rs33779

Organism: Homo sapiens

Alleles: T>C

Gene : Feature

None

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

T==0240 (7173/29806,GnomAD)
T==0293 (8549/29118,TOPMED)
T==0270 (1350/5008,1000G)
T==0175 (675/3854,ALSPAC)
T==0167 (619/3708,TWINSUK)

Position: chr3:45247042 (GRCh38.p7) (3p21.31)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 46 Enhancers around

Promoter: 53 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 3	NC_000003.12:g.45247042T>C
GRCh37.p13 chr 3	NC_000003.11:g.45288534T>C

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.489	C=0.511
1000Genomes	American	Sub	694	T=0.220	C=0.780
1000Genomes	East Asian	Sub	1008	T=0.181	C=0.819
1000Genomes	Europe	Sub	1006	T=0.173	C=0.827
1000Genomes	Global	Study-wide	5008	T=0.270	C=0.730
1000Genomes	South Asian	Sub	978	T=0.200	C=0.800
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	T=0.175	C=0.825
The Genome Aggregation Database	African	Sub	8656	T=0.434	C=0.566
The Genome Aggregation Database	American	Sub	836	T=0.240	C=0.760
The Genome Aggregation Database	East Asian	Sub	1618	T=0.162	C=0.838
The Genome Aggregation Database	Europe	Sub	18394	T=0.157	C=0.842
The Genome Aggregation Database	Global	Study-wide	29806	T=0.240	C=0.759
The Genome Aggregation Database	Other	Sub	302	T=0.170	C=0.830
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.293	C=0.706
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	T=0.167	C=0.833

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

P-Value

SNP ID	p-value	Traits	Study
rs33779	0.00099	alcohol dependence	20201924

eQTL of rs33779 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 rs33779 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	45268711	45268928	E068	-19606
chr3	45269001	45269053	E068	-19481
chr3	45269121	45269177	E068	-19357
chr3	45269193	45269243	E068	-19291
chr3	45268711	45268928	E069	-19606
chr3	45260119	45260238	E070	-28296
chr3	45269001	45269053	E070	-19481
chr3	45269121	45269177	E070	-19357
chr3	45269193	45269243	E070	-19291
chr3	45285506	45285688	E070	-2846
chr3	45285722	45286167	E070	-2367
chr3	45287865	45288158	E070	-376
chr3	45268711	45268928	E071	-19606
chr3	45269001	45269053	E071	-19481
chr3	45269121	45269177	E071	-19357
chr3	45269193	45269243	E071	-19291
chr3	45268711	45268928	E072	-19606
chr3	45269001	45269053	E072	-19481
chr3	45269121	45269177	E072	-19357
chr3	45268711	45268928	E073	-19606
chr3	45269001	45269053	E073	-19481
chr3	45269121	45269177	E073	-19357
chr3	45269193	45269243	E073	-19291
chr3	45268711	45268928	E074	-19606
chr3	45269001	45269053	E074	-19481
chr3	45269121	45269177	E074	-19357
chr3	45269193	45269243	E074	-19291
chr3	45251928	45252734	E081	-35800
chr3	45253072	45253140	E081	-35394
chr3	45253346	45253574	E081	-34960
chr3	45253643	45253860	E081	-34674
chr3	45253911	45253961	E081	-34573
chr3	45257616	45257813	E081	-30721
chr3	45257978	45258035	E081	-30499
chr3	45260119	45260238	E081	-28296
chr3	45268711	45268928	E081	-19606
chr3	45269001	45269053	E081	-19481
chr3	45269121	45269177	E081	-19357
chr3	45269193	45269243	E081	-19291
chr3	45269326	45269724	E081	-18810
chr3	45285506	45285688	E081	-2846
chr3	45285722	45286167	E081	-2367
chr3	45287865	45288158	E081	-376
chr3	45257085	45257168	E082	-31366
chr3	45257225	45257313	E082	-31221
chr3	45285722	45286167	E082	-2367

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr3	45266189	45266248	E067	-22286
chr3	45266370	45266635	E067	-21899
chr3	45266655	45266975	E067	-21559
chr3	45267130	45267324	E067	-21210
chr3	45267462	45268526	E067	-20008
chr3	45265536	45265694	E068	-22840
chr3	45266189	45266248	E068	-22286
chr3	45266370	45266635	E068	-21899
chr3	45266655	45266975	E068	-21559
chr3	45267130	45267324	E068	-21210
chr3	45267462	45268526	E068	-20008
chr3	45266189	45266248	E069	-22286
chr3	45266370	45266635	E069	-21899
chr3	45266655	45266975	E069	-21559
chr3	45267130	45267324	E069	-21210
chr3	45267462	45268526	E069	-20008
chr3	45265536	45265694	E070	-22840
chr3	45266189	45266248	E070	-22286
chr3	45266370	45266635	E070	-21899
chr3	45266655	45266975	E070	-21559
chr3	45267130	45267324	E070	-21210
chr3	45267462	45268526	E070	-20008
chr3	45266189	45266248	E071	-22286
chr3	45266370	45266635	E071	-21899
chr3	45266655	45266975	E071	-21559
chr3	45267130	45267324	E071	-21210
chr3	45267462	45268526	E071	-20008
chr3	45265536	45265694	E072	-22840
chr3	45266189	45266248	E072	-22286
chr3	45266370	45266635	E072	-21899
chr3	45266655	45266975	E072	-21559
chr3	45267130	45267324	E072	-21210
chr3	45267462	45268526	E072	-20008
chr3	45265536	45265694	E073	-22840
chr3	45266189	45266248	E073	-22286
chr3	45266370	45266635	E073	-21899
chr3	45266655	45266975	E073	-21559
chr3	45267130	45267324	E073	-21210
chr3	45267462	45268526	E073	-20008
chr3	45266370	45266635	E074	-21899
chr3	45266655	45266975	E074	-21559
chr3	45267130	45267324	E074	-21210
chr3	45267462	45268526	E074	-20008
chr3	45265536	45265694	E081	-22840
chr3	45266189	45266248	E081	-22286
chr3	45266370	45266635	E081	-21899
chr3	45266655	45266975	E081	-21559
chr3	45265536	45265694	E082	-22840
chr3	45266189	45266248	E082	-22286
chr3	45266370	45266635	E082	-21899
chr3	45266655	45266975	E082	-21559
chr3	45267130	45267324	E082	-21210
chr3	45267462	45268526	E082	-20008