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

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