Vamp2 MGI Mouse Gene Detail - MGI:1313277 - vesicle-associated membrane protein 2

Symbol

Vamp2
Name

vesicle-associated membrane protein 2
Synonyms

Syb-2, Syb2, sybII, synaptobrevin-2, synaptobrevin II

Feature Type

protein coding gene
IDs

MGI:1313277
NCBI Gene: 22318
Alliance

gene page
Transcription Start Sites

28 TSS

Sequence Map

Chr11:68979354-68983207 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 42.36 cM

SNPs within 2kb

158 from dbSNP Build 142
Strain Annotations

18
PCR

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1313277	protein coding gene	Chr11:68979316-68983210 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0018517	protein coding gene	Chr11:69493874-69497753 (+)
A/J	MGP_AJ_G0018486	protein coding gene	Chr11:66879577-66883471 (+)
AKR/J	MGP_AKRJ_G0018455	protein coding gene	Chr11:68883452-68887346 (+)
BALB/cJ	MGP_BALBcJ_G0018457	protein coding gene	Chr11:67201525-67205419 (+)
C3H/HeJ	MGP_C3HHeJ_G0018270	protein coding gene	Chr11:68900116-68904010 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0018909	protein coding gene	Chr11:71604743-71608637 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0016553	protein coding gene	Chr11:63819907-63823803 (+)
CAST/EiJ	MGP_CASTEiJ_G0017826	protein coding gene	Chr11:69137367-69141272 (+)
CBA/J	MGP_CBAJ_G0018244	protein coding gene	Chr11:74815589-74819483 (+)
DBA/2J	MGP_DBA2J_G0018353	protein coding gene	Chr11:66478817-66482709 (+)
FVB/NJ	MGP_FVBNJ_G0018343	protein coding gene	Chr11:66100291-66104185 (+)
LP/J	MGP_LPJ_G0018424	protein coding gene	Chr11:70080984-70084863 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0018366	protein coding gene	Chr11:75441929-75445823 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0018950	protein coding gene	Chr11:69128712-69132606 (+)
PWK/PhJ	MGP_PWKPhJ_G0017601	protein coding gene	Chr11:67115506-67119397 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0017389	protein coding gene	Chr11:68961683-68965591 (+)
WSB/EiJ	MGP_WSBEiJ_G0017879	protein coding gene	Chr11:68768760-68772661 (+)

Human Ortholog

VAMP2, vesicle associated membrane protein 2

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

VAMP2, vesicle associated membrane protein 2
Synonyms

NEDHAHM, SYB2, VAMP-2
Links

HGNC:12643

NCBI Gene ID: 6844

neXtProt AC: NX_P63027

UniProt: P63027
Chr Location

17p13.1; chr17:8159147-8163546 (-) GRCh38

MGI Vertebrate Homology

Vamp2 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: VAMP2
Protein SuperFamily

Synaptobrevin_euk
Gene Tree

Vamp2

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Phenotype Summary

17 phenotypes from 4 alleles in 6 genetic backgrounds
11 phenotypes from multigenic genotypes
47 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

13
Chemically induced (ENU)

1
Chemically induced (other)

1
Endonuclease-mediated

4
Gene trapped

1
Targeted

5
Transgenic

1
Genomic Mutations

1 involving Vamp2
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

20 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Homozygous null mutants show 10X reduction in synaptic vesicle fusion and hypertonic sucrose-induced fusion and >100X reduction in fusion triggered by fast Ca2+. Newborn pups are rounded in appearance, with humped shoulders, and die immediately.

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All GO Annotations

113
GO References

47

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

934
Tissues

187
cDNA Data

134
Literature Summary

41

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

Xenbase vamp2

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All Sequences

43
RefSeq

2
UniProt

5
CCDS

CCDS24881.1

Ensembl

ENSMUSG00000020894 (Evidence)
NCBI Gene

22318

			Length	Strain/Species	Flank
genomic	22318	NCBI Gene Model \| MGI Sequence Detail	3854	C57BL/6J	± kb
transcript	NM_009497	RefSeq \| MGI Sequence Detail	2164	C57BL/6
polypeptide	P63044	UniProt \| EBI \| MGI Sequence Detail	116	Not Applicable

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UniProt

5 Sequences
Protein Ontology

PR:000017249 vesicle-associated membrane protein 2

(term hierarchy)
InterPro Domains

IPR001388 Synaptobrevin-like

IPR016444 Synaptobrevin/Vesicle-associated membrane protein

IPR042855 v-SNARE, coiled-coil homology domain
GlyGen

P63044 3 sites, 1 N-linked glycan (1 site), 1 O-linked glycan (2 sites)

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All nucleic 137

cDNA 134

Primer pair 2

Other 1

Microarray probesets 5

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MGD-MRK-14676, MGD-MRK-14678, MGI:98459

Summaries

All 180

Developmental Gene Expression 41

Gene Ontology 47

Phenotypes 47
Earliest

J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
Latest

J:350006 Liu H, et al., VAMP2 controls murine epidermal differentiation and carcinogenesis by regulation of nucleophagy. Dev Cell. 2024 May 22;

TSS for Vamp2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr102377	Chr11:68979308-68979319 (+)	-40 bp
Tssr102378	Chr11:68979341-68979379 (+)	6 bp
Tssr3539	Chr11:68979432-68979433 (+)	79 bp
Tssr102379	Chr11:68979967-68979988 (+)	624 bp
Tssr102380	Chr11:68980569-68980590 (+)	1,226 bp
Tssr102381	Chr11:68980594-68980638 (+)	1,262 bp
Tssr102382	Chr11:68980782-68980823 (+)	1,449 bp
Tssr102383	Chr11:68981501-68981504 (+)	2,149 bp
Tssr102384	Chr11:68981518-68981583 (+)	2,197 bp
Tssr102385	Chr11:68981590-68981643 (+)	2,263 bp
Tssr102386	Chr11:68981656-68981667 (+)	2,308 bp
Tssr102387	Chr11:68981669-68981685 (+)	2,323 bp
Tssr102388	Chr11:68981686-68981698 (+)	2,338 bp
Tssr102389	Chr11:68981702-68981723 (+)	2,359 bp
Tssr102390	Chr11:68981729-68981755 (+)	2,388 bp
Tssr102391	Chr11:68981767-68981776 (+)	2,418 bp
Tssr102392	Chr11:68981815-68981835 (+)	2,471 bp
Tssr102393	Chr11:68981847-68981864 (+)	2,502 bp
Tssr102394	Chr11:68981881-68981892 (+)	2,533 bp
Tssr102395	Chr11:68981935-68981942 (+)	2,585 bp
Tssr102396	Chr11:68981954-68981959 (+)	2,603 bp
Tssr102397	Chr11:68981999-68982004 (+)	2,648 bp
Tssr3540	Chr11:68982048-68982057 (+)	2,699 bp
Tssr102398	Chr11:68982242-68982249 (+)	2,892 bp
Tssr102399	Chr11:68982271-68982276 (+)	2,920 bp
Tssr3541	Chr11:68982285-68982292 (+)	2,935 bp
Tssr102400	Chr11:68982314-68982324 (+)	2,965 bp
Tssr102401	Chr11:68982334-68982347 (+)	2,987 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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