rs17398828

Homo sapiens
T>A / T>G
None
Check p-value
SNV (Single Nucleotide Variation)
G=0092 (2761/29958,GnomAD)
G=0136 (3982/29118,TOPMED)
G=0111 (554/5008,1000G)
G=0024 (92/3854,ALSPAC)
G=0030 (112/3708,TWINSUK)
chr21:24190721 (GRCh38.p7) (21q21.2)
AD
GWASdb2
1   publication(s)
See rs on genome
69 Enhancers around
26 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 21NC_000021.9:g.24190721T>A
GRCh38.p7 chr 21NC_000021.9:g.24190721T>G
GRCh37.p13 chr 21NC_000021.8:g.25563034T>A
GRCh37.p13 chr 21NC_000021.8:g.25563034T>G

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.675G=0.325
1000GenomesAmericanSub694T=0.950G=0.050
1000GenomesEast AsianSub1008T=0.996G=0.004
1000GenomesEuropeSub1006T=0.972G=0.028
1000GenomesGlobalStudy-wide5008T=0.889G=0.111
1000GenomesSouth AsianSub978T=0.940G=0.060
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.976G=0.024
The Genome Aggregation DatabaseAfricanSub8714T=0.732G=0.268
The Genome Aggregation DatabaseAmericanSub838T=0.970G=0.03,
The Genome Aggregation DatabaseEast AsianSub1616T=0.999G=0.001
The Genome Aggregation DatabaseEuropeSub18492T=0.979G=0.020
The Genome Aggregation DatabaseGlobalStudy-wide29958T=0.907G=0.092
The Genome Aggregation DatabaseOtherSub298T=0.960G=0.04,
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.863G=0.136
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.970G=0.030
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
rs173988280.00087alcohol dependence20201924

eQTL of rs17398828 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 rs17398828 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 )
chr214227362642273676E0678257
chr214227370542273916E0678336
chr214227395242274025E0678583
chr214227362642273676E0698257
chr214227370542273916E0698336
chr214227395242274025E0698583
chr214227410942274798E0698740
chr214227491542275289E0699546
chr214227534042275512E0699971
chr214227557142275629E06910202
chr214227246742272692E0707098
chr214227314142273276E0707772
chr214227343742273516E0708068
chr214227362642273676E0708257
chr214227370542273916E0708336
chr214227395242274025E0708583
chr214227410942274798E0708740
chr214227491542275289E0709546
chr214227534042275512E0709971
chr214227557142275629E07010202
chr214227569942276035E07010330
chr214228059142280631E07015222
chr214228083442280884E07015465
chr214228097142281096E07015602
chr214223243342232483E071-32886
chr214227370542273916E0718336
chr214227491542275289E0719546
chr214227534042275512E0719971
chr214227557142275629E07110202
chr214227569942276035E07110330
chr214227370542273916E0728336
chr214227395242274025E0728583
chr214227410942274798E0728740
chr214227534042275512E0729971
chr214227557142275629E07210202
chr214227370542273916E0738336
chr214227395242274025E0738583
chr214227410942274798E0738740
chr214227362642273676E0748257
chr214227370542273916E0748336
chr214227491542275289E0749546
chr214227534042275512E0749971
chr214227557142275629E07410202
chr214221956442219671E081-45698
chr214221978042220146E081-45223
chr214222031142220390E081-44979
chr214227362642273676E0818257
chr214227370542273916E0818336
chr214227395242274025E0818583
chr214227410942274798E0818740
chr214227491542275289E0819546
chr214227534042275512E0819971
chr214227557142275629E08110202
chr214227569942276035E08110330
chr214227667742276727E08111308
chr214227694542276995E08111576
chr214227725542277328E08111886
chr214227738542277534E08112016
chr214227759042277644E08112221
chr214221956442219671E082-45698
chr214221978042220146E082-45223
chr214227314142273276E0827772
chr214227343742273516E0828068
chr214227362642273676E0828257
chr214227370542273916E0828336
chr214227395242274025E0828583
chr214227410942274798E0828740
chr214227725542277328E08211886
chr214227738542277534E08212016









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr214221683242218384E067-46985
chr214221942642219515E067-45854
chr214221683242218384E068-46985
chr214221850142218713E068-46656
chr214221876142219255E068-46114
chr214221683242218384E069-46985
chr214221850142218713E069-46656
chr214221876142219255E069-46114
chr214221850142218713E070-46656
chr214221876142219255E070-46114
chr214221683242218384E071-46985
chr214221850142218713E071-46656
chr214221876142219255E071-46114
chr214221683242218384E072-46985
chr214221850142218713E072-46656
chr214221876142219255E072-46114
chr214221942642219515E072-45854
chr214221683242218384E073-46985
chr214221876142219255E073-46114
chr214221942642219515E073-45854
chr214221683242218384E074-46985
chr214221683242218384E081-46985
chr214221683242218384E082-46985
chr214221850142218713E082-46656
chr214221876142219255E082-46114
chr214221942642219515E082-45854