SNP Detail Info-rs10824650

Organism: Homo sapiens

Alleles: A>G

Gene : Feature

LOC105378305 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G=0411 (12241/29730,GnomAD)
G=0373 (10882/29118,TOPMED)
G=0446 (2235/5008,1000G)
A==0456 (1756/3854,ALSPAC)
A==0468 (1737/3708,TWINSUK)

Position: chr10:52602138 (GRCh38.p7) (10q21.1)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 46 Enhancers around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 10	NC_000010.11:g.52602138A>G
GRCh37.p13 chr 10	NC_000010.10:g.54361898A>G

Molecule type	Change	Amino acid[Codon]	SO Term
LOC105378305 transcript variant X3	XR_001747449.1:n.	N/A	Intron Variant
LOC105378305 transcript variant X4	XR_001747450.1:n.	N/A	Intron Variant
LOC105378305 transcript variant X2	XR_945961.2:n.	N/A	Intron Variant
LOC105378305 transcript variant X1	XR_945962.2:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.895	G=0.105
1000Genomes	American	Sub	694	A=0.560	G=0.440
1000Genomes	East Asian	Sub	1008	A=0.477	G=0.523
1000Genomes	Europe	Sub	1006	A=0.445	G=0.555
1000Genomes	Global	Study-wide	5008	A=0.554	G=0.446
1000Genomes	South Asian	Sub	978	A=0.280	G=0.720
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.456	G=0.544
The Genome Aggregation Database	African	Sub	8710	A=0.819	G=0.181
The Genome Aggregation Database	American	Sub	830	A=0.600	G=0.400
The Genome Aggregation Database	East Asian	Sub	1614	A=0.498	G=0.502
The Genome Aggregation Database	Europe	Sub	18274	A=0.489	G=0.510
The Genome Aggregation Database	Global	Study-wide	29730	A=0.588	G=0.411
The Genome Aggregation Database	Other	Sub	302	A=0.370	G=0.630
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.626	G=0.373
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.468	G=0.532

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
rs10824650	0.000877	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 )
chr10	54404321	54404451	E067	42423
chr10	54404489	54404792	E067	42591
chr10	54405080	54405330	E067	43182
chr10	54405338	54405547	E067	43440
chr10	54410724	54410815	E067	48826
chr10	54410844	54410925	E067	48946
chr10	54411131	54411319	E067	49233
chr10	54411355	54411482	E067	49457
chr10	54405080	54405330	E068	43182
chr10	54405338	54405547	E068	43440
chr10	54411131	54411319	E068	49233
chr10	54411355	54411482	E068	49457
chr10	54388231	54388461	E069	26333
chr10	54404321	54404451	E069	42423
chr10	54404489	54404792	E069	42591
chr10	54405080	54405330	E069	43182
chr10	54405338	54405547	E069	43440
chr10	54410724	54410815	E069	48826
chr10	54410844	54410925	E069	48946
chr10	54411131	54411319	E069	49233
chr10	54411355	54411482	E069	49457
chr10	54404489	54404792	E070	42591
chr10	54405080	54405330	E070	43182
chr10	54411131	54411319	E070	49233
chr10	54411355	54411482	E070	49457
chr10	54405080	54405330	E071	43182
chr10	54405338	54405547	E071	43440
chr10	54410724	54410815	E071	48826
chr10	54410844	54410925	E071	48946
chr10	54411131	54411319	E071	49233
chr10	54411355	54411482	E071	49457
chr10	54388231	54388461	E072	26333
chr10	54404489	54404792	E072	42591
chr10	54405080	54405330	E072	43182
chr10	54405338	54405547	E072	43440
chr10	54411131	54411319	E072	49233
chr10	54411355	54411482	E072	49457
chr10	54411131	54411319	E073	49233
chr10	54411355	54411482	E073	49457
chr10	54388231	54388461	E074	26333
chr10	54405080	54405330	E074	43182
chr10	54405338	54405547	E074	43440
chr10	54410724	54410815	E074	48826
chr10	54410844	54410925	E074	48946
chr10	54411131	54411319	E074	49233
chr10	54411355	54411482	E074	49457

rs10824650