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Cbx1 chromobox 1 [ Mus musculus (house mouse) ]

Gene ID: 12412, updated on 9-Mar-2023

Summary

Official Symbol
Cbx1provided by MGI
Official Full Name
chromobox 1provided by MGI
Primary source
MGI:MGI:105369
See related
Ensembl:ENSMUSG00000018666 AllianceGenome:MGI:105369
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
Cbx; M31; HP1B; MOD1; Cbx-rs2; Hp1beta; E430007M08Rik
Summary
Enables identical protein binding activity. Acts upstream of or within negative regulation of transcription, DNA-templated. Located in chromocenter; pericentric heterochromatin; and pronucleus. Is expressed in several structures, including alimentary system; genitourinary system; integumental system; nervous system; and sensory organ. Orthologous to human CBX1 (chromobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 39.9), CNS E14 (RPKM 17.9) and 27 other tissues See more
Orthologs
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Genomic context

See Cbx1 in Genome Data Viewer
Location:
11 D; 11 60.11 cM
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (96679506..96699808)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (96788680..96808982)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene src family associated phosphoprotein 1 Neighboring gene predicted gene, 38960 Neighboring gene sorting nexin 11 Neighboring gene ubiquitin A-52 residue ribosomal protein fusion product 1 pseudogene Neighboring gene nuclear factor, erythroid derived 2,-like 1 Neighboring gene microRNA 152 Neighboring gene coatomer protein complex, subunit zeta 2

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)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 IPI
Inferred from Physical Interaction
more info
PubMed 
enables methylated histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables molecular adaptor activity ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
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
PubMed 
acts_upstream_of_or_within negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in chromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in chromatin 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
 
colocalizes_with chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
 
located_in female pronucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
located_in male pronucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
is_active_in pericentric heterochromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in pericentric heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
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 1
Names
chromobox homolog 1
heterochromatin protein 1 homolog beta
heterochromatin protein p25
modifier 1 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_001362560.1NP_001349489.1  chromobox protein homolog 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL596384
    Consensus CDS
    CCDS25303.1
    UniProtKB/TrEMBL
    A0A8C6MYG2
    Conserved Domains (2) summary
    cd18650
    Location:2069
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cd18654
    Location:112169
    CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta
  2. NM_001362561.1NP_001349490.1  chromobox protein homolog 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL596384
    Consensus CDS
    CCDS25303.1
    UniProtKB/TrEMBL
    A0A8C6MYG2
    Conserved Domains (2) summary
    cd18650
    Location:2069
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cd18654
    Location:112169
    CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta
  3. NM_001362563.1NP_001349492.1  chromobox protein homolog 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL596384
    Consensus CDS
    CCDS25303.1
    UniProtKB/TrEMBL
    A0A8C6MYG2
    Conserved Domains (2) summary
    cd18650
    Location:2069
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cd18654
    Location:112169
    CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta
  4. NM_001362564.1NP_001349493.1  chromobox protein homolog 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AK017608, AL596384
    Consensus CDS
    CCDS88236.1
    UniProtKB/TrEMBL
    A0A8C6HJJ2, Q9CYJ8
    Related
    ENSMUSP00000078640.4, ENSMUST00000079702.4
    Conserved Domains (2) summary
    pfam00385
    Location:2770
    Chromo; Chromo (CHRromatin Organisation MOdifier) domain
    cl00044
    Location:111139
    ChSh; Chromo Shadow Domain, found in association with N-terminal chromo (CHRromatin Organization MOdifier) domain; Chromo domains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g. ...
  5. NM_007622.4NP_031648.1  chromobox protein homolog 1 isoform 1

    See identical proteins and their annotated locations for NP_031648.1

    Status: VALIDATED

    Source sequence(s)
    AK014215, AL596384
    Consensus CDS
    CCDS25303.1
    UniProtKB/Swiss-Prot
    P83917
    UniProtKB/TrEMBL
    A0A8C6MYG2
    Related
    ENSMUSP00000091475.4, ENSMUST00000093943.10
    Conserved Domains (2) summary
    cd18650
    Location:2069
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cd18654
    Location:112169
    CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta

RNA

  1. NR_155761.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL596384, BC055290
    Related
    ENSMUST00000134585.8

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    96679506..96699808
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017314242.2XP_017169731.1  chromobox protein homolog 1 isoform X1

    UniProtKB/Swiss-Prot
    P83917
    UniProtKB/TrEMBL
    A0A8C6MYG2
    Conserved Domains (2) summary
    cd18650
    Location:2069
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cd18654
    Location:112169
    CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta
  2. XM_006532102.3XP_006532165.1  chromobox protein homolog 1 isoform X2

    UniProtKB/TrEMBL
    A0A6P5QJN3
    Related
    ENSMUSP00000018810.4, ENSMUST00000018810.10
    Conserved Domains (2) summary
    cd18650
    Location:2069
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cl28914
    Location:112137
    CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains

RNA

  1. XR_003949269.1 RNA Sequence

  2. XR_003949267.1 RNA Sequence

  3. XR_003949268.1 RNA Sequence