sparus aurata GCA_900880675.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Sphaeramia orbicularis GCA_902148855.1 GTF, GFF3 FASTA FTP dumps ensembl.org
Strigops habroptila GCA_004027225.1 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Taeniopygia guttata GCA_003957565.2 GTF, GFF3 FASTA Repeatmodeler FTP dumps ensembl.org
Takifugu rubripes GCA_901000725.2 GTF, GFF3 FASTA FTP dumps ensembl.org