SNP Detail Info-rs11082277

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

LINC00907 : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0403 (12059/29906,GnomAD)
A=0350 (10196/29118,TOPMED)
A=0322 (1613/5008,1000G)
G==0412 (1588/3854,ALSPAC)
G==0400 (1483/3708,TWINSUK)

Position: chr18:42470398 (GRCh38.p7) (18q12.3)

Phenotype: ND

Dataset:

GWASdb2

Publications: 2 publication(s)

Genomic View: See rs on genome

Enhancer: 10 Enhancers around

Promoter: 0 Promoter around

Sequence Name	Change(s)
GRCh38.p7 chr 18	NC_000018.10:g.42470398G>A
GRCh37.p13 chr 18	NC_000018.9:g.40050363G>A

Molecule type	Change	Amino acid[Codon]	SO Term
LINC00907 transcript variant 1	NR_046174.2:n.	N/A	Intron Variant
LINC00907 transcript variant 2	NR_046454.1:n.	N/A	Intron Variant
LINC00907 transcript variant 3	NR_046455.1:n.	N/A	Intron Variant
LINC00907 transcript variant 4	NR_046456.1:n.	N/A	Genic Downstream Transcript Variant
LINC00907 transcript variant 5	NR_046457.1:n.	N/A	Genic Downstream Transcript Variant
LINC00907 transcript variant 6	NR_046458.1:n.	N/A	Genic Downstream Transcript Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.979	A=0.021
1000Genomes	American	Sub	694	G=0.530	A=0.470
1000Genomes	East Asian	Sub	1008	G=0.887	A=0.113
1000Genomes	Europe	Sub	1006	G=0.435	A=0.565
1000Genomes	Global	Study-wide	5008	G=0.678	A=0.322
1000Genomes	South Asian	Sub	978	G=0.410	A=0.590
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.412	A=0.588
The Genome Aggregation Database	African	Sub	8714	G=0.888	A=0.112
The Genome Aggregation Database	American	Sub	838	G=0.510	A=0.490
The Genome Aggregation Database	East Asian	Sub	1596	G=0.897	A=0.103
The Genome Aggregation Database	Europe	Sub	18456	G=0.441	A=0.558
The Genome Aggregation Database	Global	Study-wide	29906	G=0.596	A=0.403
The Genome Aggregation Database	Other	Sub	302	G=0.340	A=0.660
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.649	A=0.350
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.400	A=0.600

PMID	Title	Author	Journal
19268276	Genome-wide association study of smoking initiation and current smoking.	Vink JM	Am J Hum Genet
21556359	Novel autism subtype-dependent genetic variants are revealed by quantitative trait and subphenotype association analyses of published GWAS data.	Hu VW	PLoS One

SNP ID	p-value	Traits	Study
rs11082277	8.37E-05	nicotine smoking	19268276

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 )
chr18	40006443	40006787	E067	-43576
chr18	40006443	40006787	E069	-43576
chr18	40006443	40006787	E071	-43576
chr18	40055361	40055539	E071	4998
chr18	40006048	40006098	E074	-44265
chr18	40006109	40006159	E074	-44204
chr18	40006443	40006787	E074	-43576
chr18	40017634	40017929	E081	-32434
chr18	40017994	40018044	E081	-32319
chr18	40018142	40018266	E081	-32097

rs11082277