rs6561934

Homo sapiens
C>T
LOC105370217 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0185 (5542/29934,GnomAD)
T=0175 (5121/29116,TOPMED)
T=0200 (1003/5008,1000G)
T=0166 (641/3854,ALSPAC)
T=0184 (682/3708,TWINSUK)
chr13:57459417 (GRCh38.p7) (13q21.1)
AD
GWASdb2
1   publication(s)
See rs on genome
8 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 13NC_000013.11:g.57459417C>T
GRCh37.p13 chr 13NC_000013.10:g.58033551C>T

Gene: LOC105370217, uncharacterized LOC105370217(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105370217 transcriptXR_941983.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.818T=0.182
1000GenomesAmericanSub694C=0.930T=0.070
1000GenomesEast AsianSub1008C=0.616T=0.384
1000GenomesEuropeSub1006C=0.819T=0.181
1000GenomesGlobalStudy-wide5008C=0.800T=0.200
1000GenomesSouth AsianSub978C=0.850T=0.150
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.834T=0.166
The Genome Aggregation DatabaseAfricanSub8712C=0.837T=0.163
The Genome Aggregation DatabaseAmericanSub838C=0.910T=0.090
The Genome Aggregation DatabaseEast AsianSub1604C=0.661T=0.339
The Genome Aggregation DatabaseEuropeSub18478C=0.812T=0.187
The Genome Aggregation DatabaseGlobalStudy-wide29934C=0.814T=0.185
The Genome Aggregation DatabaseOtherSub302C=0.850T=0.150
Trans-Omics for Precision MedicineGlobalStudy-wide29116C=0.824T=0.175
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.816T=0.184
PMID Title Author Journal
24962325Genome-wide survival analysis of age at onset of alcohol dependence in extended high-risk COGA families.Kapoor MDrug Alcohol Depend

P-Value

SNP ID p-value Traits Study
rs65619345.22E-06alcohol dependence (age at onset)24962325

eQTL of rs6561934 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 rs6561934 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.

Enhancer Annotation (GRCh37.p13)

Chromosome Start End Region Distance ( -/+ : Up/Downstream )
chr135798386657984000E067-49551
chr135798386657984000E069-49551
chr135798386657984000E071-49551
chr135798386657984000E072-49551
chr135798386657984000E073-49551
chr135798386657984000E074-49551
chr135802517758025303E081-8248
chr135806669158066859E08133140