rs7753899

Homo sapiens
C>T
LOC107986628 : Non Coding Transcript Variant
LOC100422737 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0163 (4898/29928,GnomAD)
T=0201 (5853/29118,TOPMED)
T=0217 (1086/5008,1000G)
T=0046 (177/3854,ALSPAC)
T=0048 (179/3708,TWINSUK)
chr6:106744206 (GRCh38.p7) (6q21)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.106744206C>T
GRCh37.p13 chr 6 fix patch HG357_PATCHNW_004504300.1:g.48829C>T
GRCh37.p13 chr 6NC_000006.11:g.107192081C>T

Gene: LOC100422737, uncharacterized LOC100422737(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02532 transcriptNR_033557.1:n.N/AIntron Variant

Gene: LOC107986628, uncharacterized LOC107986628(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC107986628 transcriptXR_001744278.1:n....XR_001744278.1:n.5591G>AG>ANon Coding Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.577T=0.423
1000GenomesAmericanSub694C=0.750T=0.250
1000GenomesEast AsianSub1008C=0.843T=0.157
1000GenomesEuropeSub1006C=0.918T=0.082
1000GenomesGlobalStudy-wide5008C=0.783T=0.217
1000GenomesSouth AsianSub978C=0.890T=0.110
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.954T=0.046
The Genome Aggregation DatabaseAfricanSub8690C=0.643T=0.357
The Genome Aggregation DatabaseAmericanSub838C=0.800T=0.200
The Genome Aggregation DatabaseEast AsianSub1620C=0.880T=0.120
The Genome Aggregation DatabaseEuropeSub18478C=0.923T=0.077
The Genome Aggregation DatabaseGlobalStudy-wide29928C=0.836T=0.163
The Genome Aggregation DatabaseOtherSub302C=0.950T=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.799T=0.201
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.952T=0.048
PMID Title Author Journal
23743675A meta-analysis of two genome-wide association studies to identify novel loci for maximum number of alcoholic drinks.Kapoor MHum Genet

P-Value

SNP ID p-value Traits Study
rs77538995.13E-05alcohol consumption23743675

eQTL of rs7753899 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 rs7753899 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.