SNP Detail Info-rs6459707

Organism: Homo sapiens

Alleles: C>T

Gene : Feature

CNPY1 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

C==0407 (12181/29886,GnomAD)
C==0384 (11198/29118,TOPMED)
C==0402 (2012/5008,1000G)
C==0436 (1682/3854,ALSPAC)
C==0435 (1612/3708,TWINSUK)

Position: chr7:155512409 (GRCh38.p7) (7q36.3)

Phenotype: ND

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 17 Enhancers around

Promoter: 9 Promoters around

Sequence Name	Change(s)
GRCh38.p7 chr 7	NC_000007.14:g.155512409C>T
GRCh37.p13 chr 7	NC_000007.13:g.155305104C>T

Molecule type	Change	Amino acid[Codon]	SO Term
CNPY1 transcript	NM_001103176.1:c.	N/A	Intron Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	C=0.315	T=0.685
1000Genomes	American	Sub	694	C=0.310	T=0.690
1000Genomes	East Asian	Sub	1008	C=0.463	T=0.537
1000Genomes	Europe	Sub	1006	C=0.445	T=0.555
1000Genomes	Global	Study-wide	5008	C=0.402	T=0.598
1000Genomes	South Asian	Sub	978	C=0.480	T=0.520
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	C=0.436	T=0.564
The Genome Aggregation Database	African	Sub	8698	C=0.340	T=0.660
The Genome Aggregation Database	American	Sub	836	C=0.280	T=0.720
The Genome Aggregation Database	East Asian	Sub	1610	C=0.509	T=0.491
The Genome Aggregation Database	Europe	Sub	18440	C=0.436	T=0.564
The Genome Aggregation Database	Global	Study-wide	29886	C=0.407	T=0.592
The Genome Aggregation Database	Other	Sub	302	C=0.430	T=0.570
Trans-Omics for Precision Medicine	Global	Study-wide	29118	C=0.384	T=0.615
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	C=0.435	T=0.565

PMID	Title	Author	Journal
20158304	A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.	Lind PA	Twin Res Hum Genet

SNP ID	p-value	Traits	Study
rs6459707	8.49E-06	alcohol and nictotine co-dependence	20158304

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 )
chr7	155276397	155276515	E067	-28589
chr7	155276565	155277081	E067	-28023
chr7	155263120	155263170	E070	-41934
chr7	155275978	155276024	E070	-29080
chr7	155276062	155276326	E070	-28778
chr7	155276397	155276515	E070	-28589
chr7	155335054	155335108	E070	29950
chr7	155335163	155335215	E070	30059
chr7	155335326	155335376	E070	30222
chr7	155335913	155336477	E070	30809
chr7	155336578	155336660	E070	31474
chr7	155276565	155277081	E071	-28023
chr7	155314800	155314850	E081	9696
chr7	155315467	155315961	E081	10363
chr7	155316041	155316082	E081	10937
chr7	155347910	155348351	E081	42806
chr7	155348392	155348442	E081	43288

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr7	155325547	155326842	E067	20443
chr7	155283071	155284614	E068	-20490
chr7	155325547	155326842	E069	20443
chr7	155283071	155284614	E071	-20490
chr7	155283071	155284614	E072	-20490
chr7	155283071	155284614	E073	-20490
chr7	155283071	155284614	E074	-20490
chr7	155325547	155326842	E074	20443
chr7	155302445	155303458	E082	-1646

rs6459707