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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
321
Mouse (Mus musculus)9394107703904549003904
636
Zebrafish (Danio rerio)412243682733138914391294
2181

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)7276727636269140362
19
Chimpanzee (Pan troglodytes)868186817181150007181
284
Gibbon (Nomascus leucogenys)7172717259565770595
10
Gorilla (Gorilla gorilla gorilla)67016701601868306018
234
Human (Homo sapiens)176932240072801041367274
321
Macaque (Macaca mulatta)65796579608149806081
211
Marmoset (Callithrix jacchus)90009000841758308417
1833
Mouse Lemur (Microcebus murinus)7111711129168200291
13
Olive baboon (Papio anubis)760376035840176305840
166
Orangutan (Pongo abelii)69966996637662006376
536
Tarsier (Tarsius syrichta)5386538625651300256
16
Vervet/AGM (Chlorocebus sabaeus)824582486333191206333
66

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)5963596331556480315
13
Kangaroo rat (Dipodomys ordii)3036303626427720264
13
Mouse (Mus musculus)9394107703904549003904
636
Pika (Ochotona princeps)5732573220355290203
12
Rabbit (Oryctolagus cuniculus)33753375312325203123
629
Rat (Rattus norvegicus)866988424406426344402
898
Squirrel (Ictidomys tridecemlineatus)3166316631628500316
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)2532253222323090223
8
Cat (Felis catus)185518551371484567804
682
Cow (Bos taurus)38253825312370223121
188
Dog (Canis lupus familiaris)37743774338439003384
427
Dolphin (Tursiops truncatus)3790379033734530337
19
Ferret (Mustela putorius furo)3614361431932950319
3
Hedgehog (Erinaceus europaeus)6456645622662300226
6
Horse (Equus caballus)21422142188725501887
96
Megabat (Pteropus vampyrus)4171417128438870284
6
Microbat (Myotis lucifugus)4408440832240860322
18
Panda (Ailuropoda melanoleuca)3141314133228090332
7
Pig (Sus scrofa)30243036256246202562
449
Sheep (Ovis aries)39853985308789803087
150
Shrew (Sorex araneus)4558455822143370221
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)2644264434323010343
24
Hyrax (Procavia capensis)1720172024214780242
1
Tenrec (Echinops telfairi)5680568024054400240
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)5984598445755270457
9
Sloth (Choloepus hoffmanni)2030203019018400190
7

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
208
Platypus (Ornithorhynchus anatinus)38713871328858318481440
2359
Tasmanian devil (Sarcophilus harrisii)14901490120528501205
118
Tree Shrew (Tupaia belangeri)3073307323328400233
7
Wallaby (Macropus eugenii)14721472115132101151
85

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)31603160290325711281775
2063
Chicken (Gallus gallus)155815586688900668
36
Chinese softshell turtle (Pelodiscus sinensis)104210427512910751
156
Duck (Anas platyrhynchos)5675674331342431
29
Flycatcher (Ficedula albicollis)8978975523450552
28
Turkey (Meleagris gallopavo)7557554692860469
5
Zebra Finch (Taeniopygia guttata)7247245881360588
155

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
653

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
90
Cave fish (Astyanax mexicanus)7097095711382569
118
Cod (Gadus morhua)15411541136717401367
870
Fugu (Takifugu rubripes)7037036031000603
98
Medaka (Oryzias latipes)7597596091500609
123
Platyfish (Xiphophorus maculatus)3723722541180254
1
Spotted gar (Lepisosteus oculatus)261926192535841821714
2037
Stickleback (Gasterosteus aculeatus)16171617135326401353
869
Tetraodon (Tetraodon nigroviridis)8138136391740639
158
Tilapia (Oreochromis niloticus)8218216971240697
66
Zebrafish (Danio rerio)412243682733138914391294
2181

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)29182918262129710611560
2054
Lamprey (Petromyzon marinus)2652265223762769151461
2073

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
157

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