SNP Detail Info-rs2540275

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

None

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G==0162 (4863/29966,GnomAD)
G==0156 (4551/29116,TOPMED)
G==0226 (1133/5008,1000G)
G==0126 (484/3854,ALSPAC)
G==0125 (463/3708,TWINSUK)

Position: chr2:10527623 (GRCh38.p7) (2p25.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 12 Enhancers around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 2	NC_000002.12:g.10527623G>A
GRCh37.p13 chr 2	NC_000002.11:g.10667749G>A

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.173	A=0.827
1000Genomes	American	Sub	694	G=0.180	A=0.820
1000Genomes	East Asian	Sub	1008	G=0.358	A=0.642
1000Genomes	Europe	Sub	1006	G=0.137	A=0.863
1000Genomes	Global	Study-wide	5008	G=0.226	A=0.774
1000Genomes	South Asian	Sub	978	G=0.290	A=0.710
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.126	A=0.874
The Genome Aggregation Database	African	Sub	8718	G=0.186	A=0.814
The Genome Aggregation Database	American	Sub	838	G=0.190	A=0.810
The Genome Aggregation Database	East Asian	Sub	1618	G=0.393	A=0.607
The Genome Aggregation Database	Europe	Sub	18490	G=0.130	A=0.869
The Genome Aggregation Database	Global	Study-wide	29966	G=0.162	A=0.837
The Genome Aggregation Database	Other	Sub	302	G=0.110	A=0.890
Trans-Omics for Precision Medicine	Global	Study-wide	29116	G=0.156	A=0.843
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.125	A=0.875

PMID	Title	Author	Journal
20201924	Genome-wide association study of alcohol dependence implicates a region on chromosome 11.	Edenberg HJ	Alcohol Clin Exp Res

SNP ID	p-value	Traits	Study
rs2540275	0.000192	alcohol dependence	20201924

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr2	10710211	10710261	E067	42462
chr2	10705648	10705901	E068	37899
chr2	10706148	10706437	E068	38399
chr2	10701555	10702164	E069	33806
chr2	10666591	10666722	E070	-1027
chr2	10700324	10700404	E070	32575
chr2	10700979	10701032	E070	33230
chr2	10705648	10705901	E070	37899
chr2	10706148	10706437	E070	38399
chr2	10701555	10702164	E071	33806
chr2	10705648	10705901	E071	37899
chr2	10706148	10706437	E071	38399

rs2540275