rs35102843

Homo sapiens
C>A
C15orf53 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0247 (7388/29894,GnomAD)
A=0249 (7253/29118,TOPMED)
A=0193 (967/5008,1000G)
A=0312 (1204/3854,ALSPAC)
A=0316 (1173/3708,TWINSUK)
chr15:38695906 (GRCh38.p7) (15q14)
AD
GWASdb2
1   publication(s)
See rs on genome
8 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 15NC_000015.10:g.38695906C>A
GRCh37.p13 chr 15NC_000015.9:g.38988107C>A

Gene: C15orf53, chromosome 15 open reading frame 53(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
C15orf53 transcriptNM_207444.2:c.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.828A=0.172
1000GenomesAmericanSub694C=0.750A=0.250
1000GenomesEast AsianSub1008C=0.901A=0.099
1000GenomesEuropeSub1006C=0.738A=0.262
1000GenomesGlobalStudy-wide5008C=0.807A=0.193
1000GenomesSouth AsianSub978C=0.800A=0.200
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.688A=0.312
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.750A=0.249
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.684A=0.316
PMID Title Author Journal
23089632A genome-wide association study of alcohol-dependence symptom counts in extended pedigrees identifies C15orf53.Wang JCMol Psychiatry

P-Value

SNP ID p-value Traits Study
rs351028434.55E-08alcohol dependence23089632

eQTL of rs35102843 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 rs35102843 in Fetal Brain

Probe ID Position Gene beta p-value
cg21039679chr15:38989738C15orf53-0.02688447685059417.6028e-16

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 )
chr153896065238961725E068-26382
chr153896065238961725E069-26382
chr153896065238961725E070-26382
chr153894079638940926E071-47181
chr153900002839001434E08111921
chr153900646639007349E08118359
chr153896051838960573E082-27534
chr153896065238961725E082-26382