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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)173522173471621019067156
260
Mouse (Mus musculus)86319812421844133423876
1424
Zebrafish (Danio rerio)513753593964117325641400
3395

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)7276727639868780398
9
Chimpanzee (Pan troglodytes)868186817181150007181
247
Gibbon (Nomascus leucogenys)7172717264865240648
12
Gorilla (Gorilla gorilla gorilla)67016701601868306018
226
Human (Homo sapiens)173522173471621019067156
260
Macaque (Macaca mulatta)65796579608149806081
166
Marmoset (Callithrix jacchus)90009000841758308417
1801
Mouse Lemur (Microcebus murinus)7111711131967920319
9
Olive baboon (Papio anubis)760376035840176305840
132
Orangutan (Pongo abelii)69966996637662006376
474
Tarsier (Tarsius syrichta)5386538629350930293
12
Chlorocebus sabaeus824282426333190906333
57

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)5963596334656170346
11
Kangaroo rat (Dipodomys ordii)3036303627127650271
10
Mouse (Mus musculus)86319812421844133423876
1424
Pika (Ochotona princeps)5732573218655460186
6
Rabbit (Oryctolagus cuniculus)33753375312325203123
564
Rat (Rattus norvegicus)1782181065511270655
58
Squirrel (Ictidomys tridecemlineatus)3166316633728290337
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)2532253226022720260
11
Cat (Felis catus)185518551371484515856
671
Cow (Bos taurus)38253825312370203123
178
Dog (Canis lupus familiaris)37743774338439003384
346
Dolphin (Tursiops truncatus)3790379037034200370
12
Ferret (Mustela putorius furo)3614361436032540360
0
Hedgehog (Erinaceus europaeus)6456645622662300226
5
Horse (Equus caballus)21422142188725501887
83
Megabat (Pteropus vampyrus)4171417132038510320
5
Microbat (Myotis lucifugus)4408440835040580350
16
Panda (Ailuropoda melanoleuca)3141314137327680373
4
Pig (Sus scrofa)30243036256246202562
382
Sheep (Ovis aries)39853985308689903086
137
Shrew (Sorex araneus)4558455821243460212
5

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)2644264436622780366
16
Hyrax (Procavia capensis)1720172025214680252
4
Tenrec (Echinops telfairi)5680568023954410239
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)5984598449054940490
10
Sloth (Choloepus hoffmanni)2030203020818220208
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
114
Platypus (Ornithorhynchus anatinus)38713871328858318781410
2345
Tasmanian devil (Sarcophilus harrisii)14901490120528501205
86
Tree Shrew (Tupaia belangeri)3073307324228310242
6
Wallaby (Macropus eugenii)14721472115132101151
51

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)3160316029032579511952
2057
Chicken (Gallus gallus)155815586678910667
36
Chinese softshell turtle (Pelodiscus sinensis)104210427512910751
159
Duck (Anas platyrhynchos)5675674331342431
31
Flycatcher (Ficedula albicollis)8978975523450552
28
Turkey (Meleagris gallopavo)7557554702850470
6
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
668

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
88
Cave fish (Astyanax mexicanus)7097095711382569
103
Cod (Gadus morhua)15411541136717401367
831
Fugu (Takifugu rubripes)7037036031000603
98
Medaka (Oryzias latipes)7597596091500609
118
Platyfish (Xiphophorus maculatus)3723722541180254
0
Spotted gar (Lepisosteus oculatus)261926192535841714821
2073
Stickleback (Gasterosteus aculeatus)161716171353264383970
872
Tetraodon (Tetraodon nigroviridis)8138136391740639
165
Tilapia (Oreochromis niloticus)8218216971240697
68
Zebrafish (Danio rerio)513753593964117325641400
3395

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)29182918262129715131108
2071
Lamprey (Petromyzon marinus)2652265223762769741402
2046

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
49
C.savignyi (Ciona savignyi)340340277630277
145

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)246632483402466300
0
Fruitfly (Drosophila melanogaster)157020310157000
0
S.cerevisiae (Saccharomyces cerevisiae)413413041300
0