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Statistics on ncRNA trees

Since release 58, Compara computes phylogenetic trees for the non-coding RNAs annotating by RFAM. The manuscript is in preparation. More information can be obtained here

List of available views:

Gene-tree coverage (per species)

Quick links: Primates, Rodents etc., Laurasiatheria, Afrotheria, Xenarthra, Other mammals, Birds & Reptiles, Amphibians, Fish, Other vertebrates, Other chordates, Other eukaryotes

Favourite species

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Human (Homo sapiens)177022257572681043467262
320
Mouse (Mus musculus)9687111803903578403903
628
Zebrafish (Danio rerio)41224368273313894632270
2173

Primates

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Bushbaby (Otolemur garnettii)7276727668664100362
20
Chimpanzee (Pan troglodytes)868186817181150007181
297
Gibbon (Nomascus leucogenys)7172717263048680595
8
Gorilla (Gorilla gorilla gorilla)67016701601668506016
254
Human (Homo sapiens)177022257572681043467262
320
Macaque (Macaca mulatta)65796579608349606081
210
Marmoset (Callithrix jacchus)90009000841758308417
1905
Mouse Lemur (Microcebus murinus)7111711167613500291
13
Olive baboon (Papio anubis)760376035840176305840
174
Orangutan (Pongo abelii)69966996637761906376
532
Tarsier (Tarsius syrichta)5386538650263600257
16
Vervet/AGM (Chlorocebus sabaeus)824582486333191206333
62

Rodents etc.

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Guinea Pig (Cavia porcellus)5963596356153480316
13
Kangaroo rat (Dipodomys ordii)3036303626014350265
12
Mouse (Mus musculus)9687111803903578403903
628
Pika (Ochotona princeps)5732573253533790197
14
Rabbit (Oryctolagus cuniculus)33753375312325203123
578
Rat (Rattus norvegicus)868488674407427744402
897
Squirrel (Ictidomys tridecemlineatus)3166316627853810316
3
Tree Shrew (Tupaia belangeri)3073307327063670232
7

Laurasiatheria

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Alpaca (Vicugna pacos)2532253222612710223
7
Cat (Felis catus)185518551371484522849
676
Cow (Bos taurus)38253825312370223121
189
Dog (Canis lupus familiaris)37743774338339103383
412
Dolphin (Tursiops truncatus)3790379031826080338
22
Ferret (Mustela putorius furo)3614361432423720320
3
Hedgehog (Erinaceus europaeus)6456645661762800227
4
Horse (Equus caballus)21422142188725501887
98
Megabat (Pteropus vampyrus)4171417137763950286
6
Microbat (Myotis lucifugus)4408440840713370323
16
Panda (Ailuropoda melanoleuca)3141314128672740333
4
Pig (Sus scrofa)30243036256246202562
454
Sheep (Ovis aries)584360053087275603087
145
Shrew (Sorex araneus)4558455842962620221
9

Afrotheria

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Elephant (Loxodonta africana)2644264423712730344
24
Hyrax (Procavia capensis)1720172014073130242
0
Tenrec (Echinops telfairi)5680568054482320239
2

Xenarthra

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Armadillo (Dasypus novemcinctus)5984598455684160456
10
Sloth (Choloepus hoffmanni)2030203018052250189
12

Other mammals

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Opossum (Monodelphis domestica)18501850165419621651
234
Platypus (Ornithorhynchus anatinus)38713871328858317581530
2410
Tasmanian devil (Sarcophilus harrisii)14901490120528501205
116
Wallaby (Macropus eugenii)14721472115232001151
101

Birds & Reptiles

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Anole Lizard (Anolis carolinensis)31603160290325710571846
2076
Chicken (Gallus gallus)155815586688900668
41
Chinese softshell turtle (Pelodiscus sinensis)104210427512910751
164
Duck (Anas platyrhynchos)5675674341332431
31
Flycatcher (Ficedula albicollis)8978975523450552
28
Turkey (Meleagris gallopavo)7557554702850469
8
Zebra Finch (Taeniopygia guttata)7247245871370587
157

Amphibians

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
X.tropicalis (Xenopus tropicalis)13061306114116501141
734

Fish

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Amazon molly (Poecilia formosa)6796795331460533
86
Cave fish (Astyanax mexicanus)7097095711382569
111
Cod (Gadus morhua)15411541136717401367
858
Fugu (Takifugu rubripes)7037036031000603
110
Medaka (Oryzias latipes)7597596081510608
128
Platyfish (Xiphophorus maculatus)3723722541180254
1
Spotted gar (Lepisosteus oculatus)261926192535841624911
2062
Stickleback (Gasterosteus aculeatus)1617161713532642761077
861
Tetraodon (Tetraodon nigroviridis)8138136401730639
166
Tilapia (Oreochromis niloticus)8218216971240697
106
Zebrafish (Danio rerio)41224368273313894632270
2173

Other vertebrates

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
Coelacanth (Latimeria chalumnae)29182918262129712581363
2030
Lamprey (Petromyzon marinus)26522652237627610691307
2106

Other chordates

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
C.intestinalis (Ciona intestinalis)4554551682870168
54
C.savignyi (Ciona savignyi)340340277630277
141

Other eukaryotes

Species# Genes# Sequences# Genes in a tree# Orphaned genes# Genes in a single-species tree# Genes in a multi-species treeCoverage# species-specific duplicationsGene events
C.elegans (Caenorhabditis elegans)246122482602461200
0
Fruitfly (Drosophila melanogaster)338440980338400
0
S.cerevisiae (Saccharomyces cerevisiae)413413041300
0