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Nanog Gene Detail
Summary
  • Symbol
    Nanog
  • Name
    Nanog homeobox
  • Synonyms
    2410002E02Rik, ecat4, ENK
  • Feature Type
    protein coding gene
  • IDs
    MGI:1919200
    NCBI Gene: 71950
  • Alliance
    gene page
  • Transcription Start Sites
    2 TSS
  • Regulated by
    Rr147456, Rr384, Rr385 ... (4 regulatory regions)
Location &
Maps
more
  • Sequence Map
    Chr6:122684448-122691592 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 6, 57.80 cM, cytoband F2
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    304 from dbSNP Build 142
  • Strain Annotations
    11
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1919200
 protein coding gene Chr6:122684448-122691592 (+)
129S1/SvImJ no annotation
A/J no annotation
AKR/J MGP_AKRJ_G0031130
 protein coding gene Chr6:124398175-124405584 (+)
BALB/cJ MGP_BALBcJ_G0031210
 protein coding gene Chr6:120756364-120771025 (+)
C3H/HeJ MGP_C3HHeJ_G0030929
 protein coding gene Chr6:124357247-124366697 (+)
C57BL/6NJ MGP_C57BL6NJ_G0031669
 protein coding gene Chr6:129139306-129148792 (+)
CAROLI/EiJ no annotation
CAST/EiJ no annotation
CBA/J no annotation
DBA/2J no annotation
FVB/NJ MGP_FVBNJ_G0031001
 protein coding gene Chr6:118923296-118930348 (+)
LP/J MGP_LPJ_G0031129
 protein coding gene Chr6:126005973-126015072 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0031036
 protein coding gene Chr6:138126523-138133632 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0031699
 protein coding gene Chr6:124293239-124301885 (+)
PWK/PhJ no annotation
SPRET/EiJ MGP_SPRETEiJ_G0029860
 protein coding gene Chr6:122433156-122439479 (+)
WSB/EiJ MGP_WSBEiJ_G0035000
 protein coding gene ChrX:84669227-84670321 (-)



Homology
more
  • Human Ortholog
    NANOG, Nanog homeobox
  • Vertebrate Orthologs
    5
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    NANOG, Nanog homeobox
  • Links
    NCBI Gene ID: 79923
    neXtProt AC: NX_Q9H9S0
    UniProt: Q9H9S0

  • Chr Location
    12p13.31; chr12:7787794-7799146 (+)  GRCh38
  • Human Ortholog
    NANOGP1, Nanog homeobox pseudogene 1
  • Synonyms
    NANOG2
  • Links
    NCBI Gene ID: 404635
    UniProt: Q8N7R0

  • Chr Location
    12p13.31; chr12:7892362-7899246 (+)  GRCh38
  • Human Ortholog
    NANOGP8, Nanog homeobox retrogene P8
  • Synonyms
    NANOGP1, PN8
  • Links
    NCBI Gene ID: 388112
    UniProt: Q6NSW7

  • Chr Location
    15q14; chr15:35083410-35085295 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    7 phenotypes from 3 alleles in 2 genetic backgrounds
    36 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Mice homozygous for a disruption in this gene die between E3.5 and E5.5 with abnormal embryonic and extraembryonic tissue development.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    97
  • GO References
    52
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    1460
  • Tissues
    177
  • cDNA Data
    16
  • Literature Summary
    242
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 71950 NCBI Gene Model | MGI Sequence Detail 7145 C57BL/6J ±  kb
    transcript NM_028016 RefSeq | MGI Sequence Detail 2223 C57BL/6  
    polypeptide Q80Z64 UniProt | EBI | MGI Sequence Detail 305 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 52
      cDNA 17
      Primer pair 29
      Other 6

      Microarray probesets 4
    References
    more
    • Summaries
      All 404
      Developmental Gene Expression 242
      Gene Ontology 52
      Phenotypes 36
    • Earliest
      J:65060 Kawai J, et al., Functional annotation of a full-length mouse cDNA collection. Nature. 2001 Feb 8;409(6821):685-90
    • Latest
      J:361444 Weberling A, et al., Primitive to visceral endoderm maturation is essential for mouse epiblast survival beyond implantation. iScience. 2025 Jan 17;28(1):111671
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
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    Send questions and comments to User Support.     		last database update
    03/25/2025
    MGI 6.24     		The Jackson Laboratory