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Genomicus v70.01 Title
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DYOGEN group

web-code version: 2012-04-17
database version: 70.01


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Statistics on modern & ancestral genomes


Genomicus 70.01 contains 1102311 genes from 61 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 952135 ancestral genes from 51 ancestral species, grouped into 31204 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.)22679160141.59164499.8%
Orangutan(extant sp.)2042453385.48430100.0%
Rhesus(extant sp.)2190590236.1112066097.0%
Gibbon(extant sp.)1857539446.512626898.6%
Tarsier(extant sp.)1361515392.321015025.4%
Mouse lemur(extant sp.)1631930024.15392775.9%
Gorilla(extant sp.)2096227776.410160100.0%
Chimpanzee(extant sp.)1875961304.480319299.0%
Bushbaby(extant sp.)1950637451.811515199.2%
Marmoset(extant sp.)20993124164.8106155697.4%
 
Rodents etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Mouse(extant sp.)2269744515.711585100.0%
Rat(extant sp.)2294125915.913064499.8%
Kangaroo rat(extant sp.)1579831242.93671657.5%
Rabbit(extant sp.)1901856532.966645797.6%
Tree shrew(extant sp.)1545831613.34508767.1%
Guinea pig(extant sp.)1867327667.32159799.5%
Squirrel(extant sp.)1882651636.08724998.7%
Pika(extant sp.)1599330093.94439772.5%
 
Laurasiatherias Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Hedgehog(extant sp.)1458821042.42960634.2%
Microbat(extant sp.)19728124914.939116994.1%
Pig(extant sp.)2160546144.9122490695.8%
Horse(extant sp.)2044960340.17504699.8%
Cat(extant sp.)1949342459.8109118399.1%
Dog(extant sp.)1985681243.360615299.2%
Cow(extant sp.)1999432624.57791199.9%
Dolphin(extant sp.)1653731784.45247285.1%
Alpaca(extant sp.)1175220054.45299974.5%
Giant Panda(extant sp.)19343181910.21879995.9%
Megabat(extant sp.)1699031874.35319881.2%
Ferret(extant sp.)1991050339.09627698.6%
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.)1480325862.73782247.2%
 
Afrotherias etc. Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Hyrax(extant sp.)1604428332.93778351.5%
Elephant(extant sp.)2003335555.823022898.9%
Tenrec(extant sp.)1656225582.521004739.3%
 
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
(%)
Zebra finch(extant sp.)1748868257.27121100.0%
Chinese turtle(extant sp.)18188146711.92372696.0%
Lizard(extant sp.)17805100916.4834130292.7%
Chicken(extant sp.)1673648348.67344100.0%
Turkey(extant sp.)1412514097.250551296.4%
 
Amphibians Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Frog(extant sp.)18429133813.12390295.1%
 
Fish Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Tetraodon(extant sp.)1960227726.07670100.0%
Fugu(extant sp.)1852385320.552107794.2%
Atlantic cod(extant sp.)2009527166.410266386.7%
Zebrafish(extant sp.)26154178145.4102428098.9%
Medaka(extant sp.)1968633058.074155697.2%
Tilapia(extant sp.)2143761334.28846897.8%
Stickleback(extant sp.)2078726178.586929998.6%
Platyfish(extant sp.)20366124315.444121894.0%
 
Other chordates Age Genes Contigs Average size
(nb genes)
N50 size
(nb genes)
Genes not
in contigs
Coverage
(%)
Ciona savignyi(extant sp.)1160428440.71435999.5%
Lamprey(extant sp.)1040218433.64382663.2%
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.)2051772931.033260100.0%
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 My21706140141.5638189491.3%
Primates~83 My21638111170.5646271787.4%
Haplorrhini~57 My21170156119.9556247188.3%
Simiiformes~45 My21899144132.2642286786.9%
Catarrhini~31 My22367134144.6744298586.7%
Hominidae~16 My22139143138.8797228689.7%
Homo/Pan group~5 My2015685226.979387195.7%
Hominoidea~25 My21924140139.8678235389.3%
Strepsirrhini~69 My1910346737.993139792.7%
 
Ancestors in Rodents etc. Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Rodentia~80 My19997149123.5481160192.0%
Sciurognathi~79 My19808174105.4397147192.6%
Murinae~37 My2000821089.5409122093.9%
Glires~81 My20536141131.8622194890.5%
Lagomorpha~48 My1814571223.2134159891.2%
 
Ancestors in Laurasiatherias Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Insectivora~68 My1575726182.73870544.8%
Carnivora~56 My20448101184.1663185290.9%
Chiroptera~60 My18521113114.937163991.2%
Caniformia~44 My20181125147.7562172391.5%
Caniformia_b~44 My1950138747.0132131193.3%
Cetartiodactyla~61 My2031624575.3377185690.9%
Laurasiatheria~88 My22548109175.6965341384.9%
 
Ancestors in mammals Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Boreoeutheria~95 My23322141135.8971417882.1%
Euarchontoglires~90 My22456123155.5842332685.2%
Diprotodontia~65 My1843517938.314351780.9%
Theria~166 My2083833251.5289375582.0%
Marsupialia~148 My1950254730.9104257386.8%
Eutheria~102 My2262523677.7609427981.1%
Mammalia~184 My2024064824.7100421479.2%
Xenarthra~64 My1542026022.73836145.8%
Atlantogenata~100 My1993741442.5145235688.2%
Afrotheria~94 My1944041042.7140193090.1%
 
Ancestors in fish Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Smegmamorpha~170 My2121240646.9495218189.7%
Tetraodontidae~65 My1861964026.0235196389.5%
Percomorpha~160 My2232040147.8581314285.9%
Atherinomorpha~100 My2019355233.0256199290.1%
Holacanthopterygii~200 My21778178210.022400181.6%
Clupeocephala~320 My2146126226.39506176.4%
 
Ancestors in vertebrates Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Euteleostomi~420 My1925527164.45740061.6%
Sarcopterygii~400 My1932218787.713493274.5%
Sauropsida~280 My1827244335.4249260585.7%
Neognathae~105 My1557523159.6355180488.4%
Galliformes~45 My1489217876.1326135190.9%
Sauria~267 My1740445233.5288228286.9%
Amniota~326 My2010648333.0251415079.4%
Tetrapoda~359 My19276117312.829427877.8%
 
Other ancestors Age Genes Blocks Average size
(nb genes)
N50 size
(nb genes)
Genes not
in blocks
Coverage
(%)
Olfactores~550 My102481572.1299143.3%
Fungi/Metazoa group~1500 My2355202.0223141.7%
Craniata~550 My134665532.22122349.1%
Ciona~100 My1091015353.44566448.1%
Coelomata~570 My8359702.1282111.8%
Bilateria~580 My7029442.2269341.4%