UniGene: An Organized View of the Transcriptome.
Each UniGene entry is a set of transcript sequences that appear to come from the same transcription locus (gene or expressed pseudogene), together with information on protein similarities, gene expression, cDNA clone reagents, and genomic location.
|
| Species |
UniGene entries |
Cutoff date* |
Release date* |
|---|
| Chordata |
| Mammalia |
| Bos taurus (cow) |
45,178 |
Mar 18 2011 |
Nov 28 2011 |
| Canis lupus familiaris (dog) |
24,459 |
May 3 2010 |
Jul 8 2010 |
| Capra hircus (domestic goat) |
38,271 |
Nov 29 2011 |
Dec 20 2011 |
| Equus caballus (horse) |
6,402 |
Mar 17 2011 |
Nov 4 2011 |
| Homo sapiens (human) |
129,493 |
Dec 23 2011 |
Jan 18 2012 |
| Macaca fascicularis (crab-eating macaque) |
12,546 |
Aug 28 2011 |
Nov 7 2011 |
| Macaca mulatta (rhesus monkey) |
7,785 |
Mar 1 2011 |
Aug 8 2011 |
| Monodelphis domestica (gray short-tailed opossum) |
662 |
Oct 24 2010 |
Jan 31 2012 |
| Mus musculus (mouse) |
80,345 |
Sep 8 2011 |
Dec 16 2011 |
| Ornithorhynchus anatinus (platypus) |
749 |
Nov 26 2009 |
Jul 27 2010 |
| Oryctolagus cuniculus (rabbit) |
7,015 |
Dec 29 2010 |
Feb 10 2011 |
| Ovis aries (sheep) |
17,318 |
Aug 27 2011 |
Nov 21 2011 |
| Pan troglodytes (chimpanzee) |
2,412 |
Mar 15 2011 |
Mar 28 2011 |
| Papio anubis (olive baboon) |
11,659 |
Mar 8 2011 |
Nov 7 2011 |
| Peromyscus maniculatus (deer mouse) |
11,045 |
Mar 9 2010 |
Aug 3 2011 |
| Pongo abelii (Sumatran orangutan) |
7,460 |
Nov 20 2010 |
Dec 27 2010 |
| Rattus norvegicus (Norway rat) |
66,422 |
Sep 24 2011 |
Nov 7 2011 |
| Sus scrofa (pig) |
46,613 |
Mar 1 2011 |
Apr 13 2011 |
| Trichosurus vulpecula (silver-gray brushtail possum) |
11,405 |
Apr 3 2011 |
Aug 8 2011 |
| Actinopterygii |
| Danio rerio (zebrafish) |
53,525 |
Mar 16 2011 |
Nov 4 2011 |
| Fundulus heteroclitus (killifish) |
4,454 |
Nov 24 2010 |
Nov 7 2011 |
| Gadus morhua (Atlantic cod) |
15,612 |
Jun 29 2011 |
Aug 10 2011 |
| Gasterosteus aculeatus (three spined stickleback) |
16,728 |
Apr 4 2011 |
Dec 30 2011 |
| Ictalurus furcatus (blue catfish) |
17,357 |
Sep 18 2008 |
Nov 3 2011 |
| Ictalurus punctatus (channel catfish) |
26,374 |
Jan 17 2011 |
Mar 21 2011 |
| Oncorhynchus mykiss (rainbow trout) |
117,120 |
Jul 29 2011 |
Oct 11 2011 |
| Oreochromis niloticus (Nile tilapia) |
17,426 |
Feb 28 2011 |
Mar 9 2011 |
| Oryzias latipes (Japanese medaka) |
21,803 |
Aug 28 2011 |
Nov 2 2011 |
| Pimephales promelas (fathead minnow) |
20,664 |
May 18 2011 |
Aug 23 2011 |
| Salmo salar (Atlantic salmon) |
29,820 |
Jul 28 2011 |
Dec 12 2011 |
| Takifugu rubripes (pufferfish) |
3,800 |
Jul 2 2011 |
Aug 10 2011 |
| Amniota |
| Anolis carolinensis (green anole) |
25,135 |
Nov 11 2011 |
Dec 12 2011 |
| Amphibia |
| Xenopus laevis (African clawed frog) |
31,261 |
Mar 12 2011 |
Dec 12 2011 |
| Xenopus tropicalis (western clawed frog) |
43,712 |
Oct 6 2010 |
Oct 21 2010 |
| Ascidiacea |
| Ciona intestinalis |
28,121 |
Aug 5 2011 |
Dec 15 2011 |
| Ciona savignyi |
7,350 |
Jan 27 2010 |
Aug 10 2011 |
| Molgula tectiformis |
8,755 |
Oct 16 2008 |
Aug 11 2011 |
| Aves |
| Gallus gallus (chicken) |
31,317 |
Jul 3 2011 |
Aug 12 2011 |
| Meleagris gallopavo (turkey) |
1,406 |
Nov 2 2011 |
Jan 30 2012 |
| Taeniopygia guttata (zebra finch) |
13,733 |
Jun 3 2011 |
Aug 12 2011 |
| Cephalochordata |
| Branchiostoma floridae (Florida lancelet) |
15,165 |
Apr 3 2011 |
Aug 12 2011 |
| Hyperoartia |
| Petromyzon marinus (sea lamprey) |
10,622 |
May 18 2011 |
Aug 15 2011 |
| Echinodermata |
| Echinoidea |
| Paracentrotus lividus (common urchin) |
8,313 |
Jun 3 2011 |
Aug 15 2011 |
| Strongylocentrotus purpuratus (purple sea urchin) |
14,718 |
Sep 5 2010 |
Aug 15 2011 |
| Arthropoda |
| Arachnida |
| Ixodes scapularis (black-legged tick) |
19,405 |
Jul 30 2009 |
Jun 23 2010 |
| Tetranychus urticae (two-spotted spider mite) |
7,177 |
Oct 27 2010 |
Jan 6 2011 |
| Branchiopoda |
| Daphnia pulex (common water flea) |
14,177 |
Jul 30 2009 |
May 26 2010 |
| Insecta |
| Acyrthosiphon pisum (pea aphid) |
93,757 |
Nov 23 2010 |
Feb 17 2011 |
| Aedes aegypti (yellow fever mosquito) |
16,680 |
Jun 2 2010 |
Aug 15 2011 |
| Anopheles gambiae (African malaria mosquito) |
13,066 |
Oct 17 2010 |
Dec 21 2010 |
| Aphis gossypii (cotton aphid) |
7,467 |
Oct 28 2010 |
Jan 25 2011 |
| Apis mellifera (honey bee) |
24,392 |
Oct 21 2010 |
Nov 24 2010 |
| Bicyclus anynana (squinting bush brown) |
4,615 |
Nov 5 2010 |
Aug 15 2011 |
| Bombyx mori (domestic silkworm) |
12,467 |
Oct 24 2010 |
Dec 8 2010 |
| Culex quinquefasciatus (house mosquito) |
5,021 |
Apr 29 2010 |
Sep 30 2010 |
| Dendroctonus ponderosae (mountain pine beetle) |
6,783 |
May 24 2010 |
Mar 14 2011 |
| Drosophila melanogaster (fruit fly) |
17,233 |
Jan 13 2011 |
Feb 25 2011 |
| Drosophila simulans |
7,041 |
Dec 22 2009 |
Aug 3 2011 |
| Glossina morsitans |
7,521 |
May 20 2010 |
Aug 3 2011 |
| Nasonia vitripennis (jewel wasp) |
15,445 |
Jul 29 2010 |
Aug 16 2010 |
| Tribolium castaneum (red flour beetle) |
6,851 |
Nov 2 2011 |
Dec 15 2011 |
| Malacostraca |
| Litopenaeus vannamei (Pacific white shrimp) |
7,738 |
Jul 1 2011 |
Dec 27 2011 |
| Maxillopoda |
| Lepeophtheirus salmonis |
9,363 |
Nov 2 2010 |
Jan 6 2011 |
| Mollusca |
| Gastropoda |
| Aplysia californica (California sea hare) |
24,709 |
Jul 8 2011 |
Nov 30 2011 |
| Lottia gigantea |
15,623 |
Jan 19 2009 |
May 26 2010 |
| Annelida |
| Hirudinida |
| Helobdella robusta |
6,973 |
Dec 22 2009 |
Feb 5 2010 |
| Polychaeta |
| Alvinella pompejana |
14,191 |
Mar 31 2009 |
Dec 10 2010 |
| Nematoda |
| Chromadorea |
| Ancylostoma caninum (dog hookworm) |
7,455 |
Mar 23 2010 |
Sep 29 2010 |
| Caenorhabditis elegans (nematode) |
22,358 |
Jan 13 2011 |
Aug 17 2011 |
| Platyhelminthes |
| Trematoda |
| Schistosoma japonicum |
10,483 |
Apr 10 2011 |
Aug 17 2011 |
| Schistosoma mansoni |
12,517 |
Jul 28 2011 |
Dec 27 2011 |
| Turbellaria |
| Schmidtea mediterranea |
10,265 |
Jul 1 2011 |
Aug 30 2011 |
| Porifera |
| Demospongiae |
| Amphimedon queenslandica |
6,211 |
Dec 30 2009 |
Dec 30 2011 |
| Cnidaria |
| Anthozoa |
| Nematostella vectensis (starlet sea anemone) |
14,574 |
Nov 25 2010 |
Aug 18 2011 |
| Hydrozoa |
| Clytia hemisphaerica |
4,637 |
Oct 27 2010 |
Dec 29 2010 |
| Hydra magnipapillata |
10,104 |
Sep 9 2010 |
Nov 5 2010 |
| Ascomycota |
| Eurotiomycetes |
| Coccidioides posadasii |
7,075 |
Aug 19 2010 |
Aug 18 2011 |
| Pezizomycetes |
| Tuber melanosporum |
7,543 |
Oct 28 2010 |
Jan 6 2011 |
| Sordariomycetes |
| Gibberella moniliformis |
5,316 |
Nov 1 2009 |
Aug 17 2011 |
| Magnaporthe grisea |
13,135 |
Apr 28 2009 |
Aug 31 2011 |
| Neurospora crassa |
17,073 |
Mar 9 2011 |
Aug 19 2011 |
| Basidiomycota |
| Heterobasidiomycetes |
| Filobasidiella neoformans |
5,042 |
Oct 2 2010 |
Jan 5 2011 |
| Codonosigidae |
| Monosiga |
| Monosiga ovata |
5,265 |
Apr 27 2010 |
Aug 18 2011 |
| Streptophyta |
| Bryopsida |
| Physcomitrella patens |
18,899 |
Jan 27 2010 |
Jun 28 2010 |
| Coniferopsida |
| Picea glauca (white spruce) |
27,848 |
Oct 17 2011 |
Nov 4 2011 |
| Picea sitchensis (Sitka spruce) |
19,944 |
Mar 8 2011 |
May 12 2011 |
| Pinus taeda (loblolly pine) |
17,379 |
Dec 31 2010 |
Aug 19 2011 |
| Eudicotyledons |
| Aquilegia formosa x Aquilegia pubescens |
7,735 |
Dec 9 2005 |
Aug 19 2011 |
| Arabidopsis thaliana (thale cress) |
30,595 |
Aug 12 2011 |
Oct 11 2011 |
| Arachis hypogea (peanut) |
33,015 |
Jun 9 2011 |
Aug 19 2011 |
| Artemisia annua (sweet wormwood) |
86,708 |
Nov 2 2011 |
Dec 12 2011 |
| Brassica napus (rape) |
26,117 |
May 12 2011 |
Jan 3 2012 |
| Brassica oleracea |
14,286 |
Jan 12 2011 |
Mar 9 2011 |
| Brassica rapa (field mustard) |
14,460 |
Jun 2 2011 |
Aug 3 2011 |
| Capsicum annuum |
8,731 |
May 26 2011 |
Aug 22 2011 |
| Carica papaya |
6,992 |
Apr 10 2011 |
Aug 2 2011 |
| Citrus clementina |
8,994 |
Jun 27 2010 |
Aug 22 2011 |
| Citrus sinensis (Valencia orange) |
15,936 |
Jan 4 2011 |
May 5 2011 |
| Coffea canephora (robusta coffee) |
5,231 |
Jan 1 2011 |
Aug 22 2011 |
| Glycine max (soybean) |
36,180 |
Dec 16 2011 |
Jan 3 2012 |
| Gossypium hirsutum (upland cotton) |
20,085 |
Jul 2 2011 |
Aug 22 2011 |
| Gossypium raimondii |
3,174 |
Jan 27 2010 |
Aug 22 2011 |
| Helianthus annuus (sunflower) |
11,592 |
May 3 2011 |
Aug 22 2011 |
| Lactuca sativa (garden lettuce) |
45,536 |
Jun 29 2011 |
Oct 11 2011 |
| Lotus japonicus |
20,128 |
Mar 1 2011 |
Aug 22 2011 |
| Malus x domestica (apple) |
22,493 |
Nov 10 2011 |
Jan 3 2012 |
| Manihot esculenta (cassava) |
9,667 |
Mar 1 2011 |
Aug 2 2011 |
| Medicago truncatula (barrel medic) |
18,045 |
Nov 21 2011 |
Jan 31 2012 |
| Mimulus guttatus (spotted monkey flower) |
13,108 |
May 27 2009 |
Sep 21 2010 |
| Nicotiana tabacum (tobacco) |
24,432 |
Jan 12 2011 |
Feb 10 2011 |
| Phaseolus vulgaris |
6,686 |
Dec 22 2009 |
Feb 23 2010 |
| Populus tremula x Populus tremuloides (hybrid aspen) |
9,352 |
Nov 23 2009 |
Nov 30 2011 |
| Populus trichocarpa (western balsam poplar) |
15,056 |
Nov 10 2011 |
Jan 3 2012 |
| Prunus persica (peach) |
7,481 |
Dec 27 2010 |
Dec 27 2011 |
| Quercus robur (truffle oak) |
7,170 |
Sep 10 2010 |
Jan 11 2011 |
| Raphanus raphanistrum (wild radish) |
18,729 |
Dec 1 2008 |
Aug 25 2011 |
| Raphanus sativus (radish) |
17,181 |
Jul 15 2011 |
Sep 16 2011 |
| Solanum lycopersicum (tomato) |
17,892 |
Mar 17 2011 |
Oct 17 2011 |
| Solanum melongena (eggplant) |
9,060 |
Nov 2 2011 |
Jan 3 2012 |
| Solanum tuberosum (potato) |
18,890 |
Jan 12 2011 |
Mar 21 2011 |
| Theobroma cacao |
24,263 |
May 18 2010 |
Jan 3 2012 |
| Vigna unguiculata (cowpea) |
15,365 |
Jan 16 2011 |
Sep 27 2011 |
| Vitis vinifera (wine grape) |
21,892 |
Nov 4 2010 |
Jan 14 2011 |
| Isoetopsida |
| Selaginella moellendorffii |
10,636 |
Aug 12 2011 |
Sep 19 2011 |
| Liliopsida |
| Brachypodium distachyon |
10,698 |
Dec 9 2009 |
Sep 6 2011 |
| Festuca pratensis (meadow ryegrass) |
7,046 |
May 14 2009 |
Sep 19 2011 |
| Hordeum vulgare (barley) |
26,944 |
Jun 17 2011 |
Jul 28 2011 |
| Oryza sativa (rice) |
44,005 |
Aug 3 2011 |
Dec 13 2011 |
| Panicum virgatum (switchgrass) |
22,961 |
Oct 7 2010 |
Jan 3 2012 |
| Saccharum officinarum (sugarcane) |
15,394 |
Apr 4 2011 |
Aug 3 2011 |
| Sorghum bicolor (sorghum) |
13,733 |
Jun 29 2011 |
Sep 19 2011 |
| Triticum aestivum (Wheat) |
56,947 |
Dec 14 2011 |
Dec 27 2011 |
| Zea mays (maize) |
91,305 |
Oct 22 2011 |
Dec 13 2011 |
| Chlorophyta |
| Chlorophyceae |
| Chlamydomonas reinhardtii |
7,570 |
Jul 10 2011 |
Sep 19 2011 |
| Volvox carteri |
5,329 |
Aug 16 2010 |
Sep 20 2011 |
| Apicomplexa |
| Coccidia |
| Toxoplasma gondii |
6,533 |
Apr 27 2010 |
Jun 10 2010 |
| Bacillariophyta |
| Bacillariophyceae |
| Phaeodactylum tricornutum |
7,883 |
Apr 3 2011 |
Sep 26 2011 |
| Oomycetes |
| Peronosporales |
| Phytophthora infestans (potato late blight agent) |
8,920 |
Jul 29 2010 |
Sep 26 2011 |
| Pythiales |
| Pythium ultimum |
6,663 |
Jan 26 2011 |
Mar 14 2011 |
| Dictyosteliida |
| Dictyostelium |
| Dictyostelium discoideum (slime mold) |
6,187 |
Jul 28 2010 |
Sep 26 2011 |
| Ciliophora |
| Oligohymenophorea |
| Paramecium tetraurelia |
5,230 |
Jan 7 2011 |
Sep 26 2011 |
| Tetrahymena thermophila |
5,974 |
Nov 18 2010 |
Oct 18 2011 |
|
* The cutoff date is the modification date of the most recent sequence included in a released UniGene dataset. In order to keep ancillary information such as gene names and reported protein alignments timely, UniGene releases are generated even when there is no new sequence data for an organism. New UniGene builds are announced to the UniGene build RSS  . |
In addition to sequences of well-characterized genes, hundreds of thousands novel expressed sequence tag (EST) sequences have been included. Consequently, the collection may be of use to the community as a resource for gene discovery. UniGene has also been used by experimentalists to select reagents for gene mapping projects and large-scale expression analysis.
However, it should be noted that the procedures for automated sequence clustering are still under development and the results may change from time to time as improvements are made. Feedback from users has been especially useful in identifying problems and we encourage you to report any problems you encounter.
It should also be noted that no attempt has been made to produce contigs or consensus sequences. There are several reasons why the sequences of a set may not actually form a single contig. For example, all of the splicing variants for a gene are put into the same set. Moreover, EST-containing sets often contain 5' and 3' reads from the same cDNA clone, but these sequences do not always overlap.
A representation of the UniGene datasets is available by ftp
Descriptions of the UniGene
transcript based
and
genome based
build procedures are available.
UniGene References
Pontius JU, Wagner L, Schuler GD. UniGene: a unified view of the transcriptome. In: The NCBI Handbook. Bethesda (MD): National Center for Biotechnology Information; 2003.
[Full Text] [PDF]
Wheeler DL, et al. Database Resources of the National Center for Biotechnology. Nucl Acids Res 31:28-33;2003.
[PubMed] [Full Text] [PDF]
Schuler GD. Pieces of the puzzle: expressed sequence tags and the catalog of human genes. J Mol Med 75:694-698; 1997.
[PubMed] Schuler GD, et al. A gene map of the human genome. Science 274:540-546; 1996;
[PubMed] [Full Text]
Boguski MS, Schuler GD ESTablishing a human transcript map. Nature Genetics 10: 369-371; 1995.
[PubMed]
|
|