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Cbx3 chromobox 3 [ Mus musculus (house mouse) ]

Gene ID: 12417, updated on 5-Mar-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 transcription cis-regulatory region binding activity. Acts upstream of or within negative regulation of transcription, DNA-templated. 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, Apr 2022]
Expression
Biased expression in CNS E11.5 (RPKM 59.6), CNS E14 (RPKM 32.1) and 12 other tissues See more
Orthologs
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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 chromatin organization IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within chromatin organization IEA
Inferred from Electronic Annotation
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 negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within 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
 
part_of chromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of 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 
part_of euchromatin ISO
Inferred from Sequence Orthology
more info
 
part_of heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of 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
 
part_of pericentric heterochromatin IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of pericentric heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
part_of 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 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)

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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.