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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)0217340067155
252
Mouse (Mus musculus)010146003681529
1060
Zebrafish (Danio rerio)053590020251939
3382

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)07276000397
9
Chimpanzee (Pan troglodytes)086810007181
276
Gibbon (Nomascus leucogenys)07172000647
8
Gorilla (Gorilla gorilla gorilla)067010006018
252
Human (Homo sapiens)0217340067155
252
Macaque (Macaca mulatta)065790006081
185
Marmoset (Callithrix jacchus)090000008417
1715
Mouse Lemur (Microcebus murinus)07111000318
10
Olive baboon (Papio anubis)076030005840
132
Orangutan (Pongo abelii)069960006376
510
Tarsier (Tarsius syrichta)05386000293
9
Vervet/AGM (Chlorocebus sabaeus)082420006333
64

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)05963000344
11
Kangaroo rat (Dipodomys ordii)03036000271
10
Mouse (Mus musculus)010146003681529
1060
Pika (Ochotona princeps)05732000187
6
Rabbit (Oryctolagus cuniculus)033750003123
538
Rat (Rattus norvegicus)01810000655
61
Squirrel (Ictidomys tridecemlineatus)03166000335
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)02532000259
7
Cat (Felis catus)0185500562809
675
Cow (Bos taurus)038250003123
198
Dog (Canis lupus familiaris)037740003384
348
Dolphin (Tursiops truncatus)03790000369
14
Ferret (Mustela putorius furo)03614000360
0
Hedgehog (Erinaceus europaeus)06456000226
5
Horse (Equus caballus)021420001887
70
Megabat (Pteropus vampyrus)04171000319
5
Microbat (Myotis lucifugus)04408000350
18
Panda (Ailuropoda melanoleuca)03141000371
3
Pig (Sus scrofa)030360002562
394
Sheep (Ovis aries)039850003086
136
Shrew (Sorex araneus)04558000212
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)02644000364
20
Hyrax (Procavia capensis)01720000251
6
Tenrec (Echinops telfairi)05680000239
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)05984000489
11
Sloth (Choloepus hoffmanni)02030000206
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)018500021651
130
Platypus (Ornithorhynchus anatinus)038710018351453
2338
Tasmanian devil (Sarcophilus harrisii)014900001205
76
Tree Shrew (Tupaia belangeri)03073000241
6
Wallaby (Macropus eugenii)014720001151
54

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)031600011591744
2023
Chicken (Gallus gallus)01558000667
38
Chinese softshell turtle (Pelodiscus sinensis)01042000751
155
Duck (Anas platyrhynchos)0567002431
26
Flycatcher (Ficedula albicollis)0897000552
23
Turkey (Meleagris gallopavo)0755000470
7
Zebra Finch (Taeniopygia guttata)0724000588
153

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)013060001141
659

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)0679000533
86
Cave fish (Astyanax mexicanus)0709002569
103
Cod (Gadus morhua)015410001367
729
Fugu (Takifugu rubripes)0703000603
103
Medaka (Oryzias latipes)0759000609
116
Platyfish (Xiphophorus maculatus)0372000254
1
Spotted gar (Lepisosteus oculatus)02619001714821
2072
Stickleback (Gasterosteus aculeatus)01617001911162
851
Tetraodon (Tetraodon nigroviridis)0813000639
157
Tilapia (Oreochromis niloticus)0821000697
58
Zebrafish (Danio rerio)053590020251939
3382

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)029180013571264
2073
Lamprey (Petromyzon marinus)026520013241052
2022

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)0455000168
49
C.savignyi (Ciona savignyi)0340000277
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)0248260000
0
Fruitfly (Drosophila melanogaster)020310000
0
S.cerevisiae (Saccharomyces cerevisiae)04130000
0