rs1356410

Homo sapiens
T>C
PLA2G4F : Missense Variant
Check p-value
SNV (Single Nucleotide Variation)
T==0254 (30858/121332,ExAC)
T==0243 (7271/29844,GnomAD)
T==0250 (7301/29118,TOPMED)
C=0274 (3570/13004,GO-ESP)
T==0186 (930/5008,1000G)
T==0320 (1232/3854,ALSPAC)
T==0332 (1230/3708,TWINSUK)
chr15:42142639 (GRCh38.p7) (15q15.1)
AD
GWASdb2
2   publication(s)
See rs on genome
89 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 15NC_000015.10:g.42142639T>C
GRCh37.p13 chr 15NC_000015.9:g.42434837T>C

Gene: PLA2G4F, phospholipase A2 group IVF(minus strand)

Molecule type Change Amino acid[Codon] SO Term
PLA2G4F transcript variant 1NM_213600.3:c.221...NM_213600.3:c.2218A>GM [ATG]> V [GTG]Coding Sequence Variant
cytosolic phospholipase A2 zeta precursorNP_998765.3:p.Met...NP_998765.3:p.Met740ValM [Met]> V [Val]Missense Variant
PLA2G4F transcript variant 2NR_033151.1:n.223...NR_033151.1:n.2237A>GA>GNon Coding Transcript Variant
PLA2G4F transcript variant X1XR_931785.1:n.242...XR_931785.1:n.2421A>GA>GNon Coding Transcript Variant
PLA2G4F transcript variant X2XR_931786.1:n.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.113C=0.887
1000GenomesAmericanSub694T=0.240C=0.760
1000GenomesEast AsianSub1008T=0.130C=0.870
1000GenomesEuropeSub1006T=0.337C=0.663
1000GenomesGlobalStudy-wide5008T=0.186C=0.814
1000GenomesSouth AsianSub978T=0.150C=0.850
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.320C=0.680
The Exome Aggregation ConsortiumAmericanSub21980T=0.165C=0.834
The Exome Aggregation ConsortiumAsianSub25164T=0.148C=0.851
The Exome Aggregation ConsortiumEuropeSub73284T=0.316C=0.683
The Exome Aggregation ConsortiumGlobalStudy-wide121332T=0.254C=0.745
The Exome Aggregation ConsortiumOtherSub904T=0.290C=0.710
The Genome Aggregation DatabaseAfricanSub8686T=0.154C=0.846
The Genome Aggregation DatabaseAmericanSub836T=0.230C=0.770
The Genome Aggregation DatabaseEast AsianSub1620T=0.119C=0.881
The Genome Aggregation DatabaseEuropeSub18400T=0.295C=0.704
The Genome Aggregation DatabaseGlobalStudy-wide29844T=0.243C=0.756
The Genome Aggregation DatabaseOtherSub302T=0.400C=0.600
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.250C=0.749
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.332C=0.668
PMID Title Author Journal
21529783A quantitative-trait genome-wide association study of alcoholism risk in the community: findings and implications.Heath ACBiol Psychiatry
18710563A human genome-wide library of local phylogeny predictions for whole-genome inference problems.Sridhar SBMC Genomics

P-Value

SNP ID p-value Traits Study
rs13564103.5E-05alcoholism (heaviness of drinking)21529783

eQTL of rs1356410 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr15:42434837RP11-107F6.3ENSG00000260814.2T>C3.8000e-4369907Cerebellum

meQTL of rs1356410 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 )
chr154240013742400224E067-34613
chr154244376042443845E0678923
chr154244397542444054E0679138
chr154244413942444995E0679302
chr154244314042443267E0688303
chr154244349742443547E0688660
chr154244354942443633E0688712
chr154244376042443845E0688923
chr154244397542444054E0689138
chr154244413942444995E0689302
chr154244974242449810E06814905
chr154244987742449925E06815040
chr154245007242450126E06815235
chr154245015742450245E06815320
chr154245035442450437E06815517
chr154245046142450538E06815624
chr154248018942480471E06845352
chr154239863242398748E069-36089
chr154239884342398961E069-35876
chr154239956042400101E069-34736
chr154240013742400224E069-34613
chr154244397542444054E0699138
chr154244413942444995E0699302
chr154245007242450126E06915235
chr154245015742450245E06915320
chr154245035442450437E06915517
chr154245046142450538E06915624
chr154245057342450811E06915736
chr154239750342397579E070-37258
chr154239760142397665E070-37172
chr154239784442397901E070-36936
chr154239846642398548E070-36289
chr154239863242398748E070-36089
chr154239884342398961E070-35876
chr154239956042400101E070-34736
chr154240013742400224E070-34613
chr154242392642423990E070-10847
chr154242402842424137E070-10700
chr154242415942424273E070-10564
chr154242428942424407E070-10430
chr154242444642424496E070-10341
chr154239217742392475E071-42362
chr154239249842392571E071-42266
chr154239258542392909E071-41928
chr154239846642398548E071-36289
chr154240013742400224E071-34613
chr154244354942443633E0718712
chr154244376042443845E0718923
chr154244397542444054E0719138
chr154244413942444995E0719302
chr154245007242450126E07115235
chr154245015742450245E07115320
chr154245035442450437E07115517
chr154245046142450538E07115624
chr154245057342450811E07115736
chr154245098242451098E07116145
chr154239760142397665E072-37172
chr154239784442397901E072-36936
chr154239846642398548E072-36289
chr154240013742400224E072-34613
chr154244376042443845E0728923
chr154244397542444054E0729138
chr154244413942444995E0729302
chr154244974242449810E07214905
chr154244987742449925E07215040
chr154245007242450126E07215235
chr154245015742450245E07215320
chr154245035442450437E07215517
chr154245046142450538E07215624
chr154245057342450811E07215736
chr154239956042400101E073-34736
chr154240013742400224E073-34613
chr154244376042443845E0738923
chr154244397542444054E0739138
chr154244413942444995E0739302
chr154245015742450245E07315320
chr154245035442450437E07315517
chr154245046142450538E07315624
chr154245057342450811E07315736
chr154244376042443845E0748923
chr154244397542444054E0749138
chr154244413942444995E0749302
chr154245015742450245E07415320
chr154245035442450437E07415517
chr154245046142450538E07415624
chr154239956042400101E081-34736
chr154240013742400224E081-34613
chr154239956042400101E082-34736
chr154240013742400224E082-34613