SNP Detail Info-rs844656

Organism: Homo sapiens

Alleles: T>G

Gene : Feature

TNFSF4 : Intron Variant
LOC100506023 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G=0055 (1663/29954,GnomAD)
G=0043 (1276/29118,TOPMED)
G=0060 (300/5008,1000G)
G=0046 (176/3854,ALSPAC)
G=0048 (177/3708,TWINSUK)

Position: chr1:173266696 (GRCh38.p7) (1q25.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 0 Enhancer around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 1	NC_000001.11:g.173266696T>G
GRCh37.p13 chr 1	NC_000001.10:g.173235835T>G

Molecule type	Change	Amino acid[Codon]	SO Term
TNFSF4 transcript variant 2	NM_001297562.1:c.	N/A	Genic Upstream Transcript Variant
TNFSF4 transcript variant 1	NM_003326.4:c.	N/A	Genic Upstream Transcript Variant
TNFSF4 transcript variant X3	XM_017002229.1:c.	N/A	Intron Variant
TNFSF4 transcript variant X4	XM_017002230.1:c.	N/A	Intron Variant
TNFSF4 transcript variant X1	XM_011509964.2:c.	N/A	Genic Upstream Transcript Variant
TNFSF4 transcript variant X2	XM_017002228.1:c.	N/A	Genic Upstream Transcript Variant
TNFSF4 transcript variant X6	XR_001737393.1:n.	N/A	Genic Downstream Transcript Variant
TNFSF4 transcript variant X7	XR_001737394.1:n.	N/A	Genic Downstream Transcript Variant
TNFSF4 transcript variant X1	XR_001737395.1:n.	N/A	Genic Downstream Transcript Variant
TNFSF4 transcript variant X8	XR_001737396.1:n.	N/A	Genic Downstream Transcript Variant

Molecule type	Change	Amino acid[Codon]	SO Term
LOC100506023 transcript	NR_037845.1:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.958	G=0.042
1000Genomes	American	Sub	694	T=0.960	G=0.040
1000Genomes	East Asian	Sub	1008	T=0.870	G=0.130
1000Genomes	Europe	Sub	1006	T=0.958	G=0.042
1000Genomes	Global	Study-wide	5008	T=0.940	G=0.060
1000Genomes	South Asian	Sub	978	T=0.950	G=0.050
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	T=0.954	G=0.046
The Genome Aggregation Database	African	Sub	8730	T=0.951	G=0.049
The Genome Aggregation Database	American	Sub	838	T=0.960	G=0.040
The Genome Aggregation Database	East Asian	Sub	1600	T=0.852	G=0.148
The Genome Aggregation Database	Europe	Sub	18484	T=0.948	G=0.051
The Genome Aggregation Database	Global	Study-wide	29954	T=0.944	G=0.055
The Genome Aggregation Database	Other	Sub	302	T=0.950	G=0.050
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.956	G=0.043
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	T=0.952	G=0.048

PMID	Title	Author	Journal
21529783	A quantitative-trait genome-wide association study of alcoholism risk in the community: findings and implications.	Heath AC	Biol Psychiatry

SNP ID	p-value	Traits	Study
rs844656	7.9E-05	alcoholism (heaviness of drinking)	21529783

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

rs844656