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HumanHomo sapiensChimpPan troglodytesBonoboPan paniscusPan troglodytesPan paniscusPanGorillaGorilla gorilla gorillaHomoPanGorilla gorilla - GorillaHomininaeOrangutanPongo abeliiHomininaePongo - PonginaeHominidaeGibbonNomascus leucogenysHominidaeNomascus - HylobatidaeHominoideaGreen monkeyChlorocebus sabaeusCrab-eating macaqueMacaca fascicularisRhesusMacaca mulattaMacaca fascicularisMacaca mulattaMacacaBaboon (anubis)Papio anubisBaboon (hamadryas)Papio hamadryas hamadryasPapio anubisPapio hamadryasPapioChlorocebusMacacaPapioCercopithecinaeProboscis monkeyNasalis larvatusGolden snub-nosed monkeyRhinopithecus roxellanaNasalisRhinopithecusColobinaeCercopithecinaeColobinaeCercopithecidaeHominoideaCercopithecidae - CercopithecoideaCatarrhiniMarmosetCallithrix jacchusSquirrel monkeySaimiri boliviensis boliviensisCallithrix - Callithrix - CallitrichinaeSaimiri boliviensis - Saimiri - SaimiriinaeCebidaeCatarrhiniCebidae - PlatyrrhiniSimiiformesTarsierCarlito syrichtaSimiiformesCarlito - Tarsiidae - TarsiiformesHaplorrhiniMouse lemurMicrocebus murinusBushbabyOtolemur garnettiiMicrocebus - Cheirogaleidae - LemuriformesOtolemur - Galagidae - LorisiformesStrepsirrhiniHaplorrhiniStrepsirrhiniPrimateMouseMus musculusRatRattus norvegicusMus - MusRattusMurinaeChinese hamsterCricetulus griseusMurinae - MuridaeCricetulus - Cricetinae - CricetidaeMuroideaKangaroo ratDipodomys ordiiNaked mole-ratHeterocephalus glaberGuinea pigCavia porcellusHeterocephalus - BathyergidaeCavia - CaviidaeHystricomorphaSquirrelIctidomys tridecemlineatusMuroidea - MyomorphaDipodomys - Dipodomyinae - Heteromyidae - CastorimorphaHystricomorphaIctidomys - Marmotini - Xerinae - Sciuridae - SciuromorphaRodentiaRabbitOryctolagus cuniculusPikaOchotona princepsOryctolagus - LeporidaeOchotona - OchotonidaeLagomorphaRodentiaLagomorphaGliresMalayan flying lemurGaleopterus variegatusTree shrewTupaia belangeriPrimateGliresGaleopterus - Cynocephalidae - DermopteraTupaia - Tupaiidae - ScandentiaEuarchontogliresHedgehogErinaceus europaeusShrewSorex araneusErinaceus - Erinaceinae - ErinaceidaeSorex - Soricinae - SoricidaeEulipotyphlaPigSus scrofaCowBos taurusBisonBison bison bisonBosBison bison - BisonBovinaeSheepOvis ariesBovinaeOvis - CaprinaeBovidaeDolphinTursiops truncatusMinke whaleBalaenoptera acutorostrata scammoniTursiops - Delphinidae - OdontocetiBalaenoptera acutorostrata - Balaenoptera - Balaenopteridae - MysticetiCetaceaAlpacaVicugna pacosSus - Suidae - SuinaBovidae - Pecora - RuminantiaCetacea - WhippomorphaVicugna - Camelidae - TylopodaArtiodactylaHorseEquus caballusWhite rhinocerosCeratotherium simum simumEquus - EquidaeCeratotherium simum - Ceratotherium - RhinocerotidaePerissodactylaDogCanis lupus familiarisSouthern sea otterEnhydra lutris nereisFerret Mustela putorius furoEnhydra lutris - Enhydra - LutrinaeMustela putorius - Mustela - MustelinaeMustelidaeHawaiian monk sealNeomonachus schauinslandiPandaAiluropoda melanoleucaCanis lupus - Canis - CanidaeMustelidaeNeomonachus - PhocidaeAiluropoda - UrsidaeCaniformiaCatFelis catusCaniformiaFelis - Felinae - Felidae - FeliformiaCarnivoraMegabatPteropus vampyrusChinese pangolinManis pentadactylaEulipotyphlaArtiodactylaPerissodactylaCarnivoraPteropus - Pteropodinae - Pteropodidae - Megachiroptera - ChiropteraManis - Manidae - PholidotaLaurasiatheriaEuarchontogliresLaurasiatheriaBoreoeutheriaElephantLoxodonta africanaManateeTrichechus manatus latirostrisRock hyraxProcavia capensisTenrecEchinops telfairiLoxodonta - Elephantidae - ProboscideaTrichechus manatus - Trichechus - Trichechidae - SireniaProcavia - Procaviidae - HyracoideaEchinops - Tenrecinae - TenrecidaeAfrotheriaArmadilloDasypus novemcinctusSlothCholoepus hoffmanniDasypus - Dasypodidae - CingulataCholoepus - Megalonychidae - Folivora - PilosaXenarthraBoreoeutheriaAfrotheriaXenarthraEutheriaWallabyNotamacropus eugeniiTasmanian devilSarcophilus harrisiiOpossumMonodelphis domesticaNotamacropus - Macropodidae - DiprotodontiaSarcophilus - Dasyuridae - DasyuromorphiaMonodelphis - Didelphinae - Didelphidae - DidelphimorphiaMetatheriaEutheriaMetatheriaTheriaPlatypusOrnithorhynchus anatinusTheriaOrnithorhynchus - Ornithorhynchidae - Monotremata - PrototheriaMammaliaChickenGallus gallusTurkeyMeleagris gallopavoGallus - PhasianinaeMeleagris - MeleagridinaePhasianidaeGolden eagleAquila chrysaetos canadensisZebra finchTaeniopygia guttataMedium ground finchGeospiza fortisTaeniopygia - Estrildinae - Estrildidae - PasseroideaGeospiza - ThraupidaePasseriformesBudgerigarMelopsittacus undulatusPhasianidae - Galliformes - GalloanseraeAquila chrysaetos - Aquila - Accipitrinae - Accipitridae - AccipitriformesPasseriformesMelopsittacus - Psittaculidae - PsittaciformesNeognathaeBrown kiwiApteryx mantelli mantelliNeognathaeApteryx mantelli - Apteryx - Apterygidae - Apterygiformes - PalaeognathaeAvesAmerican alligatorAlligator mississippiensisAves - Coelurosauria - Theropoda - Saurischia - DinosauriaAlligator - Alligatorinae - Alligatoridae - CrocodyliaArchosauriaPainted turtleChrysemys picta belliiArchosauriaChrysemys picta - Chrysemys - Emydidae - Testudinoidea - Durocryptodira - Cryptodira - Testudines - TestudinataArchelosauriaLizardAnolis carolinensisGarter snakeThamnophis sirtalisAnolis - Dactyloidae - IguaniaThamnophis - Natricinae - Colubridae - Colubroidea - SerpentesToxicoferaArchelosauriaToxicofera - Episquamata - Unidentata - Bifurcata - Squamata - LepidosauriaSauriaMammaliaSauria - SauropsidaAmniotaX. tropicalisXenopus tropicalisAfrican clawed frogXenopus laevisSiluranaXenopusXenopusTibetan frogNanorana parkeriXenopus - Xenopodinae - Pipidae - PipoideaNanorana - Dicroglossinae - Dicroglossidae - Ranoidea - NeobatrachiaAnuraAmniotaAnura - Batrachia - AmphibiaTetrapodaCoelacanthLatimeria chalumnaeTetrapoda - DipnotetrapodomorphaLatimeria - Coelacanthidae - Coelacanthiformes - CoelacanthimorphaSarcopterygiiZebrafishDanio rerioSticklebackGasterosteus aculeatusFuguTakifugu rubripesTetraodonTetraodon nigroviridisTakifuguTetraodonTetraodontidaeGasterosteus - Gasterosteidae - Gasterosteales - Cottioidei - PerciformesTetraodontidae - Tetradontoidea - Tetraodontoidei - TetraodontiformesEupercariaMedakaOryzias latipesNile tilapiaOreochromis niloticusOryzias - Oryziinae - Adrianichthyidae - Adrianichthyoidei - Beloniformes - AtherinomorphaeOreochromis - Oreochromini - Pseudocrenilabrinae - African cichlids - Cichlidae - Cichliformes - CichlomorphaeOvalentariaEupercariaOvalentariaPercomorphaceaeAtlantic codGadus morhuaPercomorphaceae - EuacanthomorphaceaGadus - Gadidae - Gadoidei - Gadiformes - Gadariae - Zeiogadaria - ParacanthopterygiiAcanthomorphataDanio - Danioninae - Danionidae - Cyprinoidei - Cypriniformes - Cypriniphysae - Otophysi - Ostariophysi - OtomorphaAcanthomorphata - Ctenosquamata - Eurypterygia - Neoteleostei - EuteleosteomorphaClupeocephalaSarcopterygiiClupeocephala - Osteoglossocephalai - Teleostei - Neopterygii - Actinopteri - ActinopterygiiEuteleostomiElephant sharkCallorhinchus miliiEuteleostomi - TeleostomiCallorhinchus - Callorhinchidae - Chimaeriformes - Holocephali - ChondrichthyesGnathostomataLampreyPetromyzon marinusGnathostomataPetromyzon - Petromyzontidae - Petromyzontiformes - Hyperoartia - CyclostomataVertebrataLanceletBranchiostoma floridaeC. intestinalisCiona intestinalisVertebrata - CraniataBranchiostoma - Branchiostomidae - Amphioxiformes - Leptocardii - CephalochordataCiona - Cionidae - Phlebobranchia - Ascidiacea - TunicataChordataS. purpuratusStrongylocentrotus purpuratusChordataStrongylocentrotus - Strongylocentrotidae - Echinidea - Camarodonta - Echinacea - Euechinoidea - Echinoidea - Echinozoa - Eleutherozoa - EchinodermataDeuterostomiaD. melanogasterDrosophila melanogasterD. erectaDrosophila erectaD. sechelliaDrosophila sechelliaD. simulansDrosophila simulansD. yakubaDrosophila yakubaDrosophila melanogasterDrosophila erectaDrosophila sechelliaDrosophila simulansDrosophila yakubamelanogaster subgroupD. ananassaeDrosophila ananassaemelanogaster subgroupananassae species complex - ananassae subgroupmelanogaster groupD. persimilisDrosophila persimilisD. pseudoobscuraDrosophila pseudoobscura pseudoobscuraDrosophila persimilisD. pseudoobscurapseudoobscura subgroupmelanogaster grouppseudoobscura subgroup - obscura groupSophophoraD. mojavensisDrosophila mojavensisD. virilisDrosophila virilismojavensis species complex - mulleri subgroup - repleta groupvirilis groupDrosophilaD. grimshawiDrosophila grimshawiSophophoraDrosophilagrimshawi subgroup - grimshawi group - grimshawi clade - picture wing clade - Hawaiian DrosophilaDrosophilaA. gambiaeAnopheles gambiae str. PESTDrosophila - Drosophilini - Drosophilinae - Drosophilidae - Ephydroidea - Acalyptratae - Schizophora - Cyclorrhapha - Eremoneura - Muscomorpha - BrachyceraA. gambiae - gambiae species complex - Pyretophorus - Cellia - Anopheles - Anophelinae - Culicidae - Culicoidea - Culicomorpha - NematoceraDipteraA. melliferaApis melliferaDipteraApis - Apini - Apinae - Apidae - Apoidea - Aculeata - Apocrita - HymenopteraEndopterygotaC. elegansCaenorhabditis elegansC. brenneriCaenorhabditis brenneriC. briggsaeCaenorhabditis briggsaeC. japonicaCaenorhabditis japonicaC. remaneiCaenorhabditis remaneiCaenorhabditis elegansCaenorhabditis brenneriCaenorhabditis briggsaeCaenorhabditis japonicaCaenorhabditis remaneiCaenorhabditisP. pacificusPristionchus pacificusCaenorhabditis - Peloderinae - Rhabditidae - Rhabditoidea - RhabditomorphaPristionchus - Neodiplogasteridae - Diplogasteroidea - DiplogasteromorphaRhabditinaEndopterygota - Neoptera - Pterygota - Dicondylia - Insecta - Hexapoda - Pancrustacea - Mandibulata - Arthropoda - PanarthropodaRhabditina - Rhabditida - Chromadorea - NematodaEcdysozoaSea hareAplysia californicaEcdysozoaAplysia - Aplysiidae - Aplysioidea - Aplysiida - Tectipleura - Euthyneura - Heterobranchia - Gastropoda - Mollusca - Lophotrochozoa - SpiraliaProtostomiaDeuterostomiaProtostomiaBilateriaS. cerevisiaeSaccharomyces cerevisiae S288CBilateria - Eumetazoa - MetazoaS. cerevisiae - Saccharomyces - Saccharomycetaceae - Saccharomycetales - Saccharomycetes - Saccharomycotina - saccharomyceta - Ascomycota - Dikarya - FungiOpisthokontaEbola virusZaire ebolavirusSARS-CoV-2Severe acute respiratory syndrome coronavirus 2Ebolavirus - Filoviridae - Mononegavirales - Monjiviricetes - Haploviricotina - NegarnaviricotaSevere acute respiratory syndrome-related coronavirus - Sarbecovirus - Betacoronavirus - Orthocoronavirinae - Coronaviridae - Cornidovirineae - Nidovirales - Pisoniviricetes - PisuviricotaOrthornaviraeMonkeypox virusMonkeypox virusOrthornavirae - RiboviriaOrthopoxvirus - Chordopoxvirinae - Poxviridae - Chitovirales - Pokkesviricetes - Nucleocytoviricota - Bamfordvirae - VaridnaviriaVirusesOpisthokonta - Eukaryota - cellular organismsVirusesroot
Find Position
Mouse Assembly
Position/Search Term
Current position: chr12:56,694,976-56,714,605
GO
Mouse Genome Browser - mm10 assembly
Mouse
Mus musculus
(Photo courtesy of The Jackson Laboratory)

UCSC Genome Browser assembly ID: mm10
Sequencing/Assembly provider ID: Genome Reference Consortium Mouse Build 38 (GCA_000001635.2)
Assembly date: Dec. 2011
Accession ID: GCA_000001305.2
NCBI Genome ID: 52 (Mus musculus)
NCBI Assembly ID: 327618 (GRCm38/GCA_000001635.2)
NCBI BioProject ID: 20689

Other mice strains are available here.

View additional model organism data at the Alliance of Genome Resources.

Search the assembly:

  • By position or search term: Use the "position or search term" box to find areas of the genome associated with many different attributes, such as a specific chromosomal coordinate range; mRNA, EST, or STS marker names; or keywords from the GenBank description of an mRNA. More information, including sample queries.
  • By gene name: Type a gene name into the "search term" box, choose your gene from the drop-down list, then press "submit" to go directly to the assembly location associated with that gene. More information.
  • By track type: Click the "track search" button to find Genome Browser tracks that match specific selection criteria. More information.


Download sequence and annotation data:


Assembly details

Genome Reference Consortium GRCm38, which includes approximately 2.6 Gb of sequence, is considered to be "essentially complete". The assembly includes chromosomes 1-19, X, Y, M (mitochondrial DNA) and chr*_random (unlocalized) and chrUn_* (unplaced clone contigs). For information about the process used to assemble this version, see the GRC website. For a glossary of assembly-related terms, see the GRC Assembly Terminology page.

mm10 has been updated with patches since its release in 2012. GRC patch releases do not change any previously existing sequences; they simply add new sequences for fix patches or alternate haplotypes that correspond to specific regions of the main chromosome sequences. For most users, the patches are unlikely to make a difference and may complicate the analysis as they introduce more duplication.

The UCSC mm10 patch level 6 contains 9 alternate scaoffolds from the reference strain C57BL/6J.

  • chr1_KK082441_alt
  • chr11_KZ289080_alt
  • chr11_KZ289074_alt
  • chr11_KZ289078_alt
  • chr11_KZ289081_alt
  • chr11_KZ289079_alt
  • chr11_KZ289075_alt
  • chr11_KZ289073_alt
  • chr11_KZ289077_alt

It also contains 99 alternate scaffolds from 14 other mouse strains which are included in the NCBI release GRC MM38.

Other Mouse Strains:

  • 129P2/OlaHsd
  • 129S1/SvImJ
  • 129S2/SvPas
  • 129S6/SvEvTac
  • 129X1/SvJ
  • A/J
  • AKR/J
  • BALB/c
  • CAST/Ei
  • NOD/MrkTac
  • NOD/ShiLtJ
  • RIII
  • UNKNOWN
  • 129S7/SvEvBrd-Hprt-b-m2