rs10167178

Homo sapiens
C>T
LOC151121 : Non Coding Transcript Variant
LOC105373612 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0412 (12336/29920,GnomAD)
T=0374 (10907/29118,TOPMED)
T=0438 (2193/5008,1000G)
T=0455 (1752/3854,ALSPAC)
T=0471 (1745/3708,TWINSUK)
chr2:129244152 (GRCh38.p7) (2q21.1)
AD
GWASdb2
1   publication(s)
See rs on genome
20 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 2NC_000002.12:g.129244152C>T
GRCh37.p13 chr 2NC_000002.11:g.130001725C>T

Gene: LOC151121, uncharacterized LOC151121(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC01854 transcript variant 2NR_122041.1:n.681G>AG>ANon Coding Transcript Variant
LINC01854 transcript variant 1NR_122040.1:n.769G>AG>ANon Coding Transcript Variant
LINC01854 transcript variant 3NR_122042.1:n.692G>AG>ANon Coding Transcript Variant

Gene: LOC105373612, uncharacterized LOC105373612(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
LOC105373612 transcriptXR_001739709.1:n.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.778T=0.222
1000GenomesAmericanSub694C=0.480T=0.520
1000GenomesEast AsianSub1008C=0.294T=0.706
1000GenomesEuropeSub1006C=0.568T=0.432
1000GenomesGlobalStudy-wide5008C=0.562T=0.438
1000GenomesSouth AsianSub978C=0.600T=0.400
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.545T=0.455
The Genome Aggregation DatabaseAfricanSub8710C=0.741T=0.259
The Genome Aggregation DatabaseAmericanSub838C=0.470T=0.530
The Genome Aggregation DatabaseEast AsianSub1616C=0.223T=0.777
The Genome Aggregation DatabaseEuropeSub18454C=0.552T=0.447
The Genome Aggregation DatabaseGlobalStudy-wide29920C=0.587T=0.412
The Genome Aggregation DatabaseOtherSub302C=0.620T=0.380
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.625T=0.374
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.529T=0.471
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
rs101671786.77E-06alcohol dependence (age at onset)24962325

eQTL of rs10167178 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 rs10167178 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 )
chr2129990903129991022E070-10703
chr2129991443129991904E070-9821
chr2129990903129991022E081-10703
chr2129991443129991904E081-9821
chr2129996773129997036E081-4689
chr2130010223130010353E0818498
chr2130010398130011293E0818673
chr2130038915130039052E08137190
chr2130039472130039687E08137747
chr2130039843130039996E08138118
chr2130050579130050658E08148854
chr2130050695130050812E08148970
chr2129996773129997036E082-4689
chr2130010223130010353E0828498
chr2130038591130038845E08236866
chr2130038915130039052E08237190
chr2130039472130039687E08237747
chr2130039843130039996E08238118
chr2130050579130050658E08248854
chr2130050695130050812E08248970