rs35522805

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

ATF2 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0069 (2078/29928,GnomAD)
A=0064 (1874/29118,TOPMED)
A=0080 (403/5008,1000G)
A=0069 (264/3854,ALSPAC)
A=0070 (258/3708,TWINSUK)

Position: chr2:175087402 (GRCh38.p7) (2q31.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 0 Enhancer around

Promoter: 0 Promoter around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 2	NC_000002.12:g.175087402G>A
GRCh37.p13 chr 2	NC_000002.11:g.175952130G>A
ATF2 RefSeqGene	NG_047045.1:g.85805C>T

Gene: ATF2, activating transcription factor 2(minus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
ATF2 transcript variant 2	NM_001256090.1:c.	N/A	Intron Variant
ATF2 transcript variant 3	NM_001256091.1:c.	N/A	Intron Variant
ATF2 transcript variant 4	NM_001256092.1:c.	N/A	Intron Variant
ATF2 transcript variant 5	NM_001256093.1:c.	N/A	Intron Variant
ATF2 transcript variant 1	NM_001880.3:c.	N/A	Intron Variant
ATF2 transcript variant 6	NM_001256094.1:c.	N/A	Genic Downstream Transcript Variant
ATF2 transcript variant 7	NR_045768.1:n.	N/A	Intron Variant
ATF2 transcript variant 8	NR_045769.1:n.	N/A	Intron Variant
ATF2 transcript variant 9	NR_045770.1:n.	N/A	Intron Variant
ATF2 transcript variant 10	NR_045771.1:n.	N/A	Intron Variant
ATF2 transcript variant 11	NR_045772.1:n.	N/A	Intron Variant
ATF2 transcript variant 12	NR_045773.1:n.	N/A	Intron Variant
ATF2 transcript variant 13	NR_045774.1:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.946	A=0.054
1000Genomes	American	Sub	694	G=0.940	A=0.060
1000Genomes	East Asian	Sub	1008	G=0.869	A=0.131
1000Genomes	Europe	Sub	1006	G=0.921	A=0.079
1000Genomes	Global	Study-wide	5008	G=0.920	A=0.080
1000Genomes	South Asian	Sub	978	G=0.920	A=0.080
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.931	A=0.069
The Genome Aggregation Database	African	Sub	8706	G=0.928	A=0.072
The Genome Aggregation Database	American	Sub	836	G=0.930	A=0.070
The Genome Aggregation Database	East Asian	Sub	1612	G=0.886	A=0.114
The Genome Aggregation Database	Europe	Sub	18472	G=0.936	A=0.063
The Genome Aggregation Database	Global	Study-wide	29928	G=0.930	A=0.069
The Genome Aggregation Database	Other	Sub	302	G=0.910	A=0.090
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.935	A=0.064
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.930	A=0.070

PMID	Title	Author	Journal
24277619	ALDH2 is associated to alcohol dependence and is the major genetic determinant of "daily maximum drinks" in a GWAS study of an isolated rural Chinese sample.	Quillen EE	Am J Med Genet B Neuropsychiatr Genet

P-Value

SNP ID	p-value	Traits	Study
rs35522805	0.000236	alcohol consumption (maxi-drinks)	24277619

eQTL of rs35522805 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 rs35522805 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.