rs1688609

Homo sapiens
G>T
None
Check p-value
SNV (Single Nucleotide Variation)
T=0269 (8068/29936,GnomAD)
T=0279 (8151/29118,TOPMED)
T=0215 (1075/5008,1000G)
T=0312 (1201/3854,ALSPAC)
T=0307 (1137/3708,TWINSUK)
chr6:118713978 (GRCh38.p7) (6q22.31)
AD
GWASdb2
1   publication(s)
See rs on genome
51 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.118713978G>T
GRCh37.p13 chr 6NC_000006.11:g.119035141G>T
CEP85L RefSeqGeneNG_021248.1:g.1098C>A

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.795T=0.205
1000GenomesAmericanSub694G=0.750T=0.250
1000GenomesEast AsianSub1008G=0.916T=0.084
1000GenomesEuropeSub1006G=0.694T=0.306
1000GenomesGlobalStudy-wide5008G=0.785T=0.215
1000GenomesSouth AsianSub978G=0.760T=0.240
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.688T=0.312
The Genome Aggregation DatabaseAfricanSub8716G=0.792T=0.208
The Genome Aggregation DatabaseAmericanSub836G=0.760T=0.240
The Genome Aggregation DatabaseEast AsianSub1614G=0.911T=0.089
The Genome Aggregation DatabaseEuropeSub18468G=0.684T=0.315
The Genome Aggregation DatabaseGlobalStudy-wide29936G=0.730T=0.269
The Genome Aggregation DatabaseOtherSub302G=0.710T=0.290
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.720T=0.279
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.693T=0.307
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
rs16886090.00091alcohol dependence20201924

eQTL of rs1688609 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 rs1688609 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 )
chr6119002238119002550E067-32591
chr6119026666119027641E067-7500
chr6119029741119029852E067-5289
chr6119034138119034518E067-623
chr6119026169119026396E068-8745
chr6119029741119029852E068-5289
chr6119034138119034518E068-623
chr6119069128119069258E06833987
chr6119001585119001798E069-33343
chr6119002058119002201E069-32940
chr6119002238119002550E069-32591
chr6119026666119027641E069-7500
chr6119029741119029852E069-5289
chr6119034138119034518E069-623
chr6119056343119056491E06921202
chr6119056589119056744E06921448
chr6119070382119070661E06935241
chr6119026169119026396E070-8745
chr6119029741119029852E070-5289
chr6119001585119001798E071-33343
chr6119026169119026396E071-8745
chr6119026666119027641E071-7500
chr6119036572119036792E0711431
chr6119065252119066123E07130111
chr6119069128119069258E07133987
chr6119001585119001798E072-33343
chr6119002238119002550E072-32591
chr6119026666119027641E072-7500
chr6119026169119026396E073-8745
chr6119001585119001798E074-33343
chr6119026666119027641E074-7500
chr6119034138119034518E074-623
chr6119069128119069258E07433987
chr6119070382119070661E07435241
chr6119079500119079631E07444359
chr6119026169119026396E081-8745
chr6119026666119027641E081-7500
chr6119027980119028306E081-6835
chr6119029741119029852E081-5289
chr6119060628119060690E08125487
chr6119060964119061637E08125823
chr6119061648119061804E08126507
chr6119061826119061906E08126685
chr6119067290119067848E08132149
chr6119026666119027641E082-7500
chr6119029741119029852E082-5289
chr6119060628119060690E08225487
chr6119060964119061637E08225823
chr6119061648119061804E08226507
chr6119061826119061906E08226685
chr6119070382119070661E08235241