U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Cbx1 chromobox 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 360609, updated on 18-Sep-2024

Summary

Go to the top of the page Help
Official Symbol
Cbx1provided by RGD
Official Full Name
chromobox 1provided by RGD
Primary source
RGD:1310714
See related
EnsemblRapid:ENSRNOG00000008689 AllianceGenome:RGD:1310714
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including histone methyltransferase binding activity; identical protein binding activity; and methylated histone binding activity. Predicted to be involved in cellular response to DNA damage stimulus; chromatin organization; and negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within negative regulation of transcription, DNA-templated. Predicted to be located in several cellular components, including chromocenter; chromosome; and pronucleus. Predicted to be active in pericentric heterochromatin. Predicted to colocalize with chromosome, telomeric region. Orthologous to human CBX1 (chromobox 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 331.2), Lung (RPKM 176.8) and 9 other tissues See more
Orthologs
human mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Cbx1 in Genome Data Viewer
Location:
10q31
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (82266746..82286431)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (81770307..81789981)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (84656698..84677112)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene sorting nexin 11 Neighboring gene uncharacterized LOC134480860 Neighboring gene NFE2 like bZIP transcription factor 1 Neighboring gene uncharacterized LOC120095287

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. The heterochromatin protein 1 family is regulated in prostate development and cancer. Shapiro E, et al. J Urol, 2008 Jun. PMID 18436254
  2. Methylation-independent binding to histone H3 and cell cycle-dependent incorporation of HP1beta into heterochromatin. Dialynas GK, et al. J Biol Chem, 2006 May 19. PMID 16547356
  3. A mammalian homologue of Drosophila heterochromatin protein 1 (HP1) is a component of constitutive heterochromatin. Wreggett KA, et al. Cytogenet Cell Genet, 1994. PMID 8287692
  4. Asymmetry in histone H3 variants and lysine methylation between paternal and maternal chromatin of the early mouse zygote. van der Heijden GW, et al. Mech Dev, 2005 Sep. PMID 15922569
  5. Binding of EMSY to HP1beta: implications for recruitment of HP1beta and BS69. Ekblad CM, et al. EMBO Rep, 2005 Jul. PMID 15947784, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. analysis of methylation-independent binding to histone H3 and cell cycle-dependent incorporation of HP1beta into heterochromatin
    Title: Methylation-independent binding to histone H3 and cell cycle-dependent incorporation of HP1beta into heterochromatin.
Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
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
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in heterochromatin formation IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in chromocenter ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome, centromeric region ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
  
located_in female pronucleus ISO
Inferred from Sequence Orthology
more info
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
located_in male pronucleus ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
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 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

Go to the top of the page Help
Preferred Names
chromobox protein homolog 1
Names
chromobox homolog 1 (HP1 beta homolog Drosophila )

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_001398806.1 → NP_001385735.1  chromobox protein homolog 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010
    UniProtKB/TrEMBL
    A6HIG4
    Conserved Domains (2) summary
    cd18650
    Location:20 → 69
    CD_HP1beta_Cbx1; chromodomain of heterochromatin protein 1 homolog beta
    cd18654
    Location:112 → 169
    CSD_HP1beta_Cbx1; chromo shadow domain of heterochromatin protein 1 homolog beta

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    82266746..82286431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006247233.5 → XP_006247295.1  chromobox protein homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006247295.1

    UniProtKB/TrEMBL
    A0A8I5ZM96
    Related
    ENSRNOP00000078867.1, ENSRNOT00000094691.2
    Conserved Domains (2) summary
    pfam00385
    Location:27 → 70
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam01393
    Location:126 → 177
    Chromo_shadow; Chromo shadow domain

  2. XM_006247234.5 → XP_006247296.1  chromobox protein homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006247296.1

    UniProtKB/TrEMBL
    A0A8I5ZM96
    Conserved Domains (2) summary
    pfam00385
    Location:27 → 70
    Chromo; Chromo (CHRromatin Organization MOdifier) domain
    pfam01393
    Location:126 → 177
    Chromo_shadow; Chromo shadow domain

  3. XM_063269417.1 → XP_063125487.1  chromobox protein homolog 1 isoform X2

    UniProtKB/TrEMBL
    A6HIG4
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools