rs1338361

Organism: Homo sapiens

Alleles: T>A / T>C

Gene : Feature

None

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

C=0261 (7805/29798,GnomAD)
C=0195 (5678/29118,TOPMED)
C=0201 (1007/5008,1000G)
C=0339 (1305/3854,ALSPAC)
C=0326 (1208/3708,TWINSUK)

Position: chr1:82730738 (GRCh38.p7) (1p31.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 32 Enhancers around

Promoter: 73 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 1	NC_000001.11:g.82730738T>A
GRCh38.p7 chr 1	NC_000001.11:g.82730738T>C
GRCh37.p13 chr 1	NC_000001.10:g.83196421T>A
GRCh37.p13 chr 1	NC_000001.10:g.83196421T>C

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.967	C=0.033
1000Genomes	American	Sub	694	T=0.750	C=0.250
1000Genomes	East Asian	Sub	1008	T=0.766	C=0.234
1000Genomes	Europe	Sub	1006	T=0.715	C=0.285
1000Genomes	Global	Study-wide	5008	T=0.799	C=0.201
1000Genomes	South Asian	Sub	978	T=0.730	C=0.270
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	T=0.661	C=0.339
The Genome Aggregation Database	African	Sub	8716	T=0.924	C=0.076
The Genome Aggregation Database	American	Sub	828	T=0.740	C=0.26,
The Genome Aggregation Database	East Asian	Sub	1522	T=0.744	C=0.256
The Genome Aggregation Database	Europe	Sub	18430	T=0.648	C=0.351
The Genome Aggregation Database	Global	Study-wide	29798	T=0.738	C=0.261
The Genome Aggregation Database	Other	Sub	302	T=0.780	C=0.22,
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.805	C=0.195
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	T=0.674	C=0.326

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
rs1338361	5.74E-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

Genomic View

Chromatin Interaction

There is no significant Hi-C chromatin interaction data for this SNP.

Enhancer Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr1	21830199	21830440	E068	37549
chr1	21830506	21830556	E068	37856
chr1	21830576	21830634	E068	37926
chr1	21830785	21830908	E068	38135
chr1	21765829	21765879	E069	-26771
chr1	21830199	21830440	E069	37549
chr1	21830506	21830556	E069	37856
chr1	21830576	21830634	E069	37926
chr1	21817921	21818036	E070	25271
chr1	21818127	21818231	E070	25477
chr1	21818255	21818305	E070	25605
chr1	21818429	21818733	E070	25779
chr1	21818777	21818971	E070	26127
chr1	21830199	21830440	E071	37549
chr1	21830506	21830556	E071	37856
chr1	21830576	21830634	E071	37926
chr1	21817263	21817646	E072	24613
chr1	21817647	21817738	E072	24997
chr1	21830199	21830440	E072	37549
chr1	21830506	21830556	E072	37856
chr1	21830576	21830634	E072	37926
chr1	21830785	21830908	E072	38135
chr1	21830199	21830440	E073	37549
chr1	21830506	21830556	E073	37856
chr1	21830576	21830634	E073	37926
chr1	21830785	21830908	E073	38135
chr1	21838206	21838413	E073	45556
chr1	21838457	21838829	E073	45807
chr1	21830199	21830440	E074	37549
chr1	21830506	21830556	E074	37856
chr1	21830576	21830634	E074	37926
chr1	21765829	21765879	E081	-26771

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr1	21763020	21763352	E067	-29298
chr1	21763437	21764150	E067	-28500
chr1	21766182	21766898	E067	-25752
chr1	21766942	21767066	E067	-25584
chr1	21767141	21767221	E067	-25429
chr1	21767297	21767701	E067	-24949
chr1	21835176	21836171	E067	42526
chr1	21836216	21836508	E067	43566
chr1	21763020	21763352	E068	-29298
chr1	21763437	21764150	E068	-28500
chr1	21766182	21766898	E068	-25752
chr1	21766942	21767066	E068	-25584
chr1	21767141	21767221	E068	-25429
chr1	21767297	21767701	E068	-24949
chr1	21835176	21836171	E068	42526
chr1	21836216	21836508	E068	43566
chr1	21762851	21762920	E069	-29730
chr1	21763020	21763352	E069	-29298
chr1	21763437	21764150	E069	-28500
chr1	21766182	21766898	E069	-25752
chr1	21766942	21767066	E069	-25584
chr1	21767141	21767221	E069	-25429
chr1	21767297	21767701	E069	-24949
chr1	21835176	21836171	E069	42526
chr1	21836216	21836508	E069	43566
chr1	21763020	21763352	E070	-29298
chr1	21763437	21764150	E070	-28500
chr1	21766182	21766898	E070	-25752
chr1	21766942	21767066	E070	-25584
chr1	21767141	21767221	E070	-25429
chr1	21767297	21767701	E070	-24949
chr1	21835176	21836171	E070	42526
chr1	21836216	21836508	E070	43566
chr1	21836569	21836991	E070	43919
chr1	21763020	21763352	E071	-29298
chr1	21766182	21766898	E071	-25752
chr1	21766942	21767066	E071	-25584
chr1	21767141	21767221	E071	-25429
chr1	21767297	21767701	E071	-24949
chr1	21836216	21836508	E071	43566
chr1	21754779	21755001	E072	-37649
chr1	21763020	21763352	E072	-29298
chr1	21763437	21764150	E072	-28500
chr1	21766182	21766898	E072	-25752
chr1	21766942	21767066	E072	-25584
chr1	21767141	21767221	E072	-25429
chr1	21767297	21767701	E072	-24949
chr1	21763020	21763352	E073	-29298
chr1	21763437	21764150	E073	-28500
chr1	21766182	21766898	E073	-25752
chr1	21766942	21767066	E073	-25584
chr1	21767141	21767221	E073	-25429
chr1	21767297	21767701	E073	-24949
chr1	21835176	21836171	E073	42526
chr1	21836216	21836508	E073	43566
chr1	21836569	21836991	E073	43919
chr1	21763020	21763352	E074	-29298
chr1	21766182	21766898	E074	-25752
chr1	21766942	21767066	E074	-25584
chr1	21767141	21767221	E074	-25429
chr1	21767297	21767701	E074	-24949
chr1	21766182	21766898	E081	-25752
chr1	21766942	21767066	E081	-25584
chr1	21767141	21767221	E081	-25429
chr1	21767297	21767701	E081	-24949
chr1	21763020	21763352	E082	-29298
chr1	21763437	21764150	E082	-28500
chr1	21766182	21766898	E082	-25752
chr1	21766942	21767066	E082	-25584
chr1	21767141	21767221	E082	-25429
chr1	21767297	21767701	E082	-24949
chr1	21835176	21836171	E082	42526
chr1	21836216	21836508	E082	43566

rs1338361

Genomic Coordinates

Population Frequency

P-Value

eQTL of rs1338361 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs1338361 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)

Promoter Annotation (GRCh37.p13)