rs6897374

Homo sapiens
C>A
LOC101927740 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0101 (3051/29974,GnomAD)
A=0087 (2545/29118,TOPMED)
A=0150 (753/5008,1000G)
A=0093 (360/3854,ALSPAC)
A=0083 (309/3708,TWINSUK)
chr5:159114192 (GRCh38.p7) (5q33.3)
AD
GWASdb2
2   publication(s)
See rs on genome
10 Enhancers around
28 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.159114192C>A
GRCh37.p13 chr 5NC_000005.9:g.158541200C>A

Gene: LOC101927740, uncharacterized LOC101927740(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02202 transcriptNR_109890.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.927A=0.073
1000GenomesAmericanSub694C=0.880A=0.120
1000GenomesEast AsianSub1008C=0.613A=0.387
1000GenomesEuropeSub1006C=0.924A=0.076
1000GenomesGlobalStudy-wide5008C=0.850A=0.150
1000GenomesSouth AsianSub978C=0.890A=0.110
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.907A=0.093
The Genome Aggregation DatabaseAfricanSub8726C=0.924A=0.076
The Genome Aggregation DatabaseAmericanSub836C=0.850A=0.150
The Genome Aggregation DatabaseEast AsianSub1620C=0.609A=0.391
The Genome Aggregation DatabaseEuropeSub18490C=0.912A=0.087
The Genome Aggregation DatabaseGlobalStudy-wide29974C=0.898A=0.101
The Genome Aggregation DatabaseOtherSub302C=0.950A=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.912A=0.087
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.917A=0.083
PMID Title Author Journal
17236132A large-scale genetic association study confirms IL12B and leads to the identification of IL23R as psoriasis-risk genes.Cargill MAm J Hum Genet
24277619ALDH2 is associated to alcohol dependence and is the major genetic determinant of "daily maximum drinks" in a GWAS study of an isolated rural Chinese sample.Quillen EEAm J Med Genet B Neuropsychiatr Genet

P-Value

SNP ID p-value Traits Study
rs68973740.000369alcohol dependence24277619

eQTL of rs6897374 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 rs6897374 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 )
chr5158517849158518657E081-22543
chr5158544629158544842E0813429
chr5158544905158544966E0813705
chr5158579979158580255E08138779
chr5158580498158580552E08139298
chr5158580734158580803E08139534
chr5158509399158509566E082-31634
chr5158509590158509706E082-31494
chr5158579979158580255E08238779
chr5158580498158580552E08239298


Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr5158524019158525487E067-15713
chr5158525528158525595E067-15605
chr5158525976158528615E067-12585
chr5158521794158522171E068-19029
chr5158524019158525487E068-15713
chr5158525976158528615E068-12585
chr5158530983158531503E068-9697
chr5158531545158531779E068-9421
chr5158524019158525487E069-15713
chr5158525976158528615E069-12585
chr5158524019158525487E070-15713
chr5158525528158525595E070-15605
chr5158525976158528615E070-12585
chr5158525528158525595E071-15605
chr5158525976158528615E071-12585
chr5158524019158525487E072-15713
chr5158525528158525595E072-15605
chr5158525976158528615E072-12585
chr5158524019158525487E073-15713
chr5158525528158525595E073-15605
chr5158525976158528615E073-12585
chr5158524019158525487E074-15713
chr5158525528158525595E074-15605
chr5158525976158528615E074-12585
chr5158530983158531503E074-9697
chr5158531545158531779E074-9421
chr5158525528158525595E082-15605
chr5158525976158528615E082-12585