rs1959909

Homo sapiens
A>C
LOC644919 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A==0276 (8257/29876,GnomAD)
A==0243 (7082/29118,TOPMED)
A==0211 (1058/5008,1000G)
A==0273 (1051/3854,ALSPAC)
A==0274 (1015/3708,TWINSUK)
chr14:41088123 (GRCh38.p7) (14q21.1)
ND
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 14NC_000014.9:g.41088123A>C
GRCh37.p13 chr 14NC_000014.8:g.41557328A>C

Gene: LOC644919, uncharacterized LOC644919(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02315 transcript variant 2NR_109758.1:n.N/AIntron Variant
LINC02315 transcript variant 1NR_109757.1:n.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.190C=0.810
1000GenomesAmericanSub694A=0.240C=0.760
1000GenomesEast AsianSub1008A=0.207C=0.793
1000GenomesEuropeSub1006A=0.252C=0.748
1000GenomesGlobalStudy-wide5008A=0.211C=0.789
1000GenomesSouth AsianSub978A=0.180C=0.820
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.273C=0.727
The Genome Aggregation DatabaseAfricanSub8714A=0.217C=0.783
The Genome Aggregation DatabaseAmericanSub838A=0.260C=0.740
The Genome Aggregation DatabaseEast AsianSub1568A=0.156C=0.844
The Genome Aggregation DatabaseEuropeSub18454A=0.316C=0.683
The Genome Aggregation DatabaseGlobalStudy-wide29876A=0.276C=0.723
The Genome Aggregation DatabaseOtherSub302A=0.200C=0.800
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.243C=0.756
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.274C=0.726
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs19599095.73E-05alcohol and nictotine co-dependence20158304

eQTL of rs1959909 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
There is no eQTL annotation for this SNP

meQTL of rs1959909 in Fetal Brain

Probe ID Position Gene beta p-value
There is no meQTL annotation for this SNP

Genomic View

Chromatin Interaction

There is no significant Hi-C chromatin interaction data for this SNP.