SNP Detail Info-rs2829746

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

LINC00158 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G==0105 (3143/29940,GnomAD)
G==0089 (2596/29118,TOPMED)
G==0173 (868/5008,1000G)
G==0080 (307/3854,ALSPAC)
G==0078 (290/3708,TWINSUK)

Position: chr21:25425777 (GRCh38.p7) (21q21.2)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 0 Enhancer around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 21	NC_000021.9:g.25425777G>A
GRCh37.p13 chr 21	NC_000021.8:g.26798089G>A

Molecule type	Change	Amino acid[Codon]	SO Term
LINC00158 transcript	NR_024027.2:n.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.136	A=0.864
1000Genomes	American	Sub	694	G=0.030	A=0.970
1000Genomes	East Asian	Sub	1008	G=0.411	A=0.589
1000Genomes	Europe	Sub	1006	G=0.083	A=0.917
1000Genomes	Global	Study-wide	5008	G=0.173	A=0.827
1000Genomes	South Asian	Sub	978	G=0.170	A=0.830
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.080	A=0.920
The Genome Aggregation Database	African	Sub	8726	G=0.120	A=0.880
The Genome Aggregation Database	American	Sub	836	G=0.050	A=0.950
The Genome Aggregation Database	East Asian	Sub	1610	G=0.427	A=0.573
The Genome Aggregation Database	Europe	Sub	18466	G=0.074	A=0.926
The Genome Aggregation Database	Global	Study-wide	29940	G=0.105	A=0.895
The Genome Aggregation Database	Other	Sub	302	G=0.010	A=0.990
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.089	A=0.910
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.078	A=0.922

PMID	Title	Author	Journal
22377092	ANAPC1 and SLCO3A1 are associated with nicotine dependence: meta-analysis of genome-wide association studies.	Wang KS	Drug Alcohol Depend

SNP ID	p-value	Traits	Study
rs2829746	3.93E-05	nicotine dependence (smoking)	22377092

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

rs2829746