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Ensembl Variation - Detailed species data count

List of data counts by category and species - Ensembl 90

Structural variant data

There are currently 9 species with structural variant data in the variation databases in Ensembl:

Species Structural variant (e!89 → e!90) Supporting evidence (e!89 → e!90)
Cow
Bos taurus
10,000+ - 104,000+ -
Dog
Canis familiaris
104,000+ (+1) 107,000+ (+1)
Horse
Equus caballus
193,000+ - 193,000+ -
Human
Homo sapiens
4.9 million+ (+26,000) 24 million+ (+27,000)
Macaque
Macaca mulatta
110 - 189 -
Mouse
Mus musculus
791,000+ (-41) 1.2 million+ (-192)
Pig
Sus scrofa
224,000+ - 310,000+ -
Sheep
Ovis aries
2 - 2 -
Zebrafish
Danio rerio
5,000+ - 29,000+ -

Genotype data

This doesn't include the genotypes from projects such as 1000 Genomes Project, ExAC Project, Mouse Genomes Project and NextGen Project because they are fetched directly from VCF files.

There are currently 19 species with genotype data in the variation databases in Ensembl:

Species Variants with sample genotype (e!89 → e!90) Variants with population genotype (e!89 → e!90)
Chicken
Gallus gallus
3.2 million+ - 3.2 million+ -
Chimpanzee
Pan troglodytes
1,000+ - 1.4 million+ -
Cow
Bos taurus
10,000+ - 10,000+ -
Dog
Canis familiaris
727,000+ - 727,000+ -
Fruitfly
Drosophila melanogaster
6.7 million+ - 6.7 million+ -
Gibbon
Nomascus leucogenys
1.1 million+ - 0 -
Horse
Equus caballus
1.1 million+ - 1.1 million+ -
Human
Homo sapiens
15 million+ (-737) 16 million+ (+1.3 million)
Macaque
Macaca mulatta
29 - 29 -
Mouse
Mus musculus
16 million+ - 10 million+ -
Orangutan
Pongo abelii
10 million+ - 0 -
Pig
Sus scrofa
15 - 175 -
Platypus
Ornithorhynchus anatinus
1.1 million+ - 1.1 million+ -
Rat
Rattus norvegicus
5 million+ - 5 million+ -
S. cerevisiae
Saccharomyces cerevisiae
263,000+ - 263,000+ -
Sheep
Ovis aries
64 - 147 -
Turkey
Meleagris gallopavo
0 - 48 -
Zebra Finch
Taeniopygia guttata
1.7 million+ - 1.7 million+ -
Zebrafish
Danio rerio
152,000+ - 151,000+ -

Phenotype data

The list of phenotype/disease/trait association sources by species is available in the page Phenotype sources.

There are currently 14 species with phenotype data in the variation databases in Ensembl:

Species Phenotype (e!89 → e!90) Phenotype association (e!89 → e!90)
Cat
Felis catus
51 - 55 -
Chicken
Gallus gallus
789 (+34) 7,000+ (+2,000)
Chimpanzee
Pan troglodytes
1 - 1 -
Cow
Bos taurus
771 (+17) 98,000+ (+4,000)
Dog
Canis familiaris
232 (+3) 248 (+3)
Horse
Equus caballus
83 (+9) 1,000+ (+31)
Human
Homo sapiens
18,000+ (-1,000) 4.3 million+ (+70,000)
Macaque
Macaca mulatta
7 - 11 -
Mouse
Mus musculus
8,000+ - 142,000+ (+29)
Pig
Sus scrofa
623 (-19) 15,000+ (-1,000)
Rat
Rattus norvegicus
7,000+ (+405) 64,000+ (+2,000)
Sheep
Ovis aries
277 (+5) 1,000+ (+103)
Turkey
Meleagris gallopavo
28 - 41 -
Zebrafish
Danio rerio
14,000+ (+313) 43,000+ (+771)

Citation data

There are currently 9 species with citation data in the variation databases in Ensembl:

Species Cited sequence variant (e!89 → e!90) Publication (e!89 → e!90)
Chicken
Gallus gallus
401 - 71 -
Cow
Bos taurus
1,000+ - 164 -
Dog
Canis familiaris
193 - 36 -
Horse
Equus caballus
58 - 6 -
Human
Homo sapiens
272,000+ (+81,000) 94,000+ (+30,000)
Mouse
Mus musculus
7,000+ - 564 -
Pig
Sus scrofa
73 - 14 -
Rat
Rattus norvegicus
90 - 17 -
Sheep
Ovis aries
30 - 7 -

Prediction data

There are currently 10 species with prediction data in the variation databases in Ensembl:

Species Variants with SIFT data (e!89 → e!90) Variants with PolyPhen data (e!89 → e!90)
Chicken
Gallus gallus
196,000+ - 0 -
Cow
Bos taurus
2 million+ (+1,000) 0 -
Dog
Canis familiaris
43,000+ - 0 -
Horse
Equus caballus
28,000+ - 0 -
Human
Homo sapiens
4.5 million+ (+604,000) 4.6 million+ (+624,000)
Mouse
Mus musculus
171,000+ (+343) 0 -
Pig
Sus scrofa
194,000+ (+13,000) 0 -
Rat
Rattus norvegicus
15,000+ - 0 -
Sheep
Ovis aries
132,000+ - 0 -
Zebrafish
Danio rerio
87,000+ (+945) 0 -

The full list of species with their assembly versions in Ensembl is available here.