rs17625382

Homo sapiens
G>A
LOC105378314 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0117 (3514/29936,GnomAD)
A=0109 (3190/29118,TOPMED)
A=0075 (374/5008,1000G)
A=0183 (705/3854,ALSPAC)
A=0176 (654/3708,TWINSUK)
chr10:57812948 (GRCh38.p7) (10q21.1)
AD
GWASdb2 | GWASCatalog
1   publication(s)
See rs on genome
10 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 10NC_000010.11:g.57812948G>A
GRCh37.p13 chr 10NC_000010.10:g.59572708G>A

Gene: LOC105378314, uncharacterized LOC105378314(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105378314 transcriptXR_001747454.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.985A=0.015
1000GenomesAmericanSub694G=0.900A=0.100
1000GenomesEast AsianSub1008G=0.999A=0.001
1000GenomesEuropeSub1006G=0.810A=0.190
1000GenomesGlobalStudy-wide5008G=0.925A=0.075
1000GenomesSouth AsianSub978G=0.900A=0.100
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.817A=0.183
The Genome Aggregation DatabaseAfricanSub8728G=0.964A=0.036
The Genome Aggregation DatabaseAmericanSub838G=0.900A=0.100
The Genome Aggregation DatabaseEast AsianSub1616G=0.999A=0.001
The Genome Aggregation DatabaseEuropeSub18452G=0.835A=0.165
The Genome Aggregation DatabaseGlobalStudy-wide29936G=0.882A=0.117
The Genome Aggregation DatabaseOtherSub302G=0.780A=0.220
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.890A=0.109
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.824A=0.176
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
rs176253823E-06alcohol dependence (age at onset)24962325

eQTL of rs17625382 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 rs17625382 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 )
chr105954655759547364E070-25344
chr105954790159548037E070-24671
chr105954805259548139E070-24569
chr105960769459607836E07034986
chr105960799559608117E07035287
chr105960825459608428E07035546
chr105960867459608744E07035966
chr105960879059608912E07036082
chr105960943659609587E07036728
chr105960963359609777E07036925