Gene Report

Basic information

Related studies

Functional annotation

Related other genetic factors

Overlap with SZ and MDD

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Basic Info

Approved Symbol	VAMP2
Previous Symbol	SYB2
Symbol Alias	VAMP-2
Approved Name	vesicle-associated membrane protein 2 (synaptobrevin 2)
Location	17p13.1
Position	chr17:8159149-8163546, -1
External Links	HGNC: 12643 Entrez Gene: 6844 Ensembl: ENSG00000220205 UCSC: uc010cnt.1
No. of Studies	1 (Positive: 1; Negative: 0; trend: 0)
Overlap with SZ?	YES
Overlap with MDD?	NO

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Abou Jamra, R, 2008 (b)	SNP: rs2278637, rs8067606 Haplotype: rs2278637 - rs8067606() Other variant: VAMP2_C_25610873_10	We could not replicate our initial finding in the single-marker analysis. Our results do not suggest that a common genetic variant at VAMP2 contributes to the development of BD in German patients.	Positive	Comment on Study

Gene functional annotation

Gene related GO terms (count: 65)

GO terms by PBA (count: 6)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0007268	synaptic transmission	biological process	TAS	116
GO:0045202	synapse	cellular component	ISS	29
GO:0005886	plasma membrane	cellular component	ISS; TAS	360
GO:0016020	membrane	cellular component	IDA[16677249]	137
GO:0005516	calmodulin binding	molecular function	ISS	20
GO:0005887	integral component of plasma membrane	cellular component	TAS[1976629]	158

GO terms by database search (count: 59)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0030054	cell junction	cellular component	IEA	88
GO:0044267	cellular protein metabolic process	biological process	TAS	28
GO:0060203	clathrin-sculpted glutamate transport vesicle membrane	cellular component	TAS	1
GO:0005802	trans-Golgi network	cellular component	ISS	10
GO:0070254	mucus secretion	biological process	IMP[22144578]	2
GO:0009749	response to glucose	biological process	ISS	8
GO:0070062	extracellular vesicular exosome	cellular component	IDA[23376485]	176
GO:0043308	eosinophil degranulation	biological process	IMP[16677249]	2
GO:0070044	synaptobrevin 2-SNAP-25-syntaxin-1a complex	cellular component	ISS	1
GO:0005515	protein binding	molecular function	IPI[17196367]	563
GO:0030667	secretory granule membrane	cellular component	IDA[16677249]; TAS	4
GO:0030672	synaptic vesicle membrane	cellular component	ISS; TAS	7
GO:0006887	exocytosis	biological process	IBA; TAS[10099709]	6
GO:0070032	synaptobrevin 2-SNAP-25-syntaxin-1a-complexin I complex	cellular component	ISS	2
GO:0017156	calcium ion-dependent exocytosis	biological process	ISS	5
GO:0009405	pathogenesis	biological process	TAS	13
GO:0070033	synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex	cellular component	ISS	1
GO:0005543	phospholipid binding	molecular function	ISS	8
GO:0006461	protein complex assembly	biological process	ISS	11
GO:0019905	syntaxin binding	molecular function	IBA; IPI[12855681]; ISS	5
GO:0031201	SNARE complex	cellular component	IDA[12130530]; TAS[10099709]	8
GO:0043231	intracellular membrane-bounded organelle	cellular component	ISS	34
GO:0044281	small molecule metabolic process	biological process	TAS	117
GO:0000149	SNARE binding	molecular function	ISS	7
GO:0070083	clathrin-sculpted monoamine transport vesicle membrane	cellular component	TAS	3
GO:0043320	natural killer cell degranulation	biological process	IMP[18042464]	2
GO:0061024	membrane organization	biological process	TAS	14
GO:0006112	energy reserve metabolic process	biological process	TAS	19
GO:0060627	regulation of vesicle-mediated transport	biological process	ISS	2
GO:0030136	clathrin-coated vesicle	cellular component	IDA[19478182]	9
GO:0044306	neuron projection terminus	cellular component	ISS	1
GO:0008021	synaptic vesicle	cellular component	IBA; ISS; TAS[10099709]	13
GO:0014047	glutamate secretion	biological process	TAS	6
GO:0016192	vesicle-mediated transport	biological process	ISS	10
GO:0042589	zymogen granule membrane	cellular component	ISS	1
GO:0030141	secretory granule	cellular component	ISS	14
GO:0015031	protein transport	biological process	ISS	21
GO:1903593	regulation of histamine secretion by mast cell	biological process	IMP[18253931]	2
GO:0061025	membrane fusion	biological process	ISS	6
GO:0061202	clathrin-sculpted gamma-aminobutyric acid transport vesicle membrane	cellular component	TAS	3
GO:0005829	cytosol	cellular component	TAS	223
GO:0032869	cellular response to insulin stimulus	biological process	ISS	12
GO:0060291	long-term synaptic potentiation	biological process	ISS	14
GO:0017157	regulation of exocytosis	biological process	ISS	1
GO:0006906	vesicle fusion	biological process	IBA	4
GO:0043005	neuron projection	cellular component	ISS	38
GO:0043312	neutrophil degranulation	biological process	IMP[16677249]	2
GO:0043621	protein self-association	molecular function	TAS[15217342]	4
GO:0048306	calcium-dependent protein binding	molecular function	ISS	7
GO:0007269	neurotransmitter secretion	biological process	TAS	15
GO:0050796	regulation of insulin secretion	biological process	TAS	24
GO:0090316	positive regulation of intracellular protein transport	biological process	ISS	3
GO:0031410	cytoplasmic vesicle	cellular component	ISS	7
GO:0017075	syntaxin-1 binding	molecular function	ISS	4
GO:0005484	SNAP receptor activity	molecular function	IBA	6
GO:0016079	synaptic vesicle exocytosis	biological process	ISS; TAS[15217342]	4
GO:0006892	post-Golgi vesicle-mediated transport	biological process	TAS	4
GO:0043001	Golgi to plasma membrane protein transport	biological process	ISS	6
GO:0048471	perinuclear region of cytoplasm	cellular component	ISS	50

Gene related KEGG pathways (count: 1)

KEGG pathways by PBA (count: 0)

KEGG pathways by database search (count: 1)

ID	Name	No. of Genes in BDgene	Brief Description
hsa04130	SNARE interactions in vesicular transport	7

Gene related BioCarta pathways (count: 1)

BioCarta pathways by PBA (count: 0)

BioCarta pathways by database search (count: 1)

ID	Name	No. of Genes in BDgene	Brief Description
botulinPathway	Blockade of Neurotransmitter Relase by Botulinum Toxin	4

Gene related interactors from protein-protein interactions data in HPRD (count: 15)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
VAMP2	TRPC3	NO	in vivo;yeast 2-hybrid	15327778
VAMP2	VAPB	NO	in vitro	9920726
VAMP2	VAPA	YES	in vitro	9657962
VAMP2	STX4	NO	in vitro;in vivo;yeast 2-hybrid	12517971 , 12417022 , 8760387 , 8770861
VAMP2	VAMP8	NO	in vivo	10336434
VAMP2	STX11	NO	in vitro	10036234
VAMP2	CPLX1	NO	in vitro	11832227
VAMP2	STX1B1	NO	in vitro;yeast 2-hybrid	12093152
VAMP2	PRKD3	NO	in vitro;in vivo;yeast 2-hybrid	17196367
VAMP2	SNAP23	NO	in vitro;in vivo	10713150
VAMP2	SYP	NO	in vitro;in vivo	12485399 , 12181340
VAMP2	STX1A	NO	in vitro	10100611 , 9030619
VAMP2	STXBP2	NO	in vitro	12773094
VAMP2	RABAC1	NO	in vitro;yeast 2-hybrid	9341137
VAMP2	SNAP25	YES	in vitro	7961655

Related other genetic factors

Gene related SNPs (count: 6)

Literature-origin SNPs (count: 2)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs2278637	chr17:8158784 - 8158784(1)	downstream_gene_variant; intron_variant; upstream_gene_variant	1(1/0/0)
rs8067606	chr17:8163465 - 8163465(1)	splice_donor_variant; upstream_gene_variant	1(1/0/0)

LD-proxies (count: 4)

rs_ID	Location	Functional Annotation
rs12941873	chr17:8165445 - 8165445(1)	upstream_gene_variant
rs1150	chr17:8159265 - 8159265(1)	3_prime_UTR_variant; downstream_gene_variant; intron_variant; upstream_gene_variant
rs9899533	chr17:8164727 - 8164727(1)	upstream_gene_variant
rs959303	chr17:8158881 - 8158881(1)	downstream_gene_variant; intron_variant; upstream_gene_variant

Gene related CNVs (count: 0)

Gene related other variants (count: 1)

Variant Name	Variant Type	Location in Gene	No. of Studies (Positive/Negative/Trend)
VAMP2_C_25610873_10	point mutation		1 (1/0/0)

Gene related regions (count: 3)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
17p13.1-17p12	chr17:6500000-16100000	1 (0/1/0)
17p13	chr17:0-10800000	3 (0/3/0)
Chr 17	chr17:0-83257441	3 (0/3/0)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Overlap with SZ from cross-disorder studies (count: 0)

Overlap with SZ from candidate gene intersection analysis (count: 1)

Reference	ID in SZGene	Result Category
18512733	714	Negative

Gene relationship with MDD

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Region: chr17:8159149..8163546 View in gBrowse