SNP Detail Info-rs1004815

Organism: Homo sapiens

Alleles: T>C / T>G

Gene : Feature

NRDC : Intron Variant
LOC105378721 : 2KB Upstream Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

C=0071 (2133/29968,GnomAD)
C=0069 (346/5008,1000G)

Position: chr1:51793053 (GRCh38.p7) (1p32.3)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 18 Enhancers around

Promoter: 0 Promoter around

Molecule type	Change	Amino acid[Codon]	SO Term
NRDC transcript variant 2	NM_001101662.1:c.	N/A	Intron Variant
NRDC transcript variant 3	NM_001242361.1:c.	N/A	Intron Variant
NRDC transcript variant 1	NM_002525.2:c.	N/A	Intron Variant
NRDC transcript variant X4	XM_005270903.1:c.	N/A	Intron Variant
NRDC transcript variant X1	XM_011541522.1:c.	N/A	Intron Variant
NRDC transcript variant X3	XM_011541523.1:c.	N/A	Intron Variant
NRDC transcript variant X6	XM_011541525.2:c.	N/A	Intron Variant
NRDC transcript variant X4	XM_017001375.1:c.	N/A	Intron Variant

Molecule type	Change	Amino acid[Codon]	SO Term
LOC105378721 transcript	XR_947342.2:n.	N/A	Upstream Transcript Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.914	G=0.000
1000Genomes	American	Sub	694	T=0.900	G=0.01,
1000Genomes	East Asian	Sub	1008	T=0.988	G=0.003
1000Genomes	Europe	Sub	1006	T=0.874	G=0.021
1000Genomes	Global	Study-wide	5008	T=0.921	G=0.010
1000Genomes	South Asian	Sub	978	T=0.920	G=0.02,
The Genome Aggregation Database	African	Sub	8724	T=0.913	C=0.082
The Genome Aggregation Database	American	Sub	838	T=0.920	C=0.07,
The Genome Aggregation Database	East Asian	Sub	1616	T=0.992	C=0.008
The Genome Aggregation Database	Europe	Sub	18488	T=0.907	C=0.070
The Genome Aggregation Database	Global	Study-wide	29968	T=0.913	C=0.071
The Genome Aggregation Database	Other	Sub	302	T=0.850	C=0.13,

PMID	Title	Author	Journal
21703634	A meta-analysis of two genome-wide association studies identifies 3 new loci for alcohol dependence.	Wang KS	J Psychiatr Res

SNP ID	p-value	Traits	Study
rs1004815	3E-05	alcohol dependence	21703634

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 )
chr1	4367034	4367088	E069	-11783
chr1	4405193	4405289	E070	26322
chr1	4405979	4406023	E070	27108
chr1	4367602	4367657	E071	-11214
chr1	4329656	4329758	E081	-49113
chr1	4330613	4330782	E081	-48089
chr1	4330794	4331107	E081	-47764
chr1	4331379	4331448	E081	-47423
chr1	4378234	4378397	E081	-474
chr1	4379480	4379551	E081	609
chr1	4379607	4379900	E081	736
chr1	4381821	4382075	E081	2950
chr1	4329656	4329758	E082	-49113
chr1	4363845	4363914	E082	-14957
chr1	4379480	4379551	E082	609
chr1	4379607	4379900	E082	736
chr1	4381821	4382075	E082	2950
chr1	4427429	4427629	E082	48558

rs1004815