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 Proteins Transcripts Softmasked genome Repeat library Other data View in browser
Acanthopagrus latus GCA_904848185.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Acipenser ruthenus GCA_902713435.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Acipenser ruthenus GCA_902713435.2 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Acomys russatus GCA_903995435.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Alosa sapidissima GCA_018492685.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Ammodytes marinus GCA_949987685.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Anabas testudineus GCA_900324465.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Anabas testudineus GCA_900324465.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Anabas testudineus GCA_900324465.3 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Anableps anableps GCA_014839685.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Anas platyrhynchos (Pekin duck) GCA_015476345.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Anguilla anguilla GCA_013347855.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Anopheles marshallii GCA_943734725.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Apus apus GCA_020740795.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Archocentrus centrarchus GCA_007364275.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Arvicanthis niloticus GCA_011762505.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Astatotilapia calliptera GCA_900246225.3 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Astatotilapia calliptera GCA_900246225.5 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Asterias rubens GCA_902459465.3 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Balaenoptera musculus GCA_009873245.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Balaenoptera musculus GCA_009873245.3 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Bos indicus x Bos taurus GCA_003369695.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Bos indicus x Bos taurus GCA_003369685.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Callithrix jacchus GCA_011100555.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Calypte anna GCA_003957555.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Carcharodon carcharias GCA_017639515.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Chelmon rostratus GCA_017976325.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Chelonia mydas GCA_015237465.2 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Chiroxiphia lanceolata GCA_009829145.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Choloepus didactylus GCA_015220235.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Corvus moneduloides GCA_009650955.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Cottoperca gobio GCA_900634415.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Cyclopterus lumpus GCA_009769545.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Cygnus olor GCA_009769625.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Denticeps clupeoides GCA_900700375.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Denticeps clupeoides GCA_900700375.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Dromaius novaehollandiae GCA_016128335.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Dryobates pubescens GCA_014839835.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Electrophorus electricus GCA_013358815.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Electrophorus electricus GCA_003665695.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Elephas maximus indicus GCA_024166365.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Esox lucius GCA_004634155.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Esox lucius GCA_011004845.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Falco peregrinus GCA_023634155.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Gadus morhua GCA_902167405.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Gallus gallus GCA_016699485.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Gallus gallus (whiteleghornlayer) GCA_016700215.2 GTF, GFF3 FASTA FASTA FASTA FTP dumps ensembl.org
Gallus gallus (Cobb) GCA_027408225.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Gallus gallus (Ross) GCA_027557775.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Geothlypis trichas GCA_009764595.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Girardinichthys multiradiatus GCA_021462225.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Gopherus evgoodei GCA_007399415.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Grus americana GCA_028858705.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Haemorhous mexicanus GCA_027477595.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Hippoglossus hippoglossus GCA_009819705.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Hirundo rustica GCA_015227805.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Hyla sarda GCA_029499605.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Jaculus jaculus GCA_020740685.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Lacerta agilis GCA_009819535.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Loxodonta africana GCA_030014295.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Mastacembelus armatus GCA_900324485.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Mastacembelus armatus GCA_900324485.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Megalops cyprinoides GCA_013368585.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Melanotaenia boesemani GCA_017639745.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Melopsittacus undulatus GCA_012275295.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Mustela erminea GCA_009829155.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Myripristis murdjan GCA_902150065.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Nesoenas mayeri GCA_963082525.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Notolabrus celidotus GCA_009762535.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Notothenia rossii GCA_949606895.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Nycticebus coucang GCA_027406575.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Odontesthes bonariensis GCA_027942865.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Onychomys torridus GCA_903995425.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Pangasianodon hypophthalmus GCA_027358585.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Parambassis ranga GCA_900634625.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Parambassis ranga GCA_900634625.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Petromyzon marinus GCA_010993605.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Phocoena sinus GCA_008692025.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Pholidichthys leucotaenia GCA_020510985.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Phyllostomus discolor GCA_004126475.3 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Pristis pectinata GCA_009764475.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Pygocentrus nattereri GCA_001682695.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Pygocentrus nattereri GCA_015220715.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Rhinolophus ferrumequinum GCA_004115265.3 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Salarias fasciatus GCA_902148845.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Scatophagus argus GCA_020382885.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Scleropages formosus GCA_900964775.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Sebastes umbrosus GCA_015220745.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Sorex araneus GCA_027595985.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Sphaeramia orbicularis GCA_902148855.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Suncus etruscus GCA_024139225.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Sylvia borin GCA_014839755.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Taeniopygia guttata GCA_008822105.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Tamandua tetradactyla GCA_023851605.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Thalassophryne amazonica GCA_902500255.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Thamnophis elegans GCA_009769535.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Thunnus albacares GCA_914725855.1 GTF, GFF3 FASTA FASTA FASTA FTP dumps rapid.ensembl.org
Toxotes jaculatrix GCA_017976425.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Tursiops truncatus GCA_011762595.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org
Zalophus californianus GCA_009762305.1 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps ensembl.org
Zalophus californianus GCA_009762305.2 GTF, GFF3 FASTA FASTA FASTA Repeatmodeler FTP dumps rapid.ensembl.org