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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)177032241501770367261
323
Mouse (Mus musculus)9494109270949403904
587
Zebrafish (Danio rerio)41224368041229221811
2208

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)72767276072760361
20
Chimpanzee (Pan troglodytes)868186810868107181
290
Gibbon (Nomascus leucogenys)71727172071720594
9
Gorilla (Gorilla gorilla gorilla)670167010670106018
257
Human (Homo sapiens)177032241501770367261
323
Macaque (Macaca mulatta)657965790657906081
200
Marmoset (Callithrix jacchus)900090000900008417
1895
Mouse Lemur (Microcebus murinus)71117111071110290
13
Olive baboon (Papio anubis)760376030760305840
130
Orangutan (Pongo abelii)699669960699606376
526
Tarsier (Tarsius syrichta)53865386053860256
13
Vervet/AGM (Chlorocebus sabaeus)824582480824506333
68

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)59635963059630314
13
Kangaroo rat (Dipodomys ordii)30363036030360263
12
Mouse (Mus musculus)9494109270949403904
587
Pika (Ochotona princeps)57325732057320203
12
Rabbit (Oryctolagus cuniculus)337533750337503123
591
Rat (Rattus norvegicus)866988420866944402
874
Squirrel (Ictidomys tridecemlineatus)31663166031660315
2

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)25322532025320222
7
Cat (Felis catus)1855185501855420951
679
Cow (Bos taurus)382538250382523121
216
Dog (Canis lupus familiaris)377437740377403383
434
Dolphin (Tursiops truncatus)37903790037900336
20
Ferret (Mustela putorius furo)36143614036140319
3
Hedgehog (Erinaceus europaeus)64566456064560225
5
Horse (Equus caballus)214221420214201887
87
Megabat (Pteropus vampyrus)41714171041710285
6
Microbat (Myotis lucifugus)44084408044080322
16
Panda (Ailuropoda melanoleuca)31413141031410331
3
Pig (Sus scrofa)302430360302402562
460
Sheep (Ovis aries)584360050584303087
146
Shrew (Sorex araneus)45584558045580221
8

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)26442644026440342
24
Hyrax (Procavia capensis)17201720017200241
0
Tenrec (Echinops telfairi)56805680056800241
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)59845984059840456
10
Sloth (Choloepus hoffmanni)20302030020300189
11

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)185018500185021651
244
Platypus (Ornithorhynchus anatinus)387138710387118341454
2381
Tasmanian devil (Sarcophilus harrisii)149014900149001205
140
Tree Shrew (Tupaia belangeri)30733073030730232
7
Wallaby (Macropus eugenii)147214720147201151
98

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)316031600316012411662
2062
Chicken (Gallus gallus)15581558015580668
46
Chinese softshell turtle (Pelodiscus sinensis)10421042010420751
160
Duck (Anas platyrhynchos)56756705672431
33
Flycatcher (Ficedula albicollis)89789708970552
27
Turkey (Meleagris gallopavo)75575507550469
9
Zebra Finch (Taeniopygia guttata)72472407240587
152

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)130613060130601141
735

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)67967906790533
95
Cave fish (Astyanax mexicanus)70970907092569
111
Cod (Gadus morhua)15411541015412261141
862
Fugu (Takifugu rubripes)70370307030603
121
Medaka (Oryzias latipes)75975907590608
135
Platyfish (Xiphophorus maculatus)37237203720254
6
Spotted gar (Lepisosteus oculatus)26192619026191635900
2086
Stickleback (Gasterosteus aculeatus)1617161701617383970
819
Tetraodon (Tetraodon nigroviridis)81381308130639
175
Tilapia (Oreochromis niloticus)82182108210697
90
Zebrafish (Danio rerio)41224368041229221811
2208

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)291829180291813681253
2061
Lamprey (Petromyzon marinus)26522652026529811395
2076

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)45545504550168
69
C.savignyi (Ciona savignyi)34034003400277
177

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