SNP Detail Info-rs2464786

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

LOC107985945 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0397 (11748/29524,GnomAD)
A=0426 (2135/5008,1000G)
A=0403 (1554/3854,ALSPAC)
A=0412 (1528/3708,TWINSUK)

Position: chr2:129792562 (GRCh38.p7) (2q21.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 32 Enhancers around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 2	NC_000002.12:g.129792562G>A
GRCh37.p13 chr 2	NC_000002.11:g.130550135G>A

Molecule type	Change	Amino acid[Codon]	SO Term
LOC107985945 transcript	XR_001739711.1:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.849	A=0.151
1000Genomes	American	Sub	694	G=0.540	A=0.460
1000Genomes	East Asian	Sub	1008	G=0.400	A=0.600
1000Genomes	Europe	Sub	1006	G=0.558	A=0.442
1000Genomes	Global	Study-wide	5008	G=0.574	A=0.426
1000Genomes	South Asian	Sub	978	G=0.420	A=0.580
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.597	A=0.403
The Genome Aggregation Database	African	Sub	8304	G=0.798	A=0.202
The Genome Aggregation Database	American	Sub	836	G=0.530	A=0.470
The Genome Aggregation Database	East Asian	Sub	1616	G=0.437	A=0.563
The Genome Aggregation Database	Europe	Sub	18466	G=0.532	A=0.467
The Genome Aggregation Database	Global	Study-wide	29524	G=0.602	A=0.397
The Genome Aggregation Database	Other	Sub	302	G=0.540	A=0.460
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.588	A=0.412

PMID	Title	Author	Journal
21703634	A meta-analysis of two genome-wide association studies identifies 3 new loci for alcohol dependence.	Wang KS	J Psychiatr Res

SNP ID	p-value	Traits	Study
rs2464786	2.59E-05	alcohol dependence	21703634

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	130515443	130516325	E069	-33810
chr2	130514385	130514525	E070	-35610
chr2	130515443	130516325	E070	-33810
chr2	130551002	130551500	E070	867
chr2	130551711	130551908	E070	1576
chr2	130552014	130552074	E070	1879
chr2	130560809	130560923	E070	10674
chr2	130564612	130564708	E070	14477
chr2	130564745	130564827	E070	14610
chr2	130584827	130584924	E070	34692
chr2	130586417	130586702	E070	36282
chr2	130523139	130523179	E073	-26956
chr2	130523295	130523397	E073	-26738
chr2	130515443	130516325	E081	-33810
chr2	130538574	130538722	E081	-11413
chr2	130539541	130539591	E081	-10544
chr2	130539699	130539767	E081	-10368
chr2	130549450	130549573	E081	-562
chr2	130551002	130551500	E081	867
chr2	130551711	130551908	E081	1576
chr2	130552014	130552074	E081	1879
chr2	130577251	130577386	E081	27116
chr2	130578656	130578729	E081	28521
chr2	130579066	130579412	E081	28931
chr2	130579715	130579843	E081	29580
chr2	130579959	130580074	E081	29824
chr2	130515443	130516325	E082	-33810
chr2	130551002	130551500	E082	867
chr2	130551711	130551908	E082	1576
chr2	130552014	130552074	E082	1879
chr2	130564612	130564708	E082	14477
chr2	130564745	130564827	E082	14610

rs2464786