SNP Detail Info-rs3852465

Organism: Homo sapiens

Alleles: T>C

Gene : Feature

MALRD1 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

C=0209 (6262/29928,GnomAD)
C=0285 (8312/29118,TOPMED)
C=0235 (1176/5008,1000G)
C=0109 (420/3854,ALSPAC)
C=0112 (414/3708,TWINSUK)

Position: chr10:19507501 (GRCh38.p7) (10p12.31)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 0 Enhancer around

Promoter: 15 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 10	NC_000010.11:g.19507501T>C
GRCh37.p13 chr 10	NC_000010.10:g.19796430T>C

Molecule type	Change	Amino acid[Codon]	SO Term
MALRD1 transcript	NM_001142308.2:c.	N/A	Intron Variant
MALRD1 transcript variant X1	XM_011519453.2:c.	N/A	Intron Variant
MALRD1 transcript variant X2	XM_011519454.1:c.	N/A	Intron Variant
MALRD1 transcript variant X3	XM_011519455.2:c.	N/A	Intron Variant
MALRD1 transcript variant X4	XM_017016182.1:c.	N/A	Intron Variant
MALRD1 transcript variant X5	XM_017016183.1:c.	N/A	Intron Variant
MALRD1 transcript variant X7	XM_017016184.1:c.	N/A	Intron Variant
MALRD1 transcript variant X8	XM_017016185.1:c.	N/A	Intron Variant
MALRD1 transcript variant X9	XM_017016186.1:c.	N/A	Intron Variant
MALRD1 transcript variant X6	XR_001747102.1:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.489	C=0.511
1000Genomes	American	Sub	694	T=0.820	C=0.180
1000Genomes	East Asian	Sub	1008	T=0.865	C=0.135
1000Genomes	Europe	Sub	1006	T=0.904	C=0.096
1000Genomes	Global	Study-wide	5008	T=0.765	C=0.235
1000Genomes	South Asian	Sub	978	T=0.850	C=0.150
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	T=0.891	C=0.109
The Genome Aggregation Database	African	Sub	8696	T=0.546	C=0.454
The Genome Aggregation Database	American	Sub	834	T=0.830	C=0.170
The Genome Aggregation Database	East Asian	Sub	1618	T=0.857	C=0.143
The Genome Aggregation Database	Europe	Sub	18480	T=0.896	C=0.103
The Genome Aggregation Database	Global	Study-wide	29928	T=0.790	C=0.209
The Genome Aggregation Database	Other	Sub	300	T=0.890	C=0.110
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.714	C=0.285
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	T=0.888	C=0.112

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
rs3852465	0.00069	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	19777603	19777755	E068	-18675
chr10	19777774	19778305	E068	-18125
chr10	19777603	19777755	E071	-18675
chr10	19777774	19778305	E071	-18125
chr10	19778309	19778435	E071	-17995
chr10	19777774	19778305	E072	-18125
chr10	19778309	19778435	E072	-17995
chr10	19777774	19778305	E073	-18125
chr10	19778309	19778435	E073	-17995
chr10	19777774	19778305	E074	-18125
chr10	19778309	19778435	E074	-17995
chr10	19777774	19778305	E081	-18125
chr10	19778309	19778435	E081	-17995
chr10	19777603	19777755	E082	-18675
chr10	19777774	19778305	E082	-18125

rs3852465