rs1525855

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

None

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G==0371 (10820/29118,TOPMED)
G==0430 (12069/28018,GnomAD)
G==0380 (1903/5008,1000G)
G==0469 (1809/3854,ALSPAC)
G==0446 (1653/3708,TWINSUK)

Position: chr3:127829636 (GRCh38.p7) (3q21.3)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 376 Enhancers around

Promoter: 10 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 3	NC_000003.12:g.127829636G>A
GRCh37.p13 chr 3	NC_000003.11:g.127548479G>A

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.258	A=0.742
1000Genomes	American	Sub	694	G=0.520	A=0.480
1000Genomes	East Asian	Sub	1008	G=0.480	A=0.520
1000Genomes	Europe	Sub	1006	G=0.440	A=0.560
1000Genomes	Global	Study-wide	5008	G=0.380	A=0.620
1000Genomes	South Asian	Sub	978	G=0.280	A=0.720
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.469	A=0.531
The Genome Aggregation Database	African	Sub	8494	G=0.285	A=0.715
The Genome Aggregation Database	American	Sub	748	G=0.480	A=0.520
The Genome Aggregation Database	East Asian	Sub	1602	G=0.498	A=0.502
The Genome Aggregation Database	Europe	Sub	16876	G=0.496	A=0.503
The Genome Aggregation Database	Global	Study-wide	28018	G=0.430	A=0.569
The Genome Aggregation Database	Other	Sub	298	G=0.380	A=0.620
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.371	A=0.628
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.446	A=0.554

PMID	Title	Author	Journal
21314694	Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.	Kendler KS	Alcohol Clin Exp Res

P-Value

SNP ID	p-value	Traits	Study
rs1525855	8.29E-05	alcohol dependence	21314694

eQTL of rs1525855 in Brain tissues (GTEx Analysis Release V7)

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

meQTL of rs1525855 in Fetal Brain

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 )
chr3	127499662	127499863	E067	-48616
chr3	127501131	127501234	E067	-47245
chr3	127503961	127504513	E067	-43966
chr3	127504546	127504942	E067	-43537
chr3	127505059	127505515	E067	-42964
chr3	127505555	127505628	E067	-42851
chr3	127505691	127505757	E067	-42722
chr3	127505792	127505885	E067	-42594
chr3	127505892	127506377	E067	-42102
chr3	127506379	127506500	E067	-41979
chr3	127506565	127507089	E067	-41390
chr3	127507435	127507508	E067	-40971
chr3	127507555	127507634	E067	-40845
chr3	127507765	127507846	E067	-40633
chr3	127507876	127508134	E067	-40345
chr3	127509583	127509692	E067	-38787
chr3	127509814	127510669	E067	-37810
chr3	127510743	127510793	E067	-37686
chr3	127515159	127515403	E067	-33076
chr3	127515407	127515901	E067	-32578
chr3	127522103	127522910	E067	-25569
chr3	127522980	127523135	E067	-25344
chr3	127523162	127523325	E067	-25154
chr3	127528065	127528936	E067	-19543
chr3	127532648	127532698	E067	-15781
chr3	127532991	127533699	E067	-14780
chr3	127533940	127534080	E067	-14399
chr3	127534224	127534278	E067	-14201
chr3	127534412	127534462	E067	-14017
chr3	127534557	127534896	E067	-13583
chr3	127534926	127535531	E067	-12948
chr3	127535577	127535833	E067	-12646
chr3	127535844	127536064	E067	-12415
chr3	127537957	127538065	E067	-10414
chr3	127538667	127538745	E067	-9734
chr3	127565417	127565731	E067	16938
chr3	127566159	127566386	E067	17680
chr3	127567006	127567450	E067	18527
chr3	127567516	127567566	E067	19037
chr3	127567788	127567838	E067	19309
chr3	127567892	127567945	E067	19413
chr3	127498655	127498920	E068	-49559
chr3	127499101	127499173	E068	-49306
chr3	127499305	127499609	E068	-48870
chr3	127499662	127499863	E068	-48616
chr3	127501131	127501234	E068	-47245
chr3	127501644	127501694	E068	-46785
chr3	127503961	127504513	E068	-43966
chr3	127504546	127504942	E068	-43537
chr3	127505059	127505515	E068	-42964
chr3	127505555	127505628	E068	-42851
chr3	127505691	127505757	E068	-42722
chr3	127506565	127507089	E068	-41390
chr3	127507435	127507508	E068	-40971
chr3	127507555	127507634	E068	-40845
chr3	127509323	127509376	E068	-39103
chr3	127509814	127510669	E068	-37810
chr3	127515159	127515403	E068	-33076
chr3	127515407	127515901	E068	-32578
chr3	127522103	127522910	E068	-25569
chr3	127522980	127523135	E068	-25344
chr3	127523162	127523325	E068	-25154
chr3	127523833	127524161	E068	-24318
chr3	127528065	127528936	E068	-19543
chr3	127532648	127532698	E068	-15781
chr3	127532991	127533699	E068	-14780
chr3	127533940	127534080	E068	-14399
chr3	127534224	127534278	E068	-14201
chr3	127534412	127534462	E068	-14017
chr3	127534557	127534896	E068	-13583
chr3	127534926	127535531	E068	-12948
chr3	127535577	127535833	E068	-12646
chr3	127535844	127536064	E068	-12415
chr3	127555401	127555578	E068	6922
chr3	127555655	127555851	E068	7176
chr3	127565417	127565731	E068	16938
chr3	127566159	127566386	E068	17680
chr3	127567516	127567566	E068	19037
chr3	127567788	127567838	E068	19309
chr3	127567892	127567945	E068	19413
chr3	127503961	127504513	E069	-43966
chr3	127504546	127504942	E069	-43537
chr3	127505059	127505515	E069	-42964
chr3	127505555	127505628	E069	-42851
chr3	127505691	127505757	E069	-42722
chr3	127505792	127505885	E069	-42594
chr3	127505892	127506377	E069	-42102
chr3	127506379	127506500	E069	-41979
chr3	127506565	127507089	E069	-41390
chr3	127507435	127507508	E069	-40971
chr3	127507555	127507634	E069	-40845
chr3	127509323	127509376	E069	-39103
chr3	127509583	127509692	E069	-38787
chr3	127509814	127510669	E069	-37810
chr3	127511576	127512158	E069	-36321
chr3	127517924	127518035	E069	-30444
chr3	127518152	127519890	E069	-28589
chr3	127521588	127521808	E069	-26671
chr3	127522103	127522910	E069	-25569
chr3	127522980	127523135	E069	-25344
chr3	127523162	127523325	E069	-25154
chr3	127523833	127524161	E069	-24318
chr3	127532648	127532698	E069	-15781
chr3	127533940	127534080	E069	-14399
chr3	127534224	127534278	E069	-14201
chr3	127534412	127534462	E069	-14017
chr3	127534557	127534896	E069	-13583
chr3	127534926	127535531	E069	-12948
chr3	127535577	127535833	E069	-12646
chr3	127535844	127536064	E069	-12415
chr3	127536339	127536785	E069	-11694
chr3	127537957	127538065	E069	-10414
chr3	127538086	127538216	E069	-10263
chr3	127538667	127538745	E069	-9734
chr3	127565417	127565731	E069	16938
chr3	127566159	127566386	E069	17680
chr3	127567006	127567450	E069	18527
chr3	127567516	127567566	E069	19037
chr3	127567788	127567838	E069	19309
chr3	127567892	127567945	E069	19413
chr3	127568322	127568812	E069	19843
chr3	127503457	127503546	E070	-44933
chr3	127503769	127503873	E070	-44606
chr3	127503961	127504513	E070	-43966
chr3	127504546	127504942	E070	-43537
chr3	127506565	127507089	E070	-41390
chr3	127507435	127507508	E070	-40971
chr3	127507555	127507634	E070	-40845
chr3	127507765	127507846	E070	-40633
chr3	127507876	127508134	E070	-40345
chr3	127508450	127508527	E070	-39952
chr3	127515159	127515403	E070	-33076
chr3	127515407	127515901	E070	-32578
chr3	127567006	127567450	E070	18527
chr3	127567516	127567566	E070	19037
chr3	127567788	127567838	E070	19309
chr3	127567892	127567945	E070	19413
chr3	127568322	127568812	E070	19843
chr3	127503769	127503873	E071	-44606
chr3	127503961	127504513	E071	-43966
chr3	127504546	127504942	E071	-43537
chr3	127505059	127505515	E071	-42964
chr3	127505792	127505885	E071	-42594
chr3	127505892	127506377	E071	-42102
chr3	127506379	127506500	E071	-41979
chr3	127506565	127507089	E071	-41390
chr3	127507435	127507508	E071	-40971
chr3	127507555	127507634	E071	-40845
chr3	127507765	127507846	E071	-40633
chr3	127511576	127512158	E071	-36321
chr3	127515159	127515403	E071	-33076
chr3	127517451	127517604	E071	-30875
chr3	127517924	127518035	E071	-30444
chr3	127522103	127522910	E071	-25569
chr3	127523833	127524161	E071	-24318
chr3	127532648	127532698	E071	-15781
chr3	127532991	127533699	E071	-14780
chr3	127533940	127534080	E071	-14399
chr3	127534224	127534278	E071	-14201
chr3	127534412	127534462	E071	-14017
chr3	127534557	127534896	E071	-13583
chr3	127534926	127535531	E071	-12948
chr3	127535577	127535833	E071	-12646
chr3	127535844	127536064	E071	-12415
chr3	127536339	127536785	E071	-11694
chr3	127565417	127565731	E071	16938
chr3	127566159	127566386	E071	17680
chr3	127567006	127567450	E071	18527
chr3	127567516	127567566	E071	19037
chr3	127567788	127567838	E071	19309
chr3	127567892	127567945	E071	19413
chr3	127498655	127498920	E072	-49559
chr3	127499101	127499173	E072	-49306
chr3	127499305	127499609	E072	-48870
chr3	127499662	127499863	E072	-48616
chr3	127502106	127502180	E072	-46299
chr3	127502460	127502500	E072	-45979
chr3	127502559	127502623	E072	-45856
chr3	127503961	127504513	E072	-43966
chr3	127504546	127504942	E072	-43537
chr3	127505059	127505515	E072	-42964
chr3	127505555	127505628	E072	-42851
chr3	127505792	127505885	E072	-42594
chr3	127505892	127506377	E072	-42102
chr3	127506379	127506500	E072	-41979
chr3	127506565	127507089	E072	-41390
chr3	127507435	127507508	E072	-40971
chr3	127507555	127507634	E072	-40845
chr3	127511576	127512158	E072	-36321
chr3	127515407	127515901	E072	-32578
chr3	127521588	127521808	E072	-26671
chr3	127522103	127522910	E072	-25569
chr3	127522980	127523135	E072	-25344
chr3	127523162	127523325	E072	-25154
chr3	127523833	127524161	E072	-24318
chr3	127532648	127532698	E072	-15781
chr3	127532991	127533699	E072	-14780
chr3	127533940	127534080	E072	-14399
chr3	127534224	127534278	E072	-14201
chr3	127534412	127534462	E072	-14017
chr3	127534557	127534896	E072	-13583
chr3	127534926	127535531	E072	-12948
chr3	127535577	127535833	E072	-12646
chr3	127535844	127536064	E072	-12415
chr3	127542850	127542900	E072	-5579
chr3	127542972	127543030	E072	-5449
chr3	127565417	127565731	E072	16938
chr3	127566159	127566386	E072	17680
chr3	127567006	127567450	E072	18527
chr3	127567516	127567566	E072	19037
chr3	127567788	127567838	E072	19309
chr3	127567892	127567945	E072	19413
chr3	127500011	127500854	E073	-47625
chr3	127501131	127501234	E073	-47245
chr3	127501644	127501694	E073	-46785
chr3	127502106	127502180	E073	-46299
chr3	127502460	127502500	E073	-45979
chr3	127502559	127502623	E073	-45856
chr3	127502690	127502890	E073	-45589
chr3	127503457	127503546	E073	-44933
chr3	127503769	127503873	E073	-44606
chr3	127503961	127504513	E073	-43966
chr3	127505059	127505515	E073	-42964
chr3	127505892	127506377	E073	-42102
chr3	127506379	127506500	E073	-41979
chr3	127506565	127507089	E073	-41390
chr3	127507435	127507508	E073	-40971
chr3	127507555	127507634	E073	-40845
chr3	127507765	127507846	E073	-40633
chr3	127507876	127508134	E073	-40345
chr3	127509323	127509376	E073	-39103
chr3	127509583	127509692	E073	-38787
chr3	127509814	127510669	E073	-37810
chr3	127510743	127510793	E073	-37686
chr3	127511048	127511110	E073	-37369
chr3	127511576	127512158	E073	-36321
chr3	127515159	127515403	E073	-33076
chr3	127515407	127515901	E073	-32578
chr3	127517451	127517604	E073	-30875
chr3	127517924	127518035	E073	-30444
chr3	127518152	127519890	E073	-28589
chr3	127521030	127521080	E073	-27399
chr3	127522980	127523135	E073	-25344
chr3	127523162	127523325	E073	-25154
chr3	127523833	127524161	E073	-24318
chr3	127531157	127531264	E073	-17215
chr3	127532648	127532698	E073	-15781
chr3	127532991	127533699	E073	-14780
chr3	127533940	127534080	E073	-14399
chr3	127534224	127534278	E073	-14201
chr3	127534412	127534462	E073	-14017
chr3	127534557	127534896	E073	-13583
chr3	127534926	127535531	E073	-12948
chr3	127535577	127535833	E073	-12646
chr3	127535844	127536064	E073	-12415
chr3	127536339	127536785	E073	-11694
chr3	127565417	127565731	E073	16938
chr3	127567006	127567450	E073	18527
chr3	127567516	127567566	E073	19037
chr3	127567788	127567838	E073	19309
chr3	127567892	127567945	E073	19413
chr3	127568322	127568812	E073	19843
chr3	127502559	127502623	E074	-45856
chr3	127502690	127502890	E074	-45589
chr3	127503457	127503546	E074	-44933
chr3	127503769	127503873	E074	-44606
chr3	127503961	127504513	E074	-43966
chr3	127504546	127504942	E074	-43537
chr3	127505059	127505515	E074	-42964
chr3	127505555	127505628	E074	-42851
chr3	127505691	127505757	E074	-42722
chr3	127505792	127505885	E074	-42594
chr3	127505892	127506377	E074	-42102
chr3	127506379	127506500	E074	-41979
chr3	127506565	127507089	E074	-41390
chr3	127507435	127507508	E074	-40971
chr3	127507555	127507634	E074	-40845
chr3	127507765	127507846	E074	-40633
chr3	127507876	127508134	E074	-40345
chr3	127509323	127509376	E074	-39103
chr3	127515159	127515403	E074	-33076
chr3	127528065	127528936	E074	-19543
chr3	127532648	127532698	E074	-15781
chr3	127532991	127533699	E074	-14780
chr3	127533940	127534080	E074	-14399
chr3	127534224	127534278	E074	-14201
chr3	127534412	127534462	E074	-14017
chr3	127534557	127534896	E074	-13583
chr3	127535577	127535833	E074	-12646
chr3	127535844	127536064	E074	-12415
chr3	127536339	127536785	E074	-11694
chr3	127555401	127555578	E074	6922
chr3	127555655	127555851	E074	7176
chr3	127555999	127556129	E074	7520
chr3	127566159	127566386	E074	17680
chr3	127567006	127567450	E074	18527
chr3	127567516	127567566	E074	19037
chr3	127567788	127567838	E074	19309
chr3	127567892	127567945	E074	19413
chr3	127499662	127499863	E081	-48616
chr3	127500011	127500854	E081	-47625
chr3	127501131	127501234	E081	-47245
chr3	127501644	127501694	E081	-46785
chr3	127502460	127502500	E081	-45979
chr3	127502559	127502623	E081	-45856
chr3	127502690	127502890	E081	-45589
chr3	127503457	127503546	E081	-44933
chr3	127503769	127503873	E081	-44606
chr3	127503961	127504513	E081	-43966
chr3	127504546	127504942	E081	-43537
chr3	127505059	127505515	E081	-42964
chr3	127505555	127505628	E081	-42851
chr3	127505691	127505757	E081	-42722
chr3	127505792	127505885	E081	-42594
chr3	127505892	127506377	E081	-42102
chr3	127506379	127506500	E081	-41979
chr3	127506565	127507089	E081	-41390
chr3	127507435	127507508	E081	-40971
chr3	127507555	127507634	E081	-40845
chr3	127507765	127507846	E081	-40633
chr3	127507876	127508134	E081	-40345
chr3	127508450	127508527	E081	-39952
chr3	127509097	127509194	E081	-39285
chr3	127509323	127509376	E081	-39103
chr3	127509583	127509692	E081	-38787
chr3	127509814	127510669	E081	-37810
chr3	127510743	127510793	E081	-37686
chr3	127511576	127512158	E081	-36321
chr3	127512463	127512530	E081	-35949
chr3	127514611	127514685	E081	-33794
chr3	127515159	127515403	E081	-33076
chr3	127515407	127515901	E081	-32578
chr3	127517091	127517158	E081	-31321
chr3	127517451	127517604	E081	-30875
chr3	127517924	127518035	E081	-30444
chr3	127521030	127521080	E081	-27399
chr3	127521588	127521808	E081	-26671
chr3	127522103	127522910	E081	-25569
chr3	127522980	127523135	E081	-25344
chr3	127523162	127523325	E081	-25154
chr3	127523833	127524161	E081	-24318
chr3	127532648	127532698	E081	-15781
chr3	127532991	127533699	E081	-14780
chr3	127537957	127538065	E081	-10414
chr3	127538086	127538216	E081	-10263
chr3	127538667	127538745	E081	-9734
chr3	127542850	127542900	E081	-5579
chr3	127542972	127543030	E081	-5449
chr3	127566159	127566386	E081	17680
chr3	127567006	127567450	E081	18527
chr3	127567516	127567566	E081	19037
chr3	127567788	127567838	E081	19309
chr3	127567892	127567945	E081	19413
chr3	127568322	127568812	E081	19843
chr3	127570858	127571042	E081	22379
chr3	127503457	127503546	E082	-44933
chr3	127503769	127503873	E082	-44606
chr3	127503961	127504513	E082	-43966
chr3	127504546	127504942	E082	-43537
chr3	127505892	127506377	E082	-42102
chr3	127506379	127506500	E082	-41979
chr3	127506565	127507089	E082	-41390
chr3	127507435	127507508	E082	-40971
chr3	127507555	127507634	E082	-40845
chr3	127507765	127507846	E082	-40633
chr3	127507876	127508134	E082	-40345
chr3	127508450	127508527	E082	-39952
chr3	127515159	127515403	E082	-33076
chr3	127515407	127515901	E082	-32578
chr3	127523833	127524161	E082	-24318
chr3	127566159	127566386	E082	17680
chr3	127567006	127567450	E082	18527
chr3	127567516	127567566	E082	19037
chr3	127567788	127567838	E082	19309
chr3	127567892	127567945	E082	19413
chr3	127568322	127568812	E082	19843

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr3	127540773	127542727	E067	-5752
chr3	127540773	127542727	E068	-5752
chr3	127540773	127542727	E069	-5752
chr3	127540773	127542727	E070	-5752
chr3	127540773	127542727	E071	-5752
chr3	127540773	127542727	E072	-5752
chr3	127540773	127542727	E073	-5752
chr3	127540773	127542727	E074	-5752
chr3	127540773	127542727	E081	-5752
chr3	127540773	127542727	E082	-5752