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	VAMP3
Symbol Alias	CEB
Approved Name	vesicle-associated membrane protein 3
Name Alias	cellubrevin
Location	1p36.23
Position	chr1:7771269-7781432, 1
External Links	HGNC: 12644 Entrez Gene: 9341 Ensembl: ENSG00000049245 UCSC: uc001aol.3
No. of Studies	1 (Positive: 0; Negative: 1; trend: 0)
Overlap with SZ?	NO
Overlap with MDD?	YES

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Abou Jamra, R, 2008 (b)	SNP: rs2071987, rs228729, rs2301489, rs707455	our results do not suggest that a common genetic variant at VAMP3 contributes to the development of BD in German patients	Negative	Comment on Study

Gene functional annotation

Gene related GO terms (count: 36)

GO terms by PBA (count: 2)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0005886	plasma membrane	cellular component	ISS	360
GO:0016021	integral component of membrane	cellular component	IEA	219

GO terms by database search (count: 34)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0016324	apical plasma membrane	cellular component	IEA	24
GO:0070254	mucus secretion	biological process	IMP[22144578]	2
GO:0030136	clathrin-coated vesicle	cellular component	IDA[19478182]	9
GO:0017075	syntaxin-1 binding	molecular function	IEA	4
GO:0061025	membrane fusion	biological process	TAS[9885218]	6
GO:0030054	cell junction	cellular component	IEA	88
GO:0043231	intracellular membrane-bounded organelle	cellular component	IDA[18253931]	34
GO:0051024	positive regulation of immunoglobulin secretion	biological process	IMP[24055037]	3
GO:0008021	synaptic vesicle	cellular component	IBA	13
GO:0034446	substrate adhesion-dependent cell spreading	biological process	ISS	5
GO:0005622	intracellular	cellular component	IDA[24055037]	17
GO:0016192	vesicle-mediated transport	biological process	ISS	10
GO:0006461	protein complex assembly	biological process	TAS[9885218]	11
GO:0009986	cell surface	cellular component	IEA	40
GO:0005829	cytosol	cellular component	IDA[22589474]	223
GO:0055037	recycling endosome	cellular component	IDA[19061864]	14
GO:0006904	vesicle docking involved in exocytosis	biological process	TAS[9885218]	2
GO:0005515	protein binding	molecular function	IPI[12130530]	563
GO:0043001	Golgi to plasma membrane protein transport	biological process	IEA	6
GO:0030665	clathrin-coated vesicle membrane	cellular component	IEA	1
GO:0006887	exocytosis	biological process	TAS[9885218]	6
GO:0017156	calcium ion-dependent exocytosis	biological process	IEA	5
GO:0006906	vesicle fusion	biological process	IBA	4
GO:0001921	positive regulation of receptor recycling	biological process	ISS	2
GO:0030141	secretory granule	cellular component	IEA	14
GO:0042147	retrograde transport, endosome to Golgi	biological process	IDA[18195106]	2
GO:1903593	regulation of histamine secretion by mast cell	biological process	IMP[18253931]	2
GO:0005484	SNAP receptor activity	molecular function	IBA	6
GO:0043005	neuron projection	cellular component	IEA	38
GO:0035493	SNARE complex assembly	biological process	IEA	2
GO:0031201	SNARE complex	cellular component	IBA; IDA[12130530]	8
GO:0007269	neurotransmitter secretion	biological process	IBA	15
GO:0000149	SNARE binding	molecular function	IBA	7
GO:1903531	negative regulation of secretion by cell	biological process	IDA[12130530]	1

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: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 8)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
VAMP3	STX3	NO	in vivo	9701566 , 9614185
VAMP3	ACAP1	NO	in vitro;in vivo	15525538
VAMP3	RDBP	NO	yeast 2-hybrid	16169070
VAMP3	DDB1	NO	yeast 2-hybrid	16169070
VAMP3	BCAP31	NO	in vitro;in vivo	9396746
VAMP3	STX4	NO	in vitro;in vivo	12130530 , 10820264
VAMP3	STX16	NO	in vivo	11839770
VAMP3	SNAP23	NO	in vivo;yeast 2-hybrid	12828989

Related other genetic factors

Gene related SNPs (count: 8)

Literature-origin SNPs (count: 4)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs228729	chr1:7785635 - 7785635(1)	downstream_gene_variant; intron_variant; non_coding_transcript_variant; upstream_gene_variant	3(0/3/0)
rs2301489	chr1:7777616 - 7777616(1)	downstream_gene_variant; intron_variant; non_coding_transcript_variant	1(0/1/0)
rs2071987	chr1:7773966 - 7773966(1)	downstream_gene_variant; intron_variant; upstream_gene_variant	1(0/1/0)
rs707455	chr1:7765251 - 7765251(1)	intron_variant	1(0/1/0)

LD-proxies (count: 4)

rs_ID	Location	Functional Annotation
rs3753503	chr1:7781911 - 7781911(1)	downstream_gene_variant; upstream_gene_variant
rs707457	chr1:7771004 - 7771004(1)	downstream_gene_variant; upstream_gene_variant
rs697674	chr1:7777818 - 7777818(1)	downstream_gene_variant; intron_variant; non_coding_transcript_variant
rs697675	chr1:7778053 - 7778053(1)	downstream_gene_variant; intron_variant; non_coding_transcript_variant

Gene related CNVs (count: 0)

Gene related other variants (count: 0)

Gene related regions (count: 5)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
1p35-p36	chr1:0-34300000	1 (1/0/0)
1p33-p36	chr1:0-50200000	1 (0/0/1)
1p36.23	chr1:7100000-9100000	1 (0/1/0)
1p36	chr1:0-27600000	1 (0/1/0)
Chr 1	chr1:0-248956422	2 (0/2/0)

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

Gene relationship with SZ

Gene relationship with MDD

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

Overlap with MDD from candidate gene intersection analysis (count: 2)

Reference	Description	Category in MDD	Link in MK4MDD
17938633	Selected differentially expressed genes in BA44 to BA47 (ANOVA and t-test P < 0.01, fold change 1.3t)	Pos	VAMP3
15303102	Genes altered in major depressive disorder	Pos	VAMP3

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Region: chr1:7771269..7781432 View in gBrowse