Cbx3 MGI Mouse Gene Detail - MGI:108515

Symbol

Cbx3
Name

chromobox 3
Synonyms

heterochromatin protein 1 gamma, HP1g, M32

Feature Type

protein coding gene
IDs

MGI:108515
NCBI Gene: 12417
Alliance

gene page
Transcription Start Sites

13 TSS

Sequence Map

Chr6:51447596-51460684 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 6, 24.89 cM, cytoband B-C
Mapping Data

3 experiments

SNPs within 2kb

374 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_108515	protein coding gene	Chr6:51447340-51460684 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0030735	protein coding gene	Chr6:50658761-50671328 (+)
A/J	MGP_AJ_G0030705	protein coding gene	Chr6:48294982-48306972 (+)
AKR/J	MGP_AKRJ_G0030631	protein coding gene	Chr6:49977573-49990824 (+)
BALB/cJ	MGP_BALBcJ_G0030716	protein coding gene	Chr6:48651997-48662667 (+)
C3H/HeJ	MGP_C3HHeJ_G0030430	protein coding gene	Chr6:49995148-50005990 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0031171	protein coding gene	Chr6:51781129-51795069 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028378	protein coding gene	Chr6:45965627-45978860 (+)
CAST/EiJ	MGP_CASTEiJ_G0029832	protein coding gene	Chr6:49762646-49781030 (+)
CBA/J	MGP_CBAJ_G0030403	protein coding gene	Chr6:53950906-53962790 (+)
DBA/2J	MGP_DBA2J_G0030553	protein coding gene	Chr6:48217844-48230128 (+)
FVB/NJ	MGP_FVBNJ_G0030505	protein coding gene	Chr6:47836350-47849268 (+)
LP/J	MGP_LPJ_G0030638	protein coding gene	Chr6:50628011-50642079 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030539	protein coding gene	Chr6:56609405-56623394 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0031201	protein coding gene	Chr6:49895952-49909624 (+)
PWK/PhJ	MGP_PWKPhJ_G0029545	protein coding gene	Chr6:47820754-47833089 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0029380	protein coding gene	Chr6:49238200-49251324 (+)
WSB/EiJ	MGP_WSBEiJ_G0029909	protein coding gene	Chr6:49884224-49909107 (+)

Human Ortholog

CBX3, chromobox 3

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CBX3, chromobox 3
Synonyms

HECH, HP1-GAMMA, HP1gamma, HP1Hs-gamma
Links

HGNC:1553

NCBI Gene ID: 11335

neXtProt AC: NX_Q13185

UniProt: Q13185
Chr Location

7p15.2; chr7:26201162-26213607 (+) GRCh38

MGI Vertebrate Homology

Cbx3 stringent orthology
1 human;1 mouse;2 rat;1 zebrafish
HCOP

vertebrate homology predictions: CBX3
Gene Tree

Cbx3

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Phenotype Summary

10 phenotypes from 3 alleles in 3 genetic backgrounds
19 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

70
Endonuclease-mediated

4
Gene trapped

61
Targeted

5
Incidental Mutations

APF
Find Mice (IMSR)

61 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a gene trap allele are infertile. Mice homozygous for a hypomorphic targeted allele exhibit partial postnatal lethality and male infertility.

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All GO Annotations

43
GO References

18

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

878
Tissues

157
cDNA Data

14
Literature Summary

23

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA CBX3

Xenbase cbx3

ZFIN cbx3a

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All Sequences

63
RefSeq

4
UniProt

6
CCDS

CCDS20135.1

Ensembl

ENSMUSG00000029836 (Evidence)
NCBI Gene

12417

			Length	Strain/Species	Flank
genomic	12417	NCBI Gene Model \| MGI Sequence Detail	13089	C57BL/6J	± kb
transcript	NM_001355002	RefSeq \| MGI Sequence Detail	1938	ZRU/MplStud
polypeptide	P23198	UniProt \| EBI \| MGI Sequence Detail	183	Not Applicable

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UniProt

6 Sequences
Protein Ontology

PR:000005084 chromobox protein homolog 3

(term hierarchy)
InterPro Domains

IPR038033 Chromobox protein homologue 3, chromo domain

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

P23198 1 site, 1 O-linked glycan (1 site)

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All nucleic 20

cDNA 17

Primer pair 3

Microarray probesets 13

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MGD-MRK-37559

Summaries

All 97

Developmental Gene Expression 23

Gene Ontology 18

Phenotypes 19
Earliest

J:32398 Singh PB, et al., A sequence motif found in a Drosophila heterochromatin protein is conserved in animals and plants. Nucleic Acids Res. 1991 Feb 25;19(4):789-94
Latest

J:347430 Higashiyama M, et al., Oral bacteria induce IgA autoantibodies against a mesangial protein in IgA nephropathy model mice. Life Sci Alliance. 2024 Apr;7(4)

TSS for Cbx3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr56443	Chr6:51446408-51446442 (+)	-1,171 bp
Tssr56444	Chr6:51447163-51447197 (+)	-416 bp
Tssr56445	Chr6:51447319-51447330 (+)	-271 bp
Tssr56446	Chr6:51447385-51447396 (+)	-205 bp
Tssr56447	Chr6:51447401-51447410 (+)	-190 bp
Tssr56448	Chr6:51447413-51447458 (+)	-160 bp
Tssr56449	Chr6:51447474-51447477 (+)	-120 bp
Tssr56450	Chr6:51447490-51447508 (+)	-97 bp
Tssr56451	Chr6:51447527-51447541 (+)	-62 bp
Tssr56452	Chr6:51447588-51447600 (+)	-2 bp
Tssr56453	Chr6:51447613-51447653 (+)	37 bp
Tssr56454	Chr6:51454455-51454458 (+)	6,861 bp
Tssr56455	Chr6:51459972-51459981 (+)	12,381 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)
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