Currently available genomes (102 genomes; only proteins >= 35 aa are included)

Genome nameNo. proteinsDescriptionDate added
[Land plants]
Arabidopsis lyrata32669JGI 1.0 4/7/082012-06-06
Arabidopsis thaliana35251TAIR10 12/15/10 (via PlantGDB)2012-06-06
Arabidopsis thaliana 0628936TIGR rel 5.0 06/10/2004 ATH1.pep; data used in Genome Biology but w/ updated PLS_ACC model and no 30aa or shorter2008-03-01
Arabidopsis thaliana 0731905TAIR7 rel. 04/23/2007 (>30aa)2008-02-29
Arabidopsis thaliana 0832690TAIR TAIR8 4/12/082009-04-08
Brachypodium distachyon30992Phytozome v8.0 1/16/122012-06-06
Cucumis sativus30296Phytozome v8.0 1/16/122012-06-06
Glycine max55784Phytozome v8.0 1/16/122012-06-06
Manihot esculenta45901Phytozome v8.0 5/1/122012-06-06
Mimulus guttatus28281PlantGDB 140 1/20/102012-06-06
Oryza sativa66317Phytozome v8.0 5/1/122012-06-06
Populus trichocarpa45022PlantGDB 156 2/14/122012-06-06
Sorghum bicolor29448PlantGDB 79 3/28/112012-06-06
Vitis vinifera25781PlantGDB Genoscope v2 3/19/102012-06-06
Zea mays63103Phytozome v8.0 1/16/122012-06-06
[Mosses & Ferns]
Physcomitrella patens38060Photozome v8.0 1/16/122012-06-06
Selaginella moellendorffii22285JGI 1.0 12/20/072012-06-06
[Green algae]
Bigelowiella natans21708JGI 1.0 5/19/102012-06-06
Chlamydomonas reinhardtii16688JGI 4.0 3/4/09 (21 removed; < 35aa)2012-06-13
Chlorella NC64A9791JGI1.0 6/13/082012-06-13
Coccomyxa C1699629JGI 2.0 9/25/092012-06-06
Guillardia theta24840JGI 1.0 10/1/102012-06-06
Micromonas pusilla10672JGI 3.0 2/15/082012-06-06
Micromonas RCC29910107JGI 3.0 4/1/092012-06-06
Ostreococcus lucimarinus7651JGI 2.0 10/26/072012-06-06
Ostreococcus RCC8097490JGI 2.0 10/26/072012-06-06
Ostreococcus tauri7725JGI 2.0 10/26/072012-06-06
Volvox carteri15285Phytozome v8.0 1/16/122012-06-06
[Rhodophytes]
Cyanidioschyzon merolae5004U Tokyo 1/18/082012-06-06
[Fungi]
Ashbya gossypii (or Eremothecium gossypii)4719NCBI NC_005782-NC_005789 6/11/082009-04-13
Aspergillus nidulans10554FGI 4.0 rel. 03/07/20062009-04-08
Aspergillus niger11197JGI 3.0 06/30/082009-04-08
Candida glabrata5192NCBI rel. 07/24/20072009-04-08
Debaryomyces hansenii6299NCBI rel. 07/24/20072009-04-08
Encephalitozoon cuniculi1996NCBI NC_003229-NC_003242 6/11/082009-04-08
Fusarium graminearum13297FGI 3.0 rel. 03/10/20072009-04-08
Kluyveromyces lactis5327NCBI rel. 07/24/20072009-04-08
Magnaporthe grisea 70-1511053FGI 6.0 07/25/082009-04-08
Neurospora crassa9838FGI v3(assembly7) 08/30/062009-04-08
Pichia stipitis6383NCBI NC_009042-NC_009068 1/2/082009-04-08
Saccharomyces cerevisiae5861SGD 02/20/092009-04-08
Schizosaccharomyces pombe5007Sanger version 19 2/19/092009-04-09
Yarrowia lipolytica6466NCBI NC_006067-NC_006072 10/29/082009-04-09
[Vertebrates]
Anolis carolinensis17790Ensembl 67 5/1/132012-07-11
Danio rerio28538Ensembl 67 5/1/122012-07-11
Gallus gallus16965Ensembl 67 5/1/122012-07-11
Homo sapiens28075Ensembl 67 5/1/122012-07-11
Monodelphis domestica19661Ensembl 67 5/1/122012-07-11
Mus musculus26794Ensembl 67 5/1/122012-07-11
Ornithorhynchus anatinus18263Ensembl 67 5/1/122012-07-11
Sarcophilus harrisii18940Ensembl 67 5/1/122012-07-11
Takifugu rubripes18809Ensembl 67 5/1/122012-07-11
Xenopus tropicalis18653Ensembl 67 5/1/122012-07-11
[Urochordates & Cephalochordata]
Branchiostoma floridae50817JGI 1.0 12/5/062012-06-06
Ciona intestinalis14002JGI 2.0 3/1/052012-06-06
[Echinoderms]
Strongylocentrotus purpuratus28420Ensembl 67 5/1/122012-06-06
[Arthropodes]
Acyrthosiphon pisum36211Aphid Base 2.12012-06-06
Aedes aegypti16449Ensembl 67 5/1/122012-07-11
Anopheles gambiae13232Ensembl 67 5/1/122012-07-11
Apis mellifera10517Bee Base 4.5 4/14/112012-06-06
Bombyx mori14610Ensembl 67 5/1/122012-06-06
Daphnia pulex30893Ensembl 67 5/1/122012-06-06
Drosophila melanogaster16954Ensembl 67 5/1/122012-07-11
Ixodes scapularis20483Ensembl 67 5/1/122012-06-06
Nasonia vitripennis19796Baylor (HGSC) 12/15/082012-06-06
Pediculus humanus10775Vector Base U1.2 10/12/082012-06-06
Tetranychus urticae17162BOGAS 10/23/112012-06-07
Tribolium castaneum16588Beetle Base 3.0 2/10/092012-06-06
[Nematodes]
Ascaris suum18444Wormbase 2 3/12/122012-06-06
Caenorhabditis elegans24151Ensembl 67 5/1/122012-07-11
[Annelida]
Capitella teleta32415JGI 1.0 8/23/072012-06-06
Helobdella robusta23432JGI 1.0 9/20/072012-06-06
[Platyhelminthes]
Schistosoma mansoni12033Ensembl 67 5/1/122012-07-11
[Mollusca]
Lottia gigantea23851JGI 1.0 7/24/072012-06-06
[Cnidaria]
Hydra magnipapillata14148KEGG Genome (refseq) 16 5/9/122012-06-06
Nematostella vectensis27273JGI 1.0 4/13/092012-06-13
[Porifera]
Amphimedon queenslandica29093Ensembl 67 5/1/122012-06-06
[Placozoa]
Trichoplax adhaerens11520JGI 1.0 4/13/092012-06-06
[Choanoflagellates]
Monosiga brevicollis9196JGI 1.0 7/1/072012-06-06
[Amoebozoa]
Dictyostelium discoideum12308Dictybase 5/5/122012-06-06
Dictyostelium purpureum12410JGI 1.0 8/18/082012-06-06
Entsmoeba histolytica8306Amoeba DB 10/27/112012-06-06
Polysphondylium pallidum12295Dictybase 5/5/122012-06-06
[Alveolates]
Paramecium tetraurelia39445Paramecium DB 5/1/122012-06-06
Plasmodium falciparum5521Plasmo DB 8.2 1/10/122012-06-06
Tetrahymena thermophila24689Ciliate DB 10/23/082012-06-06
Theileria annulata3795Gene DB 7/15/052012-06-06
Toxoplasma gondii8102Toxo DB 7.2 10/27/112012-06-06
[Stramenopiles (Heterokonts)]
Aureococcus anophagefferens11501JGI 1.0 9/27/072012-06-06
Fragilariopsis cylindrus27137JGI 1.0 10/1/082012-06-06
Phaeodactylum tricornutum10025JGI 2.0 4/1/072012-06-13
Phytophthora capsici17414JGI 1.0 6/26/082012-06-06
Phytophthora ramorum15743JGI 1.1 8/1/042012-06-06
Phytophthora sojae18973JGI 1.1 8/2/042012-06-06
Pseudo-nitzschia multiseries19703JGI 1.0 10/1/112012-06-06
Thalassiosira pseudonana11390JGI 3.0 5/1/072012-06-13
[Haptophyte]
Emiliania huxleyi CCMP151633338JGI 1.0 4/25/082012-06-06
[Excavates]
Giardia intestinalis5871giardiadb.org 6/30/20122012-09-10
Leishmania major8411tritrypdb.org 6/30/20122012-09-10
Naegleria gruberi15753JGI 1.0 10/23/062012-06-06
Trichomonas vaginalis59508trichdb.org 6/30/20122012-09-10
Trypanosoma brucei9891TriTryp DB 4.0 10/27/112012-06-06