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Cbx3 chromobox 3 [ Mus musculus (house mouse) ]

Gene ID: 12417, updated on 7-Aug-2026
Official Symbol
Cbx3provided by MGI
Official Full Name
chromobox 3provided by MGI
Primary source
MGI:MGI:108515
See related
Ensembl:ENSMUSG00000029836 AllianceGenome:MGI:108515
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
M32; HP1g
Summary
Enables DNA-binding transcription factor binding activity and transcription cis-regulatory region binding activity. Acts upstream of or within negative regulation of DNA-templated transcription. Located in chromocenter; chromosome, centromeric region; and nuclear envelope. Is expressed in several structures, including central nervous system; embryo ectoderm; gonad; gut; and retina nuclear layer. Orthologous to human CBX3 (chromobox 3). [provided by Alliance of Genome Resources, Jul 2025]
Expression
Biased expression in CNS E11.5 (RPKM 59.6), CNS E14 (RPKM 32.1) and 12 other tissues See more
Orthologs
all
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Try the new Transcripts and proteins table
See Cbx3 in Genome Data Viewer
Location:
6 B3; 6 24.89 cM
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (51447596..51460684)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (51470154..51483704)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer mm9_chr6:51333989-51334289 Neighboring gene predicted gene 6559 Neighboring gene STARR-seq mESC enhancer starr_15870 Neighboring gene STARR-seq mESC enhancer starr_15871 Neighboring gene nuclear factor, erythroid derived 2, like 3 Neighboring gene STARR-seq mESC enhancer starr_15873 Neighboring gene heterogeneous nuclear ribonucleoprotein A2/B1 Neighboring gene STARR-seq mESC enhancer starr_15875 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:51459345-51459528 Neighboring gene STARR-seq mESC enhancer starr_15881 Neighboring gene sorting nexin 10 Neighboring gene predicted gene, 52883 Neighboring gene predicted gene, 53331

Go to nucleotide: Graphics FASTA GenBank

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Related articles in PubMed

  1. Cbx3 maintains lineage specificity during neural differentiation. Huang C, et al. Genes Dev, 2017 Feb 1. PMID 28270516, Free PMC Article
  2. CpG-island fragments from the HNRPA2B1/CBX3 genomic locus reduce silencing and enhance transgene expression from the hCMV promoter/enhancer in mammalian cells. Williams S, et al. BMC Biotechnol, 2005 Jun 3. PMID 15935093, Free PMC Article
  3. The CpG-sites of the CBX3 ubiquitous chromatin opening element are critical structural determinants for the anti-silencing function. Kunkiel J, et al. Sci Rep, 2017 Aug 11. PMID 28801671, Free PMC Article
  4. Cloning and characterization of 5'-upstream sequence of the M32 gene for a mouse homologue of Drosophila heterochromatin protein 1 (HP1). Sato M, et al. DNA Seq, 2001. PMID 11761715
  5. A hypomorphic Cbx3 allele causes prenatal growth restriction and perinatal energy homeostasis defects. Aydin E, et al. J Biosci, 2015 Jun. PMID 25963260

See all (145) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Mouse HP1gamma regulates TRF1 expression and telomere stability.
    Title: Mouse HP1γ regulates TRF1 expression and telomere stability.
  2. Targeting Cbx3/HP1gamma Induces LEF-1 and IL-21R to Promote Tumor-Infiltrating CD8 T-Cell Persistence.
    Title: Targeting Cbx3/HP1γ Induces LEF-1 and IL-21R to Promote Tumor-Infiltrating CD8 T-Cell Persistence.
  3. these results describe the regulation and participation of HP1gamma in a novel membrane-to-nucleus pathway, through NGF-PKA signaling.
    Title: Mechanisms Underlying the Regulation of HP1γ by the NGF-PKA Signaling Pathway.
  4. Cbx3 modulates vascular smooth muscle cells contractile and collagen gene expression, as well as VSMC proliferation, migration, and apoptosis via a Notch3 pathway, and plays an important role in controlling injury-induced neointima formation.
    Title: Cbx3 inhibits vascular smooth muscle cell proliferation, migration, and neointima formation.
  5. Citrullination of HP1gamma is dynamically regulated during mESC differentiation. The citrullinated residues lie within the HP1gamma chromodomain and are important for H3K9me3 binding.
    Title: Citrullination of HP1γ chromodomain affects association with chromatin.
  6. Data indicate that HP1gamma is dispensable for cell cycle exit and normal cardiac growth but has a significant role in maintaining H4K20me3 and regulating a limited number of genes in cardiac myocytes.
    Title: Deletion of HP1γ in cardiac myocytes affects H4K20me3 levels but does not impact cardiac growth.
  7. HP1gamma is present in the nucleus and the cytoplasm interacting with actin, a protein complex that may exert different functions depending on its subcellular localization.
    Title: Heterochromatin protein (HP)1γ is not only in the nucleus but also in the cytoplasm interacting with actin in both cell compartments.
  8. it is the small size of the Cbx3hypo/hypo neonates, a likely consequence of placental growth and transport defects, combined with a possible inability to thermoregulate that causes the severe postnatal mortality.
    Title: A hypomorphic Cbx3 allele causes prenatal growth restriction and perinatal energy homeostasis defects.
  9. Forced expression of HP1gamma facilitated axonal and dendritic development, suggesting that the increase of HP1gamma is a rate limiting step in neuronal maturation.
    Title: Up-regulation of HP1γ expression during neuronal maturation promotes axonal and dendritic development in mouse embryonic neocortex.
  10. in addition to histones, bacteria control host transcription by modulating the activity of HP1 proteins, with potential implications in transcriptional reprogramming at the mucosal barrier.
    Title: Shigella flexneri targets the HP1γ subcode through the phosphothreonine lyase OspF.
Submit: New GeneRIF Correction See all GeneRIFs (19)

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • MGC118084

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA-binding transcription factor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables enzyme binding ISO
Inferred from Sequence Orthology
more info
  
enables histone H1K26me1 reader activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H1K26me2 reader activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H3K9me2/3 reader activity ISO
Inferred from Sequence Orthology
more info
  
enables histone methyltransferase binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein domain specific binding ISO
Inferred from Sequence Orthology
more info
  
enables transcription cis-regulatory region binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription coregulator binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA damage response ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within gene expression IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in heterochromatin formation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in heterochromatin formation ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of RNA polymerase II transcription regulator complex ISO
Inferred from Sequence Orthology
more info
  
located_in chromatin IDA
Inferred from Direct Assay
more info
 PubMed 
located_in chromatin ISO
Inferred from Sequence Orthology
more info
  
part_of chromatin lock complex ISO
Inferred from Sequence Orthology
more info
  
located_in chromocenter IDA
Inferred from Direct Assay
more info
 PubMed 
located_in chromocenter IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome, centromeric region ISO
Inferred from Sequence Orthology
more info
  
located_in condensed chromosome, centromeric region IDA
Inferred from Direct Assay
more info
 PubMed 
located_in euchromatin ISO
Inferred from Sequence Orthology
more info
  
located_in heterochromatin IDA
Inferred from Direct Assay
more info
 PubMed 
located_in heterochromatin ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear envelope IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
is_active_in pericentric heterochromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in pericentric heterochromatin IDA
Inferred from Direct Assay
more info
 PubMed 
located_in pericentric heterochromatin IEA
Inferred from Electronic Annotation
more info
  
part_of ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in senescence-associated heterochromatin focus ISO
Inferred from Sequence Orthology
more info
  
located_in site of DNA damage ISO
Inferred from Sequence Orthology
more info
  
located_in site of DNA damage ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in spindle ISO
Inferred from Sequence Orthology
more info
  
Preferred Names
chromobox protein homolog 3
Names
HP1 gamma
heterochromatin protein 1 gamma
heterochromatin protein 1 homolog gamma
modifier 2 protein

NEW Try the new Transcript table

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001355002.1 → NP_001341931.1  chromobox protein homolog 3

    Status: VALIDATED

    Source sequence(s)
    AC153877, AC154011
    Consensus CDS
    CCDS20135.1
    UniProtKB/Swiss-Prot
    P23198, Q921C4
    UniProtKB/TrEMBL
    F7CB35, Q9DCC5
    Related
    ENSMUSP00000294904.1, ENSMUST00000516541.1
    Conserved Domains (2) summary
    cd18652
    Location:29 → 78
    CD_HP1gamma_Cbx3; chromodomain of heterochromatin protein 1 homolog gamma
    cd18656
    Location:116 → 173
    CSD_HP1gamma_Cbx3; chromo shadow domain of heterochromatin protein 1 gamma homolog gamma

  2. NM_007624.4 → NP_031650.3  chromobox protein homolog 3

    See identical proteins and their annotated locations for NP_031650.3

    Status: VALIDATED

    Source sequence(s)
    AK002910, AK083957, BC059831, CJ093936
    Consensus CDS
    CCDS20135.1
    UniProtKB/Swiss-Prot
    P23198, Q921C4
    UniProtKB/TrEMBL
    F7CB35, Q9DCC5
    Related
    ENSMUSP00000031862.8, ENSMUST00000031862.15
    Conserved Domains (2) summary
    cd18652
    Location:29 → 78
    CD_HP1gamma_Cbx3; chromodomain of heterochromatin protein 1 homolog gamma
    cd18656
    Location:116 → 173
    CSD_HP1gamma_Cbx3; chromo shadow domain of heterochromatin protein 1 gamma homolog gamma

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    51447596..51460684
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001037798.1: Suppressed sequence

    Description
    NM_001037798.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P23198.2 GenPept UniProtKB/Swiss-Prot:P23198

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