rs55768019

Homo sapiens
A>G
LOC101928509 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0433 (12974/29922,GnomAD)
G=0438 (12773/29118,TOPMED)
G=0426 (2134/5008,1000G)
G=0444 (1712/3854,ALSPAC)
G=0450 (1668/3708,TWINSUK)
chr4:174106365 (GRCh38.p7) (4q34.1)
AD
GWASCatalog
1   publication(s)
See rs on genome
5 Enhancers around
28 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 4NC_000004.12:g.174106365A>G
GRCh37.p13 chr 4NC_000004.11:g.175027516A>G

Gene: LOC101928509, uncharacterized LOC101928509(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02268 transcriptNR_125896.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.601G=0.399
1000GenomesAmericanSub694A=0.620G=0.380
1000GenomesEast AsianSub1008A=0.500G=0.500
1000GenomesEuropeSub1006A=0.570G=0.430
1000GenomesGlobalStudy-wide5008A=0.574G=0.426
1000GenomesSouth AsianSub978A=0.580G=0.420
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.556G=0.444
The Genome Aggregation DatabaseAfricanSub8710A=0.585G=0.415
The Genome Aggregation DatabaseAmericanSub838A=0.580G=0.420
The Genome Aggregation DatabaseEast AsianSub1614A=0.493G=0.507
The Genome Aggregation DatabaseEuropeSub18458A=0.562G=0.437
The Genome Aggregation DatabaseGlobalStudy-wide29922A=0.566G=0.433
The Genome Aggregation DatabaseOtherSub302A=0.610G=0.390
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.561G=0.438
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.550G=0.450
PMID Title Author Journal
26365420The genetics of alcohol dependence: Twin and SNP-based heritability, and genome-wide association study based on AUDIT scores.Mbarek HAm J Med Genet B Neuropsychiatr Genet

P-Value

SNP ID p-value Traits Study
rs557680198E-07alcohol dependence26365420

eQTL of rs55768019 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr4:175027516RP11-148L24.1ENSG00000248174.1A>G2.1168e-17-114033Cortex
Chr4:175027516RP11-148L24.1ENSG00000248174.1A>G3.4983e-8-114033Brain_Spinal_cord_cervical

meQTL of rs55768019 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 )
chr4174990627174990671E070-36845
chr4174990791174991166E070-36350
chr4174991178174991279E070-36237
chr4175008152175008293E070-19223
chr4174988311174988402E081-39114


Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr4175056952175057523E06729436
chr4175041223175041303E06813707
chr4175041384175042136E06813868
chr4175056952175057523E06829436
chr4175041098175041222E06913582
chr4175041223175041303E06913707
chr4175041384175042136E06913868
chr4175056952175057523E06929436
chr4175056952175057523E07029436
chr4175041098175041222E07113582
chr4175041223175041303E07113707
chr4175041384175042136E07113868
chr4175056952175057523E07129436
chr4175041098175041222E07213582
chr4175041223175041303E07213707
chr4175041384175042136E07213868
chr4175056952175057523E07229436
chr4175041098175041222E07313582
chr4175041223175041303E07313707
chr4175041384175042136E07313868
chr4175056952175057523E07329436
chr4175041384175042136E07413868
chr4175056952175057523E07429436
chr4175041223175041303E08113707
chr4175041098175041222E08213582
chr4175041223175041303E08213707
chr4175041384175042136E08213868
chr4175056952175057523E08229436