rs6562646

Homo sapiens
C>A
LOC105370255 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C==0242 (7235/29894,GnomAD)
C==0269 (7839/29116,TOPMED)
C==0335 (1676/5008,1000G)
C==0215 (828/3854,ALSPAC)
C==0211 (784/3708,TWINSUK)
chr13:70769146 (GRCh38.p7) (13q21.33)
AD
GWASdb2
1   publication(s)
See rs on genome
3 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 13NC_000013.11:g.70769146C>A
GRCh37.p13 chr 13NC_000013.10:g.71343278C>A

Gene: LOC105370255, uncharacterized LOC105370255(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105370255 transcript variant X1XR_942058.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.328A=0.672
1000GenomesAmericanSub694C=0.250A=0.750
1000GenomesEast AsianSub1008C=0.461A=0.539
1000GenomesEuropeSub1006C=0.234A=0.766
1000GenomesGlobalStudy-wide5008C=0.335A=0.665
1000GenomesSouth AsianSub978C=0.380A=0.620
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.215A=0.785
The Genome Aggregation DatabaseAfricanSub8706C=0.280A=0.720
The Genome Aggregation DatabaseAmericanSub836C=0.280A=0.720
The Genome Aggregation DatabaseEast AsianSub1608C=0.461A=0.539
The Genome Aggregation DatabaseEuropeSub18442C=0.203A=0.797
The Genome Aggregation DatabaseGlobalStudy-wide29894C=0.242A=0.758
The Genome Aggregation DatabaseOtherSub302C=0.270A=0.730
Trans-Omics for Precision MedicineGlobalStudy-wide29116C=0.269A=0.730
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.211A=0.789
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
rs65626460.000683alcohol dependence20201924

eQTL of rs6562646 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 rs6562646 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 )
chr137132109471321144E081-22134
chr137132133771321387E081-21891
chr137132140571321679E081-21599