Vamp4 MGI Mouse Gene Detail - MGI:1858730 - vesicle-associated membrane protein 4

Symbol

Vamp4
Name

vesicle-associated membrane protein 4
Synonyms

D1Ertd147e

Feature Type

protein coding gene
IDs

MGI:1858730
NCBI Gene: 53330
Alliance

gene page
Transcription Start Sites

6 TSS

Sequence Map

Chr1:162398084-162426651 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 70.29 cM, cytoband H1
Mapping Data

4 experiments

SNPs within 2kb

871 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1858730	protein coding gene	Chr1:162398084-162426653 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0016660	protein coding gene	Chr1:167906785-167935575 (+)
A/J	MGP_AJ_G0016641	protein coding gene	Chr1:161071132-161099987 (+)
AKR/J	MGP_AKRJ_G0016607	protein coding gene	Chr1:165952993-165984150 (+)
BALB/cJ	MGP_BALBcJ_G0016602	protein coding gene	Chr1:161601659-161631088 (+)
C3H/HeJ	MGP_C3HHeJ_G0016426	protein coding gene	Chr1:166164399-166192783 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0017063	protein coding gene	Chr1:173563960-173594715 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014772	protein coding gene	Chr1:153128104-153158653 (+)
CAST/EiJ	MGP_CASTEiJ_G0016006	protein coding gene	Chr1:165814041-165844004 (+)
CBA/J	MGP_CBAJ_G0016401	protein coding gene	Chr1:179743121-179774486 (+)
DBA/2J	MGP_DBA2J_G0016507	protein coding gene	Chr1:160018792-160047611 (+)
FVB/NJ	MGP_FVBNJ_G0016505	protein coding gene	Chr1:158445700-158474081 (+)
LP/J	MGP_LPJ_G0016578	protein coding gene	Chr1:169033391-169063910 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0016530	protein coding gene	Chr1:187258038-187287370 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0017099	protein coding gene	Chr1:165789142-165818454 (+)
PWK/PhJ	MGP_PWKPhJ_G0015792	protein coding gene	Chr1:159193636-159222762 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0015579	protein coding gene	Chr1:164678124-164699340 (+)
WSB/EiJ	MGP_WSBEiJ_G0016068	protein coding gene	Chr1:165971965-166000332 (+)

Human Ortholog

VAMP4, vesicle associated membrane protein 4

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

VAMP4, vesicle associated membrane protein 4
Synonyms

VAMP24, VAMP-4
Links

HGNC:12645

NCBI Gene ID: 8674

neXtProt AC: NX_O75379

UniProt: O75379
Chr Location

1q24.3; chr1:171700160-171742074 (-) GRCh38

MGI Vertebrate Homology

Vamp4 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: VAMP4
Gene Tree

Vamp4

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Phenotype Summary

22 phenotypes from 2 alleles in 2 genetic backgrounds
12 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

15
Chemically induced (other)

2
Endonuclease-mediated

4
Gene trapped

9
Genomic Mutations

2 involving Vamp4
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

17 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele display increased insulin in pancreas beta cells and improved glucose tolerance.

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All GO Annotations

18
GO References

11

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

712
Tissues

6
cDNA Data

13
Literature Summary

4

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase vamp4

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All Sequences

59
RefSeq

8
UniProt

3
CCDS

CCDS15421.1, CCDS83616.1

Ensembl

ENSMUSG00000026696 (Evidence)
NCBI Gene

53330

			Length	Strain/Species	Flank
genomic	53330	NCBI Gene Model \| MGI Sequence Detail	28568	C57BL/6J	± kb
transcript	NM_001356527	RefSeq \| MGI Sequence Detail	5253	ZRU/MplStud
polypeptide	O70480	UniProt \| EBI \| MGI Sequence Detail	141	Not Applicable

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UniProt

3 Sequences
Protein Ontology

PR:000017251 vesicle-associated membrane protein 4

(term hierarchy)
PDB

2NPS
InterPro Domains

IPR001388 Synaptobrevin-like

IPR042887 Vesicle-associated membrane protein 4

IPR042855 v-SNARE, coiled-coil homology domain

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All nucleic 14

cDNA 13

Primer pair 1

Microarray probesets 7

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MGI:1098701

Summaries

All 52

Developmental Gene Expression 4

Gene Ontology 11

Phenotypes 12
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 Vamp4:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr9715	Chr1:162398166-162398225 (+)	112 bp
Tssr9716	Chr1:162398236-162398241 (+)	155 bp
Tssr9717	Chr1:162398256-162398324 (+)	206 bp
Tssr9718	Chr1:162399197-162399210 (+)	1,120 bp
Tssr9719	Chr1:162409376-162409408 (+)	11,308 bp
Tssr9720	Chr1:162415775-162415786 (+)	17,697 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 11/12/2024 MGI 6.24