Chmp3 MGI Mouse Gene Detail - MGI:1913950 - charged multivesicular body protein 3

Symbol

Chmp3
Name

charged multivesicular body protein 3
Synonyms

25.1, 4921505F14Rik, 9130011K15Rik, CGI-49, D6Ertd286e, Vps24

Feature Type

protein coding gene
IDs

MGI:1913950
NCBI Gene: 66700
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr6:71520820-71559593 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 6, 32.17 cM, cytoband C3
Mapping Data

6 experiments

SNPs within 2kb

783 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1913950	protein coding gene	Chr6:71520781-71559593 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0030860	protein coding gene	Chr6:72027069-72068257 (+)
A/J	MGP_AJ_G0030830	protein coding gene	Chr6:69256237-69295024 (+)
AKR/J	MGP_AKRJ_G0030759	protein coding gene	Chr6:71269366-71303479 (+)
BALB/cJ	MGP_BALBcJ_G0030841	protein coding gene	Chr6:69290908-69329804 (+)
C3H/HeJ	MGP_C3HHeJ_G0030871	protein coding gene	Chr6:112947110-112984986 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0031299	protein coding gene	Chr6:73926580-73973715 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0028488	protein coding gene	Chr6:68446324-68481531 (+)
CAST/EiJ	MGP_CASTEiJ_G0029949	protein coding gene	Chr6:71113729-71157935 (+)
CBA/J	MGP_CBAJ_G0030528	protein coding gene	Chr6:76876443-76921291 (+)
DBA/2J	MGP_DBA2J_G0030680	protein coding gene	Chr6:68642540-68681499 (+)
FVB/NJ	MGP_FVBNJ_G0030633	protein coding gene	Chr6:68000700-68038561 (+)
LP/J	MGP_LPJ_G0030759	protein coding gene	Chr6:71953013-71991740 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0030668	protein coding gene	Chr6:80363679-80399973 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0031325	protein coding gene	Chr6:71092084-71133747 (+)
PWK/PhJ	MGP_PWKPhJ_G0029665	protein coding gene	Chr6:67519225-67557449 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0029493	protein coding gene	Chr6:69792252-69856007 (+)
WSB/EiJ	MGP_WSBEiJ_G0030031	protein coding gene	Chr6:71442312-71487835 (+)

Human Ortholog

CHMP3, charged multivesicular body protein 3

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

CHMP3, charged multivesicular body protein 3
Synonyms

CGI-149, NEDF, VPS24
Links

HGNC:29865

NCBI Gene ID: 51652

neXtProt AC: NX_Q9Y3E7

UniProt: Q9Y3E7
Chr Location

2p11.2; chr2:86503430-86563479 (-) GRCh38

Human Ortholog

RNF103-CHMP3, RNF103-CHMP3 readthrough
Synonyms

CGI149, CHMP3, hVps24, NEDF, RNF103-VPS24, VPS24
Links

HGNC:38847

NCBI Gene ID: 100526767

neXtProt AC: NX_Q9Y3E7
Chr Location

2p11.2; chr2:86503430-86721122 (-) GRCh38

MGI Vertebrate Homology

Chmp3 stringent orthology
2 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: CHMP3, RNF103-CHMP3
Gene Tree

Chmp3

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Phenotype Summary

5 phenotypes from 1 allele in 1 genetic background
14 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

16
Endonuclease-mediated

2
Gene trapped

10
Spontaneous

1
Targeted

3
Genomic Mutations

1 involving Chmp3
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

18 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

67
GO References

9

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

728
Tissues

11
cDNA Data

137
Literature Summary

2

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase chmp3

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All Sequences

68
RefSeq

14
UniProt

5
CCDS

CCDS20232.1

Ensembl

ENSMUSG00000053119 (Evidence)
NCBI Gene

66700

			Length	Strain/Species	Flank
genomic	66700	NCBI Gene Model \| MGI Sequence Detail	38774	C57BL/6J	± kb
transcript	NM_001355674	RefSeq \| MGI Sequence Detail	2722	ZRU/MplStud
polypeptide	Q9CQ10	UniProt \| EBI \| MGI Sequence Detail	224	Not Applicable

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UniProt

5 Sequences
Protein Ontology

PR:000017325 charged multivesicular body protein 3

(term hierarchy)
InterPro Domains

IPR005024 Snf7 family

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All nucleic 139

cDNA 137

Primer pair 2

Microarray probesets 6

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MGI:1098712, MGI:1914070

Summaries

All 50

Developmental Gene Expression 2

Gene Ontology 9

Phenotypes 14
Earliest

J:60984 Ko MS, et al., Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Development. 2000 Apr;127(8):1737-49
Latest

J:345621 Adams DJ, et al., Genetic determinants of micronucleus formation in vivo. Nature. 2024 Mar;627(8002):130-136

TSS for Chmp3:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr57031	Chr6:71520827-71520852 (+)	20 bp
Tssr57032	Chr6:71520855-71520882 (+)	49 bp
Tssr57033	Chr6:71520884-71520941 (+)	93 bp
Tssr57034	Chr6:71520959-71520970 (+)	145 bp
Tssr57035	Chr6:71521326-71521351 (+)	519 bp
Tssr57036	Chr6:71522217-71522224 (+)	1,401 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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