rs1535883

Homo sapiens
A>G
SIRPG : Intron Variant
SIRPG-AS1 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
A==0285 (8520/29886,GnomAD)
A==0278 (8117/29118,TOPMED)
A==0206 (1033/5008,1000G)
A==0353 (1360/3854,ALSPAC)
A==0342 (1268/3708,TWINSUK)
chr20:1632173 (GRCh38.p7) (20p13)
ND
GWASdb2
1   publication(s)
See rs on genome
97 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 20NC_000020.11:g.1632173A>G
GRCh37.p13 chr 20NC_000020.10:g.1612819A>G

Gene: SIRPG, signal regulatory protein gamma(minus strand)

Molecule type Change Amino acid[Codon] SO Term
SIRPG transcript variant 3NM_001039508.1:c.N/AIntron Variant
SIRPG transcript variant 1NM_018556.3:c.N/AIntron Variant
SIRPG transcript variant 2NM_080816.2:c.N/AIntron Variant
SIRPG transcript variant X2XM_005260749.3:c.N/AIntron Variant
SIRPG transcript variant X1XM_011529286.2:c.N/AIntron Variant
SIRPG transcript variant X3XM_011529287.2:c.N/AGenic Downstream Transcript Variant

Gene: SIRPG-AS1, SIRPG antisense RNA 1(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
SIRPG-AS1 transcriptNR_110090.1:n.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.187G=0.813
1000GenomesAmericanSub694A=0.230G=0.770
1000GenomesEast AsianSub1008A=0.141G=0.859
1000GenomesEuropeSub1006A=0.341G=0.659
1000GenomesGlobalStudy-wide5008A=0.206G=0.794
1000GenomesSouth AsianSub978A=0.140G=0.860
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.353G=0.647
The Genome Aggregation DatabaseAfricanSub8700A=0.205G=0.795
The Genome Aggregation DatabaseAmericanSub836A=0.240G=0.760
The Genome Aggregation DatabaseEast AsianSub1612A=0.184G=0.816
The Genome Aggregation DatabaseEuropeSub18436A=0.334G=0.665
The Genome Aggregation DatabaseGlobalStudy-wide29886A=0.285G=0.714
The Genome Aggregation DatabaseOtherSub302A=0.250G=0.750
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.278G=0.721
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.342G=0.658
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
rs15358835.39E-05alcohol and nictotine co-dependence20158304

eQTL of rs1535883 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 rs1535883 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 )
chr2016525631652604E06739744
chr2016527041652813E06739885
chr2016528491652920E06740030
chr2016530511653261E06740232
chr2016533841653564E06740565
chr2016536731653713E06740854
chr2016537411653875E06740922
chr2016541131654167E06741294
chr2016542181654310E06741399
chr2016543651654449E06741546
chr2016545491654665E06741730
chr2016518571651942E06839038
chr2016530511653261E06840232
chr2016533841653564E06840565
chr2016536731653713E06840854
chr2016537411653875E06840922
chr2016541131654167E06841294
chr2016542181654310E06841399
chr2016543651654449E06841546
chr2016545491654665E06841730
chr2016567151656756E06843896
chr2016569281656978E06844109
chr2016520001652064E06939181
chr2016525631652604E06939744
chr2016527041652813E06939885
chr2016528491652920E06940030
chr2016530511653261E06940232
chr2016533841653564E06940565
chr2016536731653713E06940854
chr2016537411653875E06940922
chr2016541131654167E06941294
chr2016542181654310E06941399
chr2016543651654449E06941546
chr2016545491654665E06941730
chr2016549601655094E06942141
chr2016558711656076E06943052
chr2016562221656284E06943403
chr2016564341656474E06943615
chr2016567151656756E06943896
chr2016043381604409E071-8410
chr2016045671604748E071-8071
chr2016518571651942E07139038
chr2016520001652064E07139181
chr2016525631652604E07139744
chr2016527041652813E07139885
chr2016528491652920E07140030
chr2016530511653261E07140232
chr2016533841653564E07140565
chr2016536731653713E07140854
chr2016537411653875E07140922
chr2016541131654167E07141294
chr2016542181654310E07141399
chr2016543651654449E07141546
chr2016567151656756E07143896
chr2016500841650217E07237265
chr2016502761650319E07237457
chr2016518571651942E07239038
chr2016525631652604E07239744
chr2016527041652813E07239885
chr2016530511653261E07240232
chr2016533841653564E07240565
chr2016536731653713E07240854
chr2016537411653875E07240922
chr2016541131654167E07241294
chr2016542181654310E07241399
chr2016543651654449E07241546
chr2016545491654665E07241730
chr2016549601655094E07242141
chr2016558711656076E07243052
chr2016562221656284E07243403
chr2016564341656474E07243615
chr2016567151656756E07243896
chr2016516211651771E07338802
chr2016562221656284E07343403
chr2016564341656474E07343615
chr2016567151656756E07343896
chr2016569281656978E07344109
chr2016575411657595E07344722
chr2016495451649662E07436726
chr2016520001652064E07439181
chr2016525631652604E07439744
chr2016527041652813E07439885
chr2016528491652920E07440030
chr2016530511653261E07440232
chr2016533841653564E07440565
chr2016536731653713E07440854
chr2016537411653875E07440922
chr2016541131654167E07441294
chr2016542181654310E07441399
chr2016543651654449E07441546
chr2016545491654665E07441730
chr2016549601655094E07442141
chr2016567151656756E07443896
chr2016569281656978E07444109
chr2016026311602730E081-10089
chr2016030661603120E081-9699
chr2016031371603441E081-9378