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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)176932240072801041367274
281
Mouse (Mus musculus)886010146421846424493769
1506
Zebrafish (Danio rerio)513753593964117325151449
3427

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)72767276239048860396
9
Chimpanzee (Pan troglodytes)868186817181150007181
297
Gibbon (Nomascus leucogenys)71727172186853040644
10
Gorilla (Gorilla gorilla gorilla)67016701601868306018
246
Human (Homo sapiens)176932240072801041367274
281
Macaque (Macaca mulatta)65796579608149806081
202
Marmoset (Callithrix jacchus)90009000841758308417
1793
Mouse Lemur (Microcebus murinus)71117111121258990317
9
Olive baboon (Papio anubis)760376035840176305840
166
Orangutan (Pongo abelii)69966996637662006376
541
Tarsier (Tarsius syrichta)53865386119641900290
13
Vervet/AGM (Chlorocebus sabaeus)824582486333191206333
61

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)59635963131446490345
11
Kangaroo rat (Dipodomys ordii)30363036115818780268
8
Mouse (Mus musculus)886010146421846424493769
1506
Pika (Ochotona princeps)57325732166040720181
12
Rabbit (Oryctolagus cuniculus)33753375312325203123
643
Rat (Rattus norvegicus)1782181065511270655
66
Squirrel (Ictidomys tridecemlineatus)31663166124219240336
1

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)25322532102015120261
13
Cat (Felis catus)185518551371484548823
680
Cow (Bos taurus)38253825312370203123
204
Dog (Canis lupus familiaris)37743774338439003384
458
Dolphin (Tursiops truncatus)37903790117726130370
12
Ferret (Mustela putorius furo)36143614141721970360
1
Hedgehog (Erinaceus europaeus)64566456138350730227
5
Horse (Equus caballus)21422142188725501887
104
Megabat (Pteropus vampyrus)4171417180133700319
6
Microbat (Myotis lucifugus)44084408150928990350
18
Panda (Ailuropoda melanoleuca)31413141139917420372
4
Pig (Sus scrofa)30243036256246202562
438
Sheep (Ovis aries)39853985308789803087
151
Shrew (Sorex araneus)45584558121133470212
6

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)26442644112115230366
19
Hyrax (Procavia capensis)172017207819390252
5
Tenrec (Echinops telfairi)5680568095547250238
1

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)59845984248235020488
11
Sloth (Choloepus hoffmanni)2030203083211980209
9

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)18501850165319721651
231
Platypus (Ornithorhynchus anatinus)38713871328858317201568
2365
Tasmanian devil (Sarcophilus harrisii)14901490120528501205
116
Tree Shrew (Tupaia belangeri)30733073122218510242
7
Wallaby (Macropus eugenii)14721472115132101151
90

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)31603160290325710361867
2084
Chicken (Gallus gallus)155815586678910667
37
Chinese softshell turtle (Pelodiscus sinensis)104210427512910751
168
Duck (Anas platyrhynchos)5675674331342431
31
Flycatcher (Ficedula albicollis)8978975523450552
23
Turkey (Meleagris gallopavo)7557554702850470
7
Zebra Finch (Taeniopygia guttata)7247245881360588
156

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
688

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
96
Cave fish (Astyanax mexicanus)7097095711382569
129
Cod (Gadus morhua)15411541136717401367
808
Fugu (Takifugu rubripes)7037036031000603
112
Medaka (Oryzias latipes)7597596091500609
130
Platyfish (Xiphophorus maculatus)3723722541180254
6
Spotted gar (Lepisosteus oculatus)261926192535841690845
2069
Stickleback (Gasterosteus aculeatus)16171617135326401353
888
Tetraodon (Tetraodon nigroviridis)8138136391740639
163
Tilapia (Oreochromis niloticus)8218216971240697
95
Zebrafish (Danio rerio)513753593964117325151449
3427

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)29182918262129713281293
2076
Lamprey (Petromyzon marinus)26522652237627610271349
2061

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
55
C.savignyi (Ciona savignyi)340340277630277
147

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