rs17059529

Homo sapiens
G>A
LOC105378003 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0139 (4185/29954,GnomAD)
A=0131 (3815/29118,TOPMED)
A=0146 (731/5008,1000G)
A=0141 (544/3854,ALSPAC)
A=0127 (470/3708,TWINSUK)
chr6:130768967 (GRCh38.p7) (6q23.1)
AD
GWASdb2
1   publication(s)
See rs on genome
16 Enhancers around
3 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.130768967G>A
GRCh37.p13 chr 6NC_000006.11:g.131090112G>A

Gene: LOC105378003, uncharacterized LOC105378003(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105378003 transcriptXR_942991.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.936A=0.064
1000GenomesAmericanSub694G=0.830A=0.170
1000GenomesEast AsianSub1008G=0.788A=0.212
1000GenomesEuropeSub1006G=0.837A=0.163
1000GenomesGlobalStudy-wide5008G=0.854A=0.146
1000GenomesSouth AsianSub978G=0.840A=0.160
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.859A=0.141
The Genome Aggregation DatabaseAfricanSub8712G=0.929A=0.071
The Genome Aggregation DatabaseAmericanSub838G=0.840A=0.160
The Genome Aggregation DatabaseEast AsianSub1614G=0.790A=0.210
The Genome Aggregation DatabaseEuropeSub18488G=0.834A=0.165
The Genome Aggregation DatabaseGlobalStudy-wide29954G=0.860A=0.139
The Genome Aggregation DatabaseOtherSub302G=0.910A=0.090
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.869A=0.131
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.873A=0.127
PMID Title Author Journal
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs170595290.000542alcohol dependence21314694

eQTL of rs17059529 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 rs17059529 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 )
chr6131131454131131675E06741342
chr6131131454131131675E06841342
chr6131065889131066014E069-24098
chr6131066230131066393E069-23719
chr6131065889131066014E071-24098
chr6131066230131066393E071-23719
chr6131065889131066014E072-24098
chr6131066230131066393E072-23719
chr6131131454131131675E07441342
chr6131078079131078212E081-11900
chr6131078949131079204E081-10908
chr6131090917131090967E081805
chr6131131454131131675E08141342
chr6131092781131093199E0822669
chr6131131333131131383E08241221
chr6131131454131131675E08241342








Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr6131131892131132078E07141780
chr6131131892131132078E07241780
chr6131131892131132078E07341780