rs7893169

Homo sapiens
A>G
ZNF239 : 3 Prime UTR Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0174 (5214/29954,GnomAD)
G=0180 (5255/29118,TOPMED)
G=0238 (1193/5008,1000G)
G=0130 (500/3854,ALSPAC)
G=0126 (469/3708,TWINSUK)
chr10:43555267 (GRCh38.p7) (10q11.21)
ND
GWASdb2
1   publication(s)
See rs on genome
11 Enhancers around
11 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 10NC_000010.11:g.43555267A>G
GRCh37.p13 chr 10NC_000010.10:g.44050715A>G

Gene: ZNF239, zinc finger protein 239(minus strand)

Molecule type Change Amino acid[Codon] SO Term
ZNF239 transcript variant 2NM_001099282.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 4NM_001099283.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 3NM_001099284.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 5NM_001324347.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 6NM_001324348.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 7NM_001324349.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 8NM_001324350.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 9NM_001324351.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 10NM_001324352.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 11NM_001324353.1:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant 1NM_005674.2:c.N/AGenic Downstream Transcript Variant
ZNF239 transcript variant X1XM_011540232.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X2XM_011540234.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X3XM_011540235.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X4XM_017016740.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X5XM_011540236.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X6XM_011540237.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X7XM_006718001.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X8XM_005271832.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X9XM_006718003.3:c.N/A3 Prime UTR Variant
ZNF239 transcript variant X10XM_011540238.2:c.N/A3 Prime UTR Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.807G=0.193
1000GenomesAmericanSub694A=0.790G=0.210
1000GenomesEast AsianSub1008A=0.556G=0.444
1000GenomesEuropeSub1006A=0.845G=0.155
1000GenomesGlobalStudy-wide5008A=0.762G=0.238
1000GenomesSouth AsianSub978A=0.810G=0.190
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.870G=0.130
The Genome Aggregation DatabaseAfricanSub8720A=0.795G=0.205
The Genome Aggregation DatabaseAmericanSub834A=0.760G=0.240
The Genome Aggregation DatabaseEast AsianSub1612A=0.551G=0.449
The Genome Aggregation DatabaseEuropeSub18486A=0.867G=0.133
The Genome Aggregation DatabaseGlobalStudy-wide29954A=0.825G=0.174
The Genome Aggregation DatabaseOtherSub302A=0.850G=0.150
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.819G=0.180
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.874G=0.126
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs78931697.64E-06alcohol and nictotine co-dependence20158304

eQTL of rs7893169 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr10:44050715ZNF239ENSG00000196793.9A>G1.5066e-7-19351Cerebellum
Chr10:44050715ZNF239ENSG00000196793.9A>G1.1330e-3-19351Cerebellar_Hemisphere

meQTL of rs7893169 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 )
chr104406846344068676E06717748
chr104406868644068740E06717971
chr104406835444068429E06817639
chr104406846344068676E06817748
chr104406868644068740E06817971
chr104406846344068676E06917748
chr104406868644068740E06917971
chr104406846344068676E07117748
chr104406868644068740E07117971
chr104409100344091153E07140288
chr104406835444068429E08217639





Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr104406874344070477E06718028
chr104406874344070477E06818028
chr104406874344070477E06918028
chr104406874344070477E07018028
chr104406874344070477E07118028
chr104406874344070477E07218028
chr104406874344070477E07318028
chr104405321144053261E0742496
chr104406874344070477E07418028
chr104406874344070477E08118028
chr104406874344070477E08218028