rs4790825

Homo sapiens
A>G
RPA1 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A==0119 (3584/29978,GnomAD)
A==0140 (4099/29118,TOPMED)
A==0209 (1049/5008,1000G)
A==0074 (286/3854,ALSPAC)
A==0080 (298/3708,TWINSUK)
chr17:1842556 (GRCh38.p7) (17p13.3)
AD
GWASdb2
1   publication(s)
See rs on genome
56 Enhancers around
10 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 17NC_000017.11:g.1842556A>G
GRCh37.p13 chr 17NC_000017.10:g.1745850A>G

Gene: RPA1, replication protein A1(plus strand)

Molecule type Change Amino acid[Codon] SO Term
RPA1 transcriptNM_002945.3:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.219G=0.781
1000GenomesAmericanSub694A=0.200G=0.800
1000GenomesEast AsianSub1008A=0.250G=0.750
1000GenomesEuropeSub1006A=0.079G=0.921
1000GenomesGlobalStudy-wide5008A=0.209G=0.791
1000GenomesSouth AsianSub978A=0.290G=0.710
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.074G=0.926
The Genome Aggregation DatabaseAfricanSub8716A=0.188G=0.812
The Genome Aggregation DatabaseAmericanSub838A=0.170G=0.830
The Genome Aggregation DatabaseEast AsianSub1618A=0.179G=0.821
The Genome Aggregation DatabaseEuropeSub18504A=0.079G=0.920
The Genome Aggregation DatabaseGlobalStudy-wide29978A=0.119G=0.880
The Genome Aggregation DatabaseOtherSub302A=0.140G=0.860
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.140G=0.859
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.080G=0.920
PMID Title Author Journal
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs47908250.00099alcohol dependence21314694

eQTL of rs4790825 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 rs4790825 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 )
chr1717002161700430E067-45420
chr1717005051700604E067-45246
chr1717007051700897E067-44953
chr1717837221783838E06737872
chr1717839351784119E06738085
chr1717841301784546E06738280
chr1717845631784810E06738713
chr1717852831785333E06739433
chr1717856891785739E06739839
chr1717860511786134E06740201
chr1717861761786434E06740326
chr1717002161700430E068-45420
chr1717005051700604E068-45246
chr1717007051700897E068-44953
chr1717837221783838E06837872
chr1717839351784119E06838085
chr1717841301784546E06838280
chr1717845631784810E06838713
chr1717836131783663E06937763
chr1717837221783838E06937872
chr1717839351784119E06938085
chr1717845631784810E06938713
chr1717836131783663E07037763
chr1717837221783838E07037872
chr1717839351784119E07038085
chr1717841301784546E07038280
chr1717002161700430E071-45420
chr1717005051700604E071-45246
chr1717007051700897E071-44953
chr1717836131783663E07137763
chr1717837221783838E07137872
chr1717839351784119E07138085
chr1717841301784546E07138280
chr1717845631784810E07138713
chr1717852831785333E07139433
chr1717856891785739E07139839
chr1717002161700430E072-45420
chr1717005051700604E072-45246
chr1717007051700897E072-44953
chr1717836131783663E07237763
chr1717837221783838E07237872
chr1717839351784119E07238085
chr1717841301784546E07238280
chr1717845631784810E07238713
chr1717839351784119E07338085
chr1717841301784546E07338280
chr1717845631784810E07338713
chr1717852831785333E07339433
chr1717836131783663E07437763
chr1717837221783838E07437872
chr1717839351784119E07438085
chr1717841301784546E07438280
chr1717845631784810E07438713
chr1717852831785333E07439433
chr1717856891785739E07439839
chr1716965211697171E082-48679









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr1717322991734071E067-11779
chr1717322991734071E068-11779
chr1717322991734071E069-11779
chr1717322991734071E070-11779
chr1717322991734071E071-11779
chr1717322991734071E072-11779
chr1717322991734071E073-11779
chr1717322991734071E074-11779
chr1717322991734071E081-11779
chr1717322991734071E082-11779