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    Cbx3 chromobox 3 [ Mus musculus (house mouse) ]

    Gene ID: 12417, updated on 9-Dec-2024

    Summary

    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, Dec 2024]
    Expression
    Biased expression in CNS E11.5 (RPKM 59.6), CNS E14 (RPKM 32.1) and 12 other tissues See more
    Orthologs
    NEW
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    Genomic context

    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

    Genomic regions, transcripts, and products

    Expression

    • 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

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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 methyltransferase binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables methylated histone binding IBA
    Inferred from Biological aspect of Ancestor
    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
     
    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 ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in rhythmic process IEA
    Inferred from Electronic Annotation
    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 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 envelope IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_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 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
     

    General protein information

    Preferred Names
    chromobox protein homolog 3
    Names
    HP1 gamma
    heterochromatin protein 1 gamma
    heterochromatin protein 1 homolog gamma
    modifier 2 protein

    NCBI Reference Sequences (RefSeq)

    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_001355002.1NP_001341931.1  chromobox protein homolog 3

      Status: VALIDATED

      Source sequence(s)
      AC153877, AC154011
      Consensus CDS
      CCDS20135.1
      UniProtKB/Swiss-Prot
      P23198, Q921C4
      UniProtKB/TrEMBL
      Q32P00, Q9DCC5
      Conserved Domains (2) summary
      cd18652
      Location:2978
      CD_HP1gamma_Cbx3; chromodomain of heterochromatin protein 1 homolog gamma
      cd18656
      Location:116173
      CSD_HP1gamma_Cbx3; chromo shadow domain of heterochromatin protein 1 gamma homolog gamma
    2. NM_007624.4NP_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
      Q32P00, Q9DCC5
      Related
      ENSMUSP00000031862.8, ENSMUST00000031862.14
      Conserved Domains (2) summary
      cd18652
      Location:2978
      CD_HP1gamma_Cbx3; chromodomain of heterochromatin protein 1 homolog gamma
      cd18656
      Location:116173
      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.