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Genomicus v75.02 Title
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DYOGEN group

web-code version: 2014-05-27
database version: 75.02


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Statistics on modern & ancestral genomes


Genomicus 75.02 contains 1203726 genes from 66 extant species. This data was analysed with a new method called AGORA (Algorithm for Gene Order Reconstruction in Ancestors; Muffato et al. in preparation) to identify 1042200 ancestral genes from 55 ancestral species, grouped into 32297 blocks of collinear genes.

The following tables present statistics on the data used in Genomicus, and on the reconstructed blocks in the ancestral species.

  1. For extant species, a "contig" means a segment of the genome sequence assembly (chromosomes, scaffolds, contig) with at least two genes.
  2. The average block length, the N25, N50 and N75 values do not take into account the singletons (blocks of one gene).
 
Primates Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Human(extant sp.)22625175129.09124699.8%
Gorilla(extant sp.)2096227776.410160100.0%
Orangutan(extant sp.)2042453385.48430100.0%
Rhesus(extant sp.)2190590236.1112066097.0%
Gibbon(extant sp.)1857539446.512626898.6%
Tarsier(extant sp.)1362815402.321015025.5%
Mouse lemur(extant sp.)1631930024.15392775.9%
Chimpanzee(extant sp.)1875961304.480319299.0%
Bushbaby(extant sp.)1950637451.811515199.2%
Marmoset(extant sp.)20978123166.1106154397.4%
 
Rodents etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Mouse(extant sp.)2270849463.311615100.0%
Rat(extant sp.)2294025915.813064499.8%
Kangaroo rat(extant sp.)1579831242.93671657.5%
Rabbit(extant sp.)1929358132.467847297.6%
Tree shrew(extant sp.)1547131623.34508767.1%
Guinea pig(extant sp.)1867327667.32159799.5%
Squirrel(extant sp.)1882651636.08724998.7%
Pika(extant sp.)1600630103.94439772.5%
 
Laurasiatherias Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Hedgehog(extant sp.)1460121052.42960634.2%
Microbat(extant sp.)19728124914.939116994.1%
Pig(extant sp.)2160546144.9122490695.8%
Horse(extant sp.)2044960340.17504699.8%
Cat(extant sp.)1949342459.8109118399.1%
Sheep(extant sp.)20921117174.087056497.3%
Dog(extant sp.)1985681243.360615299.2%
Cow(extant sp.)1999432624.57791199.9%
Dolphin(extant sp.)1655031794.45247285.1%
Alpaca(extant sp.)1176520064.45299974.5%
Giant Panda(extant sp.)19343181910.21879995.9%
Ferret(extant sp.)1991050339.09627698.6%
Megabat(extant sp.)1699031874.35319881.2%
Common shrew(extant sp.)1318719652.73794639.7%
 
Xenarthras etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Sloth(extant sp.)1239311812.22977821.1%
Armadillo(extant sp.)2271125548.313144893.6%
 
Afrotherias etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Hyrax(extant sp.)1605728342.93778351.5%
Elephant(extant sp.)2003335555.823022898.9%
Tenrec(extant sp.)1657525592.621004739.4%
 
Marsupials & Monotremes Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Opossum(extant sp.)21327111938.828700100.0%
Platypus(extant sp.)2169818556.822913857.9%
Tasmanian harrisii(extant sp.)1878819668.715165491.2%
Wallaby(extant sp.)1529017202.421111927.3%
 
Birds & Reptiles Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Turkey(extant sp.)1412514097.250551296.4%
Duck(extant sp.)15634138110.517113592.7%
Lizard(extant sp.)18596105516.3869137092.6%
Chinese turtle(extant sp.)18189146711.92372696.0%
Chicken(extant sp.)15508133111.552167695.6%
Zebra finch(extant sp.)1748868257.27121100.0%
Flycatcher(extant sp.)1530349130.59233497.8%
 
Amphibians Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Frog(extant sp.)18442133913.12390295.1%
 
Fish Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Spotted gar(extant sp.)1834118696.877333298.2%
Fugu(extant sp.)1852385320.552107794.2%
Atlantic cod(extant sp.)2009527166.410266386.7%
Tetraodon(extant sp.)1960227726.07670100.0%
Medaka(extant sp.)1969933157.874155697.2%
Tilapia(extant sp.)2143761334.28846897.8%
Cave fish(extant sp.)23042136715.937127794.5%
Platyfish(extant sp.)20379124415.444121894.0%
Stickleback(extant sp.)2078726178.586929998.6%
Zebrafish(extant sp.)26448178147.0102328098.9%
 
Other chordates Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Ciona savignyi(extant sp.)1161628540.61435999.5%
Lamprey(extant sp.)1041518443.64382663.3%
Coelacanth(extant sp.)1956925107.211146492.5%
Ciona intestinalis(extant sp.)1665848334.081624998.5%
 
Other eukaryotes Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Yeast(extant sp.)669217393.65130100.0%
Caenorhabditis elegans(extant sp.)2054172934.433620100.0%
Fruitfly(extant sp.)1393714995.527350100.0%
 
Ancestors in Primates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Homo/Pan/Gorilla group~9 My21888141140.4624209090.5%
Primates~83 My21652127148.9649273687.4%
Haplorrhini~57 My21164156119.8568247288.3%
Simiiformes~45 My21957140136.0604292286.7%
Catarrhini~31 My22372129150.1792301586.5%
Hominidae~16 My22373147134.8753256088.6%
Homo/Pan group~5 My2027587221.2734102894.9%
Hominoidea~25 My21905132147.9671237789.1%
Strepsirrhini~69 My1914944439.897146292.4%
 
Ancestors in Rodents etc. Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Rodentia~80 My20107151122.1485167191.7%
Sciurognathi~79 My1992218599.4441153992.3%
Murinae~37 My2005119994.3464128293.6%
Glires~81 My20672137136.0662204490.1%
Lagomorpha~48 My1835071223.4131169890.7%
 
Ancestors in Laurasiatherias Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Insectivora~68 My1580726202.73876544.5%
Bovidae~30 My20231164114.1507151492.5%
Carnivora~56 My20532117159.9626182691.1%
Caniformia~44 My20175132140.3589165591.8%
Chiroptera~60 My18566114014.836168990.9%
Caniformia_b~44 My1960839146.7118136493.0%
Cetartiodactyla~61 My2108520193.5400229789.1%
Laurasiatheria~88 My22763122157.9963350384.6%
 
Ancestors in mammals Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Boreoeutheria~95 My23470141136.5951422582.0%
Euarchontoglires~90 My22613115166.5843346784.7%
Diprotodontia~65 My1841917978.314346381.2%
Theria~166 My2069733451.4332354182.9%
Marsupialia~148 My1948254031.4118250487.1%
Eutheria~102 My2300222284.1611432381.2%
Mammalia~184 My2008364724.9105394580.4%
Xenarthra~64 My1897220677.712310683.6%
Atlantogenata~100 My2092534852.8200253687.9%
Afrotheria~94 My1953441042.9126196190.0%
 
Ancestors in fish Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Smegmamorpha~170 My2172337751.6588226789.6%
Tetraodontidae~65 My1913464726.2238218488.6%
Percomorpha~160 My2277436953.1619316486.1%
Atherinomorpha~100 My2071553135.0308212189.8%
Holacanthopterygii~200 My22237160211.527373683.2%
Clupeocephala~320 My2307120718.917467079.8%
Otophysi~150 My22731173711.222329385.5%
 
Ancestors in vertebrates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Euteleostomi~420 My1964522906.09585870.2%
Sarcopterygii~400 My19445151710.020434777.6%
Passeriformes~45 My1543022761.6310143990.7%
Neopterygii~330 My19719144210.723430078.2%
Testudines+Archosauriagroup~250 My1749539838.5274217087.6%
Galliformes~45 My1495716087.0358103493.1%
Sauria~267 My1841045834.7308251486.3%
Neognathae~105 My1661020970.2417194688.3%
Amniota~326 My2004844836.1266388380.6%
Tetrapoda~359 My19300100015.341395579.5%
 
Other ancestors Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Fungi/Metazoa group~1500 My2190182.1221531.7%
Craniata~550 My132165472.22119959.2%
Ciona~100 My1074315463.44543949.4%
Olfactores~550 My97831722.1294173.7%
Bilateria~580 My7662722.1275122.0%
Ecdysozoa~580 My7361642.1272251.8%