Cbx5 chromobox 5 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Cbx5provided by MGI
Official Full Name: chromobox 5provided by MGI
Primary source: MGI:MGI:109372
See related: Ensembl:ENSMUSG00000009575 AllianceGenome:MGI:109372
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: HP1; Hp1a; Hp1alpha; 2610029O15Rik
Summary: Enables several functions, including histone deacetylase binding activity; identical protein binding activity; and methylated histone binding activity. Acts upstream of or within negative regulation of DNA-templated transcription. Located in chromocenter; chromosomal region; and nucleolus. Part of histone deacetylase complex; histone methyltransferase complex; and transcription repressor complex. Is expressed in several structures, including alimentary system; early embryo; genitourinary system; nervous system; and sensory organ. Orthologous to human CBX5 (chromobox 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in CNS E11.5 (RPKM 47.5), whole brain E14.5 (RPKM 29.9) and 22 other tissues See more
Orthologs: human all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 15 F3; 15 58.34 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	15	NC_000081.7 (103099973..103148337, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	15	NC_000081.6 (103191546..103239904, complement)

Chromosome 15 - NC_000081.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Unveiling the role of HP1alpha-HDAC1-STAT1 axis as a therapeutic target for HP1alpha-positive intrahepatic cholangiocarcinoma.
Title: Unveiling the role of HP1α-HDAC1-STAT1 axis as a therapeutic target for HP1α-positive intrahepatic cholangiocarcinoma.
HP1 maintains protein stability of H3K9 methyltransferases and demethylases.
Title: HP1 maintains protein stability of H3K9 methyltransferases and demethylases.
Cell adhesion molecule L1 interacts with the chromo shadow domain of heterochromatin protein 1 isoforms alpha, beta, and via its intracellular domain.
Title: Cell adhesion molecule L1 interacts with the chromo shadow domain of heterochromatin protein 1 isoforms α, β, and ɣ via its intracellular domain.
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.
CBX5/G9a/H3K9me-mediated gene repression is essential to fibroblast activation during lung fibrosis.
Title: CBX5/G9a/H3K9me-mediated gene repression is essential to fibroblast activation during lung fibrosis.
Aurora kinase B S92-phosphorylated HP1alpha is generated in cells at early prophase, localizes to centromeres, and associates with regulators of chromosome stability
Title: Aurora kinase B-phosphorylated HP1α functions in chromosomal instability.
We show here that the unstructured hinge domain, necessary for the targeting of HP1alpha to constitutive heterochromatin, recognizes parallel G-quadruplex (G4) assemblies formed by the TElomeric Repeat-containing RNA (TERRA) transcribed from the telomere.
Title: Heterochromatin protein 1α interacts with parallel RNA and DNA G-quadruplexes.
results reveal that ADNP, via the recruitment of HP1 and CHD4, regulates the expression of genes that are crucial for maintaining distinct cellular states and assures accurate cell fate decisions upon external cues
Title: Activity-dependent neuroprotective protein recruits HP1 and CHD4 to control lineage-specifying genes.
HP1-alpha oligomerization is critical to the maintenance of heterochromatin and the tunable dynamics of this HP1 isoform.
Title: Spatiotemporal regulation of Heterochromatin Protein 1-alpha oligomerization and dynamics in live cells.
demonstrate an actin-driven differential modulation of core histone H2B and heterochromatin HP1alpha protein dynamics with chromatin
Title: Actin cytoskeleton differentially alters the dynamics of lamin A, HP1α and H2B core histone proteins to remodel chromatin condensation state in living cells.

Submit: New GeneRIF Correction See all GeneRIFs (36)

Variation

Go to the top of the page Help

Alleles

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

Endonuclease-mediated (6) 1 citation
Gene trapped (3) 1 citation
Targeted (4) 1 citation

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

C75991 (e-PCR)
- UniSTS:160515

NoName (e-PCR)
- UniSTS:237402

UniSTS:237404 (e-PCR)
- UniSTS:237404

RH139087 (e-PCR)
- UniSTS:221173

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 chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables histone deacetylase binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
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 methylated histone binding	IPI Inferred from Physical Interaction more info	PubMed
enables methylated histone binding	ISO Inferred from Sequence Orthology more info
enables methylated histone binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein-macromolecule adaptor activity	IPI Inferred from Physical Interaction more info	PubMed
enables ribonucleoprotein complex binding	ISO Inferred from Sequence Orthology more info
enables ribonucleoprotein complex binding	ISS Inferred from Sequence or Structural Similarity 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
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	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in PML body	IEA Inferred from Electronic Annotation more info
colocalizes_with PML body	ISO Inferred from Sequence Orthology more info
located_in chromocenter	IDA Inferred from Direct Assay more info	PubMed
located_in chromosome, telomeric region	IDA Inferred from Direct Assay more info	PubMed
located_in heterochromatin	IDA Inferred from Direct Assay more info	PubMed
part_of histone deacetylase complex	IDA Inferred from Direct Assay more info	PubMed
part_of histone methyltransferase complex	IDA Inferred from Direct Assay more info	PubMed
located_in kinetochore	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity 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
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
part_of ribonucleoprotein complex	ISS Inferred from Sequence or Structural Similarity 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
part_of transcription repressor complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: chromobox protein homolog 5

Names: HP1 alpha; chromobox homolog 5; heterochromatin protein 1 alpha; heterochromatin protein 1 homolog alpha; mHP1(alpha)

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)

NM_001076789.2 → NP_001070257.1 chromobox protein homolog 5

See identical proteins and their annotated locations for NP_001070257.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3 and 4 encode the same protein.

Source sequence(s)

AC162693, AC164069

Consensus CDS

CCDS37231.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Related

ENSMUSP00000113157.2, ENSMUST00000118152.8

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
NM_001110216.1 → NP_001103686.1 chromobox protein homolog 5

See identical proteins and their annotated locations for NP_001103686.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3 and 4 encode the same protein.

Source sequence(s)

AC162693, AC164069, AK030366, AK030442, BM247903

Consensus CDS

CCDS37231.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Related

ENSMUSP00000113158.2, ENSMUST00000122182.2

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
NM_001358950.1 → NP_001345879.1 chromobox protein homolog 5

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3 and 4 encode the same protein.

Source sequence(s)

AC162693, AC164069

Consensus CDS

CCDS37231.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
NM_007626.3 → NP_031652.1 chromobox protein homolog 5

See identical proteins and their annotated locations for NP_031652.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the same protein as variants 2, 3 and 4.

Source sequence(s)

AC162693, AC164069

Consensus CDS

CCDS37231.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Related

ENSMUSP00000104441.4, ENSMUST00000108813.10

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha

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

NC_000081.7 Reference GRCm39 C57BL/6J

Range

103099973..103148337 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006520372.5 → XP_006520435.1 chromobox protein homolog 5 isoform X1

See identical proteins and their annotated locations for XP_006520435.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
XM_006520374.4 → XP_006520437.1 chromobox protein homolog 5 isoform X1

See identical proteins and their annotated locations for XP_006520437.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
XM_006520376.4 → XP_006520439.1 chromobox protein homolog 5 isoform X1

See identical proteins and their annotated locations for XP_006520439.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
XM_030248308.2 → XP_030104168.1 chromobox protein homolog 5 isoform X1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
XM_006520375.5 → XP_006520438.1 chromobox protein homolog 5 isoform X1

See identical proteins and their annotated locations for XP_006520438.1

UniProtKB/Swiss-Prot

Q61686, Q9CS35, Q9CXD1

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cd18655
Location:116 → 173

CSD_HP1alpha_Cbx5; chromo shadow domain of heterochromatin protein 1 homolog alpha
XM_006520377.3 → XP_006520440.1 chromobox protein homolog 5 isoform X2

Conserved Domains (2) summary

cd18651
Location:19 → 68

CD_HP1alpha_Cbx5; chromodomain of heterochromatin protein 1 homolog alpha

cl28914
Location:116 → 142

CD_CSD; CHROMO (CHRromatin Organization Modifier) domains and chromo shadow domains