rs559096

Homo sapiens
C>T
None
Check p-value
SNV (Single Nucleotide Variation)
C==0393 (11747/29872,GnomAD)
C==0425 (12387/29118,TOPMED)
C==0414 (2075/5008,1000G)
C==0364 (1401/3854,ALSPAC)
C==0363 (1345/3708,TWINSUK)
chr5:50226512 (GRCh38.p7) (5q11.1)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.50226512C>T
GRCh37.p13 chr 5NC_000005.9:g.49522346C>T

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.515T=0.485
1000GenomesAmericanSub694C=0.330T=0.670
1000GenomesEast AsianSub1008C=0.479T=0.521
1000GenomesEuropeSub1006C=0.330T=0.670
1000GenomesGlobalStudy-wide5008C=0.414T=0.586
1000GenomesSouth AsianSub978C=0.360T=0.640
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.364T=0.636
The Genome Aggregation DatabaseAfricanSub8704C=0.525T=0.475
The Genome Aggregation DatabaseAmericanSub836C=0.340T=0.660
The Genome Aggregation DatabaseEast AsianSub1580C=0.520T=0.480
The Genome Aggregation DatabaseEuropeSub18450C=0.324T=0.675
The Genome Aggregation DatabaseGlobalStudy-wide29872C=0.393T=0.606
The Genome Aggregation DatabaseOtherSub302C=0.320T=0.680
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.425T=0.574
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.363T=0.637
PMID Title Author Journal
20201924Genome-wide association study of alcohol dependence implicates a region on chromosome 11.Edenberg HJAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs5590960.0000908alcoholismpha002891
rs5590960.0000908alcohol dependence20201924

eQTL of rs559096 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 rs559096 in Fetal Brain

Probe ID Position Gene beta p-value
cg15950743chr5:49708521EMB-0.08881648153864752.9669e-35

Genomic View

Chromatin Interaction

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