SNP Detail Info-rs4821888

Organism: Homo sapiens

Alleles: A>G / A>T

Gene : Feature

SYNGR1 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A==0373 (11144/29852,GnomAD)
A==0389 (11348/29114,TOPMED)
G=0395 (5132/12994,GO-ESP)
A==0254 (1272/5008,1000G)

Position: chr22:39374592 (GRCh38.p7) (22q13.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 0 Enhancer around

Promoter: 0 Promoter around

Molecule type	Change	Amino acid[Codon]	SO Term
SYNGR1 transcript variant 1a	NM_004711.4:c.	N/A	Intron Variant
SYNGR1 transcript variant 1b	NM_145731.3:c.	N/A	Intron Variant
SYNGR1 transcript variant 1c	NM_145738.2:c.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.461	G=0.539
1000Genomes	American	Sub	694	A=0.250	G=0.750
1000Genomes	East Asian	Sub	1008	A=0.001	G=0.999
1000Genomes	Europe	Sub	1006	A=0.374	G=0.626
1000Genomes	Global	Study-wide	5008	A=0.254	G=0.746
1000Genomes	South Asian	Sub	978	A=0.120	G=0.880
The Genome Aggregation Database	African	Sub	8696	A=0.453	G=0.547
The Genome Aggregation Database	American	Sub	838	A=0.230	G=0.770
The Genome Aggregation Database	East Asian	Sub	1622	A=0.001	G=0.999
The Genome Aggregation Database	Europe	Sub	18396	A=0.376	G=0.624
The Genome Aggregation Database	Global	Study-wide	29852	A=0.373	G=0.626
The Genome Aggregation Database	Other	Sub	300	A=0.330	G=0.670
Trans-Omics for Precision Medicine	Global	Study-wide	29114	A=0.389	G=0.610

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

SNP ID	p-value	Traits	Study
rs4821888	0.0000114	alcoholism	pha002891
rs4821888	0.0000114	alcohol dependence	20201924

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
Chr22:39770597	SYNGR1	ENSG00000100321.10	A>G	3.4749e-3	24667	Cerebellum
Chr22:39770597	TAB1	ENSG00000100324.9	A>G	8.3425e-5	-25149	Cerebellum

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

rs4821888