Cbx5 MGI Mouse Gene Detail - MGI:109372

Symbol

Cbx5
Name

chromobox 5
Synonyms

2610029O15Rik, heterochromatin protein 1 alpha, HP1, Hp1a, HP1a, Hp1alpha

Feature Type

protein coding gene
IDs

MGI:109372
NCBI Gene: 12419
Alliance

gene page
Transcription Start Sites

10 TSS

Sequence Map

Chr15:103099971-103148243 bp, - strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 15, 58.34 cM
Mapping Data

2 experiments

SNPs within 2kb

766 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_109372	protein coding gene	Chr15:103099971-103148337 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0022434	protein coding gene	Chr15:105436307-105491911 (-)
A/J	MGP_AJ_G0022396	protein coding gene	Chr15:101272629-101322404 (-)
AKR/J	MGP_AKRJ_G0022371	protein coding gene	Chr15:104344905-104394098 (-)
BALB/cJ	MGP_BALBcJ_G0022400	protein coding gene	Chr15:101319149-101368491 (-)
C3H/HeJ	MGP_C3HHeJ_G0022167	protein coding gene	Chr15:104432800-104488291 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0022849	protein coding gene	Chr15:109328742-109379505 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0020372	protein coding gene	Chr15:97039302-97085408 (-)
CAST/EiJ	MGP_CASTEiJ_G0021693	protein coding gene	Chr15:105305840-105360202 (-)
CBA/J	MGP_CBAJ_G0022136	protein coding gene	Chr15:113171386-113230382 (-)
DBA/2J	MGP_DBA2J_G0022267	protein coding gene	Chr15:100543270-100594824 (-)
FVB/NJ	MGP_FVBNJ_G0022243	protein coding gene	Chr15:99610072-99659157 (-)
LP/J	MGP_LPJ_G0022336	protein coding gene	Chr15:105577750-105639209 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0022265	protein coding gene	Chr15:116683999-116732984 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0022861	protein coding gene	Chr15:104388193-104438209 (-)
PWK/PhJ	MGP_PWKPhJ_G0021433	protein coding gene	Chr15:100726123-100776328 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0021265	protein coding gene	Chr15:104222973-104274361 (-)
WSB/EiJ	MGP_WSBEiJ_G0021743	protein coding gene	Chr15:105005507-105056124 (-)

Human Ortholog

CBX5, chromobox 5

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CBX5, chromobox 5
Synonyms

HEL25, HP1, HP1A, HP1alpha
Links

HGNC:1555

NCBI Gene ID: 23468

neXtProt AC: NX_P45973

UniProt: P45973
Chr Location

12q13.13; chr12:54230942-54280133 (-) GRCh38

MGI Vertebrate Homology

Cbx5 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CBX5
Gene Tree

Cbx5

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Phenotype Summary

9 phenotypes from 4 alleles in 3 genetic backgrounds
1 phenotype from multigenic genotypes
25 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

922
Endonuclease-mediated

6
Gene trapped

910
Targeted

6
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

414 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a mutation of this gene are viable and fertile and exhibit no apparent physical or behavioral abnormality.

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All GO Annotations

57
GO References

23

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

919
Tissues

157
cDNA Data

23
Literature Summary

19

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

Xenbase cbx5

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All Sequences

73
RefSeq

20
UniProt

2
CCDS

CCDS37231.1

Ensembl

ENSMUSG00000009575 (Evidence)
NCBI Gene

12419

			Length	Strain/Species	Flank
genomic	ENSMUSG00000009575	Ensembl Gene Model \| MGI Sequence Detail	48273	C57BL/6J	± kb
transcript	ENSMUST00000118152	Ensembl \| MGI Sequence Detail	8803	Not Applicable
polypeptide	ENSMUSP00000113157	Ensembl \| MGI Sequence Detail	191	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000005086 chromobox protein homolog 5

(term hierarchy)
PDB

2RVL, 2RVM, 2RVN
InterPro Domains

IPR000953 Chromo/chromo shadow domain

IPR023780 Chromo domain

IPR023779 Chromo domain, conserved site

IPR017984 Chromo domain subgroup

IPR016197 Chromo-like domain superfamily

IPR008251 Chromo shadow domain

IPR051219 Heterochromatin-associated chromo domain-containing protein
GlyGen

Q61686 1 site, 1 O-linked glycan (1 site)

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All nucleic 32

Genomic 1

cDNA 24

Primer pair 6

Other 1

Microarray probesets 10

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MGD-MRK-38417, MGI:1923790, MGI:2146269

Summaries

All 111

Developmental Gene Expression 19

Gene Ontology 23

Phenotypes 25
Earliest

J:79478 Friedrich G, et al., Promoter traps in embryonic stem cells: a genetic screen to identify and mutate developmental genes in mice. Genes Dev. 1991 Sep;5(9):1513-23
Latest

J:347585 Leon NY, et al., Y chromosome damage underlies testicular abnormalities in ATR-X syndrome. iScience. 2024 May 17;27(5):109629

TSS for Cbx5:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr136735	Chr15:103149175-103149185 (-)	-937 bp
Tssr136734	Chr15:103148239-103148315 (-)	-34 bp
Tssr136733	Chr15:103148224-103148233 (-)	14 bp
Tssr136732	Chr15:103124688-103124712 (-)	23,543 bp
Tssr136731	Chr15:103123712-103123788 (-)	24,493 bp
Tssr136730	Chr15:103123545-103123563 (-)	24,689 bp
Tssr136729	Chr15:103121663-103121679 (-)	26,572 bp
Tssr136728	Chr15:103108049-103108064 (-)	40,186 bp
Tssr136727	Chr15:103105232-103105251 (-)	43,001 bp
Tssr136726	Chr15:103101807-103101811 (-)	46,434 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 12/10/2024 MGI 6.24