FTP Download

You can download via a browser from our FTP site, use a script, or even use rsync from the command line.

Globus

For rapid bulk download of files, the Ensembl FTP site is available as an end point in the Globus Online system. In order to access the data you need to sign up for an account with Globus, install the Globus Connect Personal software and setup a personal endpoint to download the data. The Ensembl data is hosted at the EMBL-EBI end point called “Shared EMBL-EBI public endpoint”. Data from the Ensembl FTP site can then be found under the "/gridftp/ensemblorg/pub" directory within the EMBL-EBI public end point.

API Code

If you do not have access to git, you can obtain our latest API code as a gzipped tarball:

Download complete API for this release

Note: the API version needs to be the same as the databases you are accessing, so please use git to obtain a previous version if querying older databases.

Database dumps

Entire databases can be downloaded from our FTP site in a variety of formats. Please be aware that some of these files can run to many gigabytes of data.

Looking for MySQL dumps to install databases locally? See our web installation instructions for full details.

Each directory on https://ftp.ebi.ac.uk/ensemblgenomes contains a README file, explaining the directory structure.

Multi-species data

DatabaseMySQLTSVEMFMAFXML
Pan_compara Multi-speciesMySQLTSVEMFXML
Metazoa Multi-speciesMySQLTSVEMFMAFXML
Ensembl MartMySQL

Single species data

Popular species are listed first. You can customise this list via our home page.

SpeciesDNA (FASTA)cDNA (FASTA)CDS (FASTA)ncRNA (FASTA)Protein sequence (FASTA)Annotated sequence (EMBL)Annotated sequence (GenBank)Gene setsOther annotationsWhole databasesVariation (GVF)Variation (VCF)Variation (VEP)
YCaenorhabditis elegans (Nematode, N2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
YAnopheles gambiae (African malaria mosquito, PEST)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
YDrosophila melanogaster (Fruit fly)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
YApis mellifera (Honey bee, DH4)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
YFASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
YOctopus bimaculoides (California two-spot octopus)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Acanthaster planci (Crown-of-thorns starfish)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Acromyrmex echinatior (Panamanian leaf-cutter ant)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Acropora millepora (Stony coral, JS-1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Actinia equina (Beadlet anemone, AE1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Actinia tenebrosa (Australian red waratah sea anemone)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Acyrthosiphon pisum (Pea aphid, AL4f)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Adelges cooleyi (Spruce gall adelgid, 19-005CV)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Adineta vaga (Rotifer)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Aedes aegypti (Yellow fever mosquito, LVP_AGWG)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Aedes albopictus (Asian tiger mosquito, Foshan)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Aethina tumida (Small hive beetle, Nest 87)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Agrilus planipennis (Emerald ash borer, EAB-ADULT)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Amblyteles armatorius (Ichneumon Wasp, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Amphibalanus amphitrite (Acorn barnacle, SeventyFive)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Amphimedon queenslandica (Demosponge)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Amyelois transitella (Naval orange worm, UIUC subculture of SPIRL-1966)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ancistrocerus nigricornis (Potter wasp, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anneissia japonica (Sea lily, Jap-2015-1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles albimanus (Mosquito, STECLA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles arabiensis (Mosquito, Dongola)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles atroparvus (Mosquito, Infravec2 EBRE)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles christyi (Mosquito, ACHKN1017)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles coluzzii (Mosquito, Mali-NIH)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles coluzzii (Mosquito, Ngousso)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles culicifacies (Mosquito, A-37)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles darlingi (American malaria mosquito, Coari)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles dirus (Mosquito, WRAIR2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles epiroticus (Mosquito, Epiroticus2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles farauti (Mosquito, FAR1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles funestus (African malaria mosquito, FUMOZ)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles maculatus (Mosquito, maculatus3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles melas (Mosquito, CM1001059_A)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles merus (Mosquito, MAF)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles minimus (Mosquito, MINIMUS1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles quadriannulatus (Mosquito, SANGWE)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles sinensis (Mosquito, China)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anopheles sinensis (Mosquito, SINENSIS)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles stephensi (Asian malaria mosquito, Indian)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anopheles stephensi (Asian malaria mosquito, SDA-500)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Anoplophora glabripennis (Asian long-horned beetle, ALB-LARVAE)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Anthonomus grandis grandis (Boll weevil)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Aphidius gifuensis (Parasitoid wasp, YNYX2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Apis dorsata (Giant honeybee)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Apis florea (Dwarf honeybee)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Aplysia californica (California sea hare, F4 #8)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ascaris suum (Pig roundworm, AG01)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Asterias rubens (European starfish)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Athalia rosae (Coleseed sawfly, CS-ADULT)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Athalia rosae (Coleseed sawfly, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Atta cephalotes (Leaf-cutter ant)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bactrocera dorsalis (Oriental fruit fly, Punador)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bactrocera latifrons (Solanum fruit fly, USDA-ARS-PBARC rearing strain)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bactrocera tryoni (Queensland fruitfly, S06)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Belgica antarctica (Antarctic midge)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bemisia tabaci (Silverleaf whitefly, Asia II-5)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bemisia tabaci (Silverleaf whitefly, SSA1-SG1 Ng)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bemisia tabaci (Silverleaf whitefly, SSA1-SG1 Ug)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bemisia tabaci (Silverleaf whitefly, SSA2 Ng)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bemisia tabaci (Silverleaf whitefly, SSA3 Ng)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bemisia tabaci (Silverleaf whitefly, Uganda-1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bicyclus anynana (Squinting bush brown)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Biomphalaria glabrata (Bloodfluke planorb, BB02)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Bombus huntii (Hunt's bumblebee, Logan2020A)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bombus impatiens (Common eastern bumblebee)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bombus terrestris (Buff-tailed bumblebee)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bombus terrestris (buff-tailed bumblebee, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bombus vancouverensis nearcticus (Montane Bumble Bee, JDL1245)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bombyx mandarina (Wild silkworm, Bman2017)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Bombyx mori (Domestic silkworm, p50T)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Branchiostoma lanceolatum (Amphioxus)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Brugia malayi (Nematode, FR3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Caenorhabditis brenneri (Nematode)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Caenorhabditis briggsae (Nematode)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Caenorhabditis japonica (Nematode)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Caenorhabditis remanei (Nematode)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Camponotus floridanus (Florida carpenter ant, SB8)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Capitella teleta (Bristle worm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Cataglyphis hispanica (Desert ant, Lineage 1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Centruroides sculpturatus (Bark scorpion, CEXI.00-Female)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ceratitis capitata (Mediterranean fruit fly)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Chelonus insularis (Parasitoid wasp, UGA/USDA-ARS -01)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Cimex lectularius (Bed bug, Harlan)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Clytia hemisphaerica (Jellyfish, Z4C2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Copidosoma floridanum (Parasitoid wasp, CFLO.00-Male)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Cotesia glomerata (White butterfly parasite wasp, CgM1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Crassostrea angulata (Portuguese oyster, pt1a10)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Crassostrea gigas (Pacific oyster)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Crassostrea virginica (Eastern oyster, RU13XGHG1-28)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Cryptotermes secundus (Drywood termite)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Culex quinquefasciatus (Southern house mosquito, JHB)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Culex quinquefasciatus (Southern house mosquito, Johannesburg)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Culicoides sonorensis (Biting Midge)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Daktulosphaira vitifoliae (Grape phylloxera, Bord-2020)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Danaus plexippus plexippus (Monarch butterfly, F-2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Daphnia magna (Fresh water planktonic, NIES)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Daphnia pulex (Common water flea)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Daphnia pulex (Common water flea, KAP4)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Daphnia pulicaria (Water flea, SC F1-1A)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dendroctonus ponderosae (Mountain pine beetle)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dendronephthya gigantea (Carnation coral, DGI-Jeju-01)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dermacentor andersoni (Rocky Mountain wood tick, qqDerAnde1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dermacentor silvarum (Tick, Dsil-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dermatophagoides pteronyssinus (European house dust mite, airmid)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Diabrotica virgifera virgifera (Western corn rootworm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Diabrotica virgifera virgifera (Western corn rootworm, Ped12-6-A-3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dimorphilus gyrociliatus (Segmented worms)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dinothrombium tinctorium (Red velvet mite, UoL-WK)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Diuraphis noxia (Russian wheat aphid, RWA2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dreissena polymorpha (Zebra mussle, Duluth1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila ananassae (Fruit fly, TSC#14024-0371.13)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila erecta (Fruit fly, TSC#14021-0224.01)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila grimshawi (Fruit fly, TSC#15287-2541.00)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila mojavensis (Fruit fly, TSC#15081-1352.22)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila persimilis (Fruit fly, MSH-3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila pseudoobscura pseudoobscura (Fruit fly, MV2-25)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila sechellia (Fruit fly, Rob3c)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila simulans (Fruit fly, w501)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila virilis (Fruit fly, TSC#15010-1051.87)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila willistoni (Fruit fly, TSC#14030-0811.24)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Drosophila yakuba (Fruit fly, Tai18E2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Dufourea novaeangliae (Bee, 0120121106)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Echinococcus granulosus (Dog tapeworm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Eufriesea mexicana (Bee, 0111107269)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Eurytemora affinis (Calanoid copepod, Atlantic clade)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Exaiptasia diaphana (Sea anemone, CC7)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Folsomia candida (Springtail, str. VU population)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Galendromus occidentalis (Western predatory mite)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Galleria mellonella (Greater wax moth, Carbio01_MB)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Gigantopelta aegis (Deep sea snail, Gae_Host)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glossina austeni (Tsetse fly, TTRI)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glossina brevipalpis (Tsetse fly, IAEA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glossina fuscipes (Tsetse fly, IAEA_lab_2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glossina morsitans morsitans (Tsetse fly, Yale)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glossina pallidipes (Tsetse fly, IAEA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glossina palpalis gambiensis (Tsetse fly, IAEA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Glyphotaelius pellucidus (Caddisflies, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Habropoda laboriosa (Southeastern blueberry bee, 0110345459)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Haemaphysalis longicornis (Longhorned tick, HaeL-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Haliotis rubra (Blacklip abalone, DU_JTF1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Haliotis rufescens (Red abalone, VD_foot)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Harpegnathos saltator (Indian jumping ant, DR-91)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Heliconius melpomene (Postman butterfly)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Helicoverpa armigera (Cotton bollworm, SCD)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Helicoverpa zea (Corn earworm, HzStark_Cry1AcR)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Helobdella robusta (Freshwater leech)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hermetia illucens (Black soldier fly)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hofstenia miamia (Panther worm, MS-H3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Homalodisca vitripennis (Glassy winged sharpshooter, AUS2020)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Homarus americanus (American lobster, GMGI-L3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hyalella azteca (Amphipod, HAZT.00-mixed)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hyalomma asiaticum (Tick, Hyas-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hydra vulgaris (Swiftwater hydra, 105)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hydra vulgaris (Swiftwater hydra, 105)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hymenolepis microstoma (Rodent tapeworm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Hypsibius exemplaris (Water bear tardigrade, Z151)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ichneumon xanthorius (Ichneumon Wasp, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ixodes persulcatus (Taiga tick, Iper-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ixodes scapularis (Black-legged tick, ISE6)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ixodes scapularis (Black-legged tick, PalLabHiFi)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ixodes scapularis (Black-legged tick, Wikel)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Leguminivora glycinivorella (Soybean pod borer, SPB_JAAS2020)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lepeophtheirus salmonis (Salmon louse, Lsal2020)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Leptinotarsa decemlineata (Colorado potato beetle, Imidocloprid resistant)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Leptotrombidium deliense (Harvest mite, UoL-UT)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Limnephilus lunatus (Caddisflies, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Limnephilus marmoratus (Caddisflies, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Limnephilus rhombicus (Caddisflies, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Limnoperna fortunei (Golden mussle, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Limulus polyphemus (Atlantic horseshoe crab)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Linepithema humile (Argentine ant)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lineus longissimus (Bootlace worm, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lingula anatina (Lamp shell, Amm_Jpn)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Loa loa (Eye worm, Cameroon SouthWest Province isolate)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lottia gigantea (Owl limpet)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lucilia cuprina (Australian sheep blowfly, LS)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lucilia cuprina (Australian sheep blowfly, Lc7/37)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Lutzomyia longipalpis (Sand fly, Jacobina)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Lytechinus variegatus (Green sea urchin, NC3)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Macrosteles quadrilineatus (Aster leafhopper, MER2022)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Manduca sexta (Tobacco hornworm, Smith_Timp_Sample1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Mayetiola destructor (Hessian fly, Kansas Great Plain)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Megachile rotundata (Alfalfa leafcutting bee)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Megaselia scalaris (Coffin fly)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Melitaea cinxia (Glanville fritillary)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Melitaea cinxia (Glanville fritillary, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Mercenaria mercenaria (Hard clam (quahog), YKG-2019)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Mizuhopecten yessoensis (Yesso scallop, PY_sf001)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Mnemiopsis leidyi (Warty comb jelly)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Monomorium pharaonis (Pharaoh ant, MP-MQ-018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Musca domestica (House fly, aabys)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Mya arenaria (Soft-shell clam, MELC-2E11)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Nasonia vitripennis (Jewel wasp, AsymCx)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Necator americanus (New World hookworm, N. amaericanus Hunan isolate)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Nematostella vectensis (Starlet sea anemone, CH2 x CH6)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Neodiprion lecontei (Redheaded pine sawfly, iyNeoLeco1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Neodiprion pinetum (White pine sawfly, iyNeoPine1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Nilaparvata lugens (Brown planthopper, BPH)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Octopus bimaculoides (Octopus, UCB-OBI-ISO-001)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Octopus sinensis (East Asian common octopus)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Onchocerca volvulus (Nematode, O. volvulus Cameroon isolate)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Onthophagus taurus (Dung beetle)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ooceraea biroi (Clonal raider ant, clonal line C1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Oppia nitens (Oribatid soil mite, AA-2021)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Orbicella faveolata (Mountainous star coral, FL)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Orchesella cincta (Springtail)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Orussus abietinus (Parasitic wood wasp, OABI.00-Male)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Ostrea edulis (European flat oyster, OE_ROSLIN_2020)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Owenia fusiformis (Segmented worms)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Panonychus citri (Citrus red mite, SS)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Parasteatoda tepidariorum (Common house spider, Goettingen)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Patella pellucida (Blue-rayed limpet, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Patella vulgata (Common limpet, reference)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Patiria miniata (Bat star starfish, m_02_andy)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pectinophora gossypiella (Pink bollworm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pediculus humanus corporis (Human body louse, USDA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Penaeus chinensis (Fleshy prawn)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Penaeus japonicus (Kuruma shrimp, Ginoza2017)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Penaeus monodon (Black tiger shrimp, SGIC_2016)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Penaeus vannamei (Pacific white shrimp)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Phlebotomus papatasi (Sand fly, Israel)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQLGVFVCFVEP
Phlebotomus perniciosus (Murcia)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pocillopora damicornis (Cauliflower coral, RSMAS)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pogonomyrmex barbatus (Red harvester ant)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Polistes canadensis (Red paper wasp, GaletaPanama2010)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Polistes dominula (European paper wasp, PdomPennStateAug2009)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Polistes fuscatus (Common paper wasp, 324)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pollicipes pollicipes (Goose neck barnacle, AB1234)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pomacea canaliculata (Apple snail, SZHN2017)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pomphorhynchus laevis (Thorny-headed worm, GPI110)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Portunus trituberculatus (Swimming crab, SZX2019)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Priapulus caudatus (Penis worm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Pristionchus pacificus (Nematode, PS312)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Procambarus clarkii (Red swamp crayfish, Jiangsu)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Rhagoletis pomonella (Apple magot fly, Grant_MI)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Rhipicephalus microplus (Southern cattle tick, Rmic-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Rhipicephalus sanguineus (Brown dog tick, Rsan-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Rhipicephalus sanguineus (Brown dog tick, Rsan-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Rhodnius prolixus (Kissing bug, CDC)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Rhopalosiphum maidis (Corn leaf aphid, BTI-1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Saccoglossus kowalevskii (Acorn worm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Sarcoptes scabiei (Itch mite, SSS_KF_BRIS2020)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistocerca americana (American grasshopper, TAMUIC-IGC-003095)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistocerca cancellata (South American locust, TAMUIC-IGC-003103)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistocerca gregaria (Grasshoppers, iqSchGreg1)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistocerca nitens (Vagrant locust, TAMUIC-IGC-003100)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistocerca piceifrons (Central American locust, TAMUIC-IGC-003096)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistocerca serialis cubense (Grasshoppers, TAMUIC-IGC-003099)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistosoma haematobium (Urinary blood fluke)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Schistosoma mansoni (Flatworm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Sipha flava (Yellow sugarcane aphid, LNK)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Sitophilus oryzae (Rice weevil)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Solenopsis invicta (Red fire ant, M01_SB)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Stegodyphus dumicola (Social spider, AA2019)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Stegodyphus mimosarum (African social velvet spider)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Stomoxys calcitrans (Stable fly, USDA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Strigamia maritima (Soil centipede)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Strongylocentrotus purpuratus (Purple sea urchin, Spur 01)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Strongyloides ratti (Threadworm)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Stylophora pistillata (Hood coral, CSM Monaco)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Teleopsis dalmanni (Malaysian stalk-eyed fly, 2A)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Tetranychus urticae (Two-spotted spider mite)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Thelohanellus kitauei (Myxozoan endoparasite)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Thrips palmi (Melon Thrips, BJ-2018)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Tigriopus californicus (Copepod, San Diego)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Trialeurodes vaporariorum (Greenhouse whitefly, IVF)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Tribolium castaneum (Red flour beetle, Georgia GA2)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Trichinella spiralis (Pork worm, ISS_195)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Trichogramma pretiosum (Parasitoid wasp, Unisexual culture from Peru)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Trichoplax adhaerens (Placozoa, Grell-BS-1999)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Trichuris muris (Nematode)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Varroa destructor (Honeybee mite)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Varroa jacobsoni (Varroa mite, VJ856)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Venturia canescens (Endoparasitoid wasp, UGA)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Zerene cesonia (Southern Dogface)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP
Zootermopsis nevadensis (Nevada dampwood termite)FASTAFASTAFASTAFASTAFASTAEMBLGenBankGTF GFF3TSV JSONMySQL--VEP

Metadata

Data files containing metadata for Ensembl Genomes from release 15 onwards can be found in the root directory or appropriate division directory of each release e.g. https://ftp.ebi.ac.uk/ensemblgenomes/pub/current/metazoa/.

The following files are provided:

To facilitate storage and download all databases are GNU Zip (gzip, *.gz) compressed.

About the data

The following types of data dumps are available on the FTP site.

FASTA
FASTA sequence databases of Ensembl gene, transcript and protein model predictions. Since the FASTA format does not permit sequence annotation, these database files are mainly intended for use with local sequence similarity search algorithms. Each directory has a README file with a detailed description of the header line format and the file naming conventions.
DNA
Masked and unmasked genome sequences associated with the assembly (contigs, chromosomes etc.).
The header line in an FASTA dump files containing DNA sequence consists of the following attributes : coord_system:version:name:start:end:strand This coordinate-system string is used in the Ensembl API to retrieve slices with the SliceAdaptor.
CDS
Coding sequences for Ensembl or ab initio predicted genes.
cDNA
cDNA sequences for Ensembl or ab initio predicted genes.
Peptides
Protein sequences for Ensembl or ab initio predicted genes.
RNA
Non-coding RNA gene predictions.
Annotated sequence
Flat files allow more extensive sequence annotation by means of feature tables and contain thus the genome sequence as annotated by the automated Ensembl genome annotation pipeline. Each nucleotide sequence record in a flat file represents a 1Mb slice of the genome sequence. Flat files are broken into chunks of 1000 sequence records for easier downloading.
EMBL
Ensembl database dumps in EMBL nucleotide sequence database format
GenBank
Ensembl database dumps in GenBank nucleotide sequence database format
MySQL
All Ensembl MySQL databases are available in text format as are the SQL table definition files. These can be imported into any SQL database for a local installation of a mirror site. Generally, the FTP directory tree contains one directory per database. For more information about these databases and their Application Programming Interfaces (or APIs) see the API section.
GTF
Gene sets for each species. These files include annotations of both coding and non-coding genes. This file format is described here.
GFF3
GFF3 provides access to all annotated transcripts which make up an Ensembl gene set. This file format is described here.
EMF flatfile dumps (comparative data)

Alignments of resequencing data are available for several species as Ensembl Multi Format (EMF) flatfile dumps. The accompanying README file describes the file format.

Also, the same format is used to dump whole-genome multiple alignments as well as gene-based multiple alignments and phylogentic trees used to infer Ensembl orthologues and paralogues. These files are available in the ensembl_compara database which will be found in the mysql directory.

MAF (comparative data)

MAF files are provided for all pairwise alignments containing human (GRCh38), and all multiple alignments. The MAF file format is described here.

GVF (variation data)
GVF (Genome Variation Format) is a simple tab-delimited format derived from GFF3 for variation positions across the genome. There are GVF files for different types of variation data (e.g. somatic variants, structural variants etc). For more information see the "README" files in the GVF directory.
VCF (variation data)
VCF (Variant Call Format) is a text file format containing meta-information lines, a header line, and then data lines each containing information about a position in the genome. This file format can also contain genotype information on samples for each position. More details about the format and its specifications are available here.
VEP (variation data)
Compressed text files (called "cache files") used by the Variant Effect Predictor tool. More information about these files is available here.
BED format files (comparative data)

Constrained elements calculated using GERP are available in BED format. For more information see the accompanying README file.

BED format is a simple line-based format. The first 3 mandatory columns are:

  • chromosome name (may start with 'chr' for compliance with UCSC)
  • start position. This is a 0-based position
  • end position.

More information on the BED file format...

Tarball

The entire Ensembl API is gzipped and concatenated into a single TAR file. This is updated daily.