rs10793442

Homo sapiens
C>A
ZNF239 : 3 Prime UTR Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0154 (4636/29948,GnomAD)
A=0149 (4351/29118,TOPMED)
A=0216 (1084/5008,1000G)
A=0129 (498/3854,ALSPAC)
A=0126 (466/3708,TWINSUK)
chr10:43556371 (GRCh38.p7) (10q11.21)
ND
GWASdb2
2   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.43556371C>A
GRCh37.p13 chr 10NC_000010.10:g.44051819C>A

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

Molecule type Change Amino acid[Codon] SO Term
ZNF239 transcript variant 1NM_005674.2:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 2NM_001099282.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 4NM_001099283.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 3NM_001099284.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 9NM_001324351.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 10NM_001324352.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 6NM_001324348.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 8NM_001324350.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 5NM_001324347.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 11NM_001324353.1:c.N/A3 Prime UTR Variant
ZNF239 transcript variant 7NM_001324349.1:c.N/A3 Prime UTR 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
1000GenomesAfricanSub1322C=0.886A=0.114
1000GenomesAmericanSub694C=0.790A=0.210
1000GenomesEast AsianSub1008C=0.556A=0.444
1000GenomesEuropeSub1006C=0.845A=0.155
1000GenomesGlobalStudy-wide5008C=0.784A=0.216
1000GenomesSouth AsianSub978C=0.810A=0.190
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.871A=0.129
The Genome Aggregation DatabaseAfricanSub8722C=0.860A=0.140
The Genome Aggregation DatabaseAmericanSub836C=0.770A=0.230
The Genome Aggregation DatabaseEast AsianSub1610C=0.549A=0.451
The Genome Aggregation DatabaseEuropeSub18478C=0.867A=0.132
The Genome Aggregation DatabaseGlobalStudy-wide29948C=0.845A=0.154
The Genome Aggregation DatabaseOtherSub302C=0.850A=0.150
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.850A=0.149
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.874A=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
20641033Polymorphisms in predicted miRNA binding sites and osteoporosis.Lei SFJ Bone Miner Res

P-Value

SNP ID p-value Traits Study
rs107934427.64E-06alcohol and nictotine co-dependence20158304

eQTL of rs10793442 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr10:44051819ZNF239ENSG00000196793.9C>A1.5066e-7-18247Cerebellum
Chr10:44051819ZNF239ENSG00000196793.9C>A2.3808e-4-18247Cortex
Chr10:44051819ZNF239ENSG00000196793.9C>A1.1330e-3-18247Cerebellar_Hemisphere
Chr10:44051819ZNF239ENSG00000196793.9C>A1.9226e-2-18247Caudate_basal_ganglia

meQTL of rs10793442 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 )
chr104406846344068676E06716644
chr104406868644068740E06716867
chr104406835444068429E06816535
chr104406846344068676E06816644
chr104406868644068740E06816867
chr104406846344068676E06916644
chr104406868644068740E06916867
chr104406846344068676E07116644
chr104406868644068740E07116867
chr104409100344091153E07139184
chr104406835444068429E08216535





Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr104406874344070477E06716924
chr104406874344070477E06816924
chr104406874344070477E06916924
chr104406874344070477E07016924
chr104406874344070477E07116924
chr104406874344070477E07216924
chr104406874344070477E07316924
chr104405321144053261E0741392
chr104406874344070477E07416924
chr104406874344070477E08116924
chr104406874344070477E08216924