SNP Detail Info-rs7650009

Organism: Homo sapiens

Alleles: A>G

Gene : Feature

FAM19A1 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A==0366 (10916/29786,GnomAD)
A==0395 (11510/29118,TOPMED)
A==0325 (1630/5008,1000G)
A==0363 (1399/3854,ALSPAC)
A==0364 (1349/3708,TWINSUK)

Position: chr3:68203529 (GRCh38.p7) (3p14.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 12 Enhancers around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 3	NC_000003.12:g.68203529A>G
GRCh37.p13 chr 3	NC_000003.11:g.68252679A>G

Molecule type	Change	Amino acid[Codon]	SO Term
FAM19A1 transcript variant 2	NM_001252216.1:c.	N/A	Intron Variant
FAM19A1 transcript variant 1	NM_213609.3:c.	N/A	Intron Variant
FAM19A1 transcript variant X1	XM_017006386.1:c.	N/A	Intron Variant
FAM19A1 transcript variant X2	XM_017006387.1:c.	N/A	Intron Variant
FAM19A1 transcript variant X3	XM_017006388.1:c.	N/A	Intron Variant
FAM19A1 transcript variant X4	XM_017006389.1:c.	N/A	Intron Variant
FAM19A1 transcript variant X5	XM_017006390.1:c.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.449	G=0.551
1000Genomes	American	Sub	694	A=0.250	G=0.750
1000Genomes	East Asian	Sub	1008	A=0.283	G=0.717
1000Genomes	Europe	Sub	1006	A=0.353	G=0.647
1000Genomes	Global	Study-wide	5008	A=0.325	G=0.675
1000Genomes	South Asian	Sub	978	A=0.230	G=0.770
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.363	G=0.637
The Genome Aggregation Database	African	Sub	8694	A=0.431	G=0.569
The Genome Aggregation Database	American	Sub	836	A=0.220	G=0.780
The Genome Aggregation Database	East Asian	Sub	1528	A=0.287	G=0.713
The Genome Aggregation Database	Europe	Sub	18426	A=0.348	G=0.651
The Genome Aggregation Database	Global	Study-wide	29786	A=0.366	G=0.633
The Genome Aggregation Database	Other	Sub	302	A=0.380	G=0.620
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.395	G=0.604
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.364	G=0.636

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
rs7650009	0.000317	alcohol dependence	20201924

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr3	68276345	68276412	E067	23666
chr3	68276345	68276412	E069	23666
chr3	68276500	68276638	E069	23821
chr3	68276345	68276412	E071	23666
chr3	68276500	68276638	E071	23821
chr3	68277842	68278786	E081	25163
chr3	68288813	68289049	E081	36134
chr3	68276345	68276412	E082	23666
chr3	68276500	68276638	E082	23821
chr3	68276885	68276935	E082	24206
chr3	68277842	68278786	E082	25163
chr3	68291843	68292030	E082	39164

rs7650009