rs13255262

Homo sapiens
T>G
SNX16 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T==0331 (9907/29888,GnomAD)
T==0339 (9879/29118,TOPMED)
T==0381 (1910/5008,1000G)
T==0332 (1280/3854,ALSPAC)
T==0321 (1189/3708,TWINSUK)
chr8:81815789 (GRCh38.p7) (8q21.13)
AD
GWASdb2
1   publication(s)
See rs on genome
94 Enhancers around
39 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 8NC_000008.11:g.81815789T>G
GRCh37.p13 chr 8NC_000008.10:g.82728024T>G

Gene: SNX16, sorting nexin 16(minus strand)

Molecule type Change Amino acid[Codon] SO Term
SNX16 transcript variant 1NM_022133.3:c.N/AIntron Variant
SNX16 transcript variant 2NM_152836.2:c.N/AIntron Variant
SNX16 transcript variant 3NM_152837.2:c.N/AIntron Variant
SNX16 transcript variant X1XM_005251282.4:c.N/AIntron Variant
SNX16 transcript variant X2XM_005251283.2:c.N/AIntron Variant
SNX16 transcript variant X3XM_011517574.2:c.N/AIntron Variant
SNX16 transcript variant X3XR_001745572.1:n.N/AIntron Variant
SNX16 transcript variant X5XR_001745573.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.321G=0.679
1000GenomesAmericanSub694T=0.390G=0.610
1000GenomesEast AsianSub1008T=0.597G=0.403
1000GenomesEuropeSub1006T=0.327G=0.673
1000GenomesGlobalStudy-wide5008T=0.381G=0.619
1000GenomesSouth AsianSub978T=0.290G=0.710
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.332G=0.668
The Genome Aggregation DatabaseAfricanSub8716T=0.327G=0.673
The Genome Aggregation DatabaseAmericanSub838T=0.320G=0.680
The Genome Aggregation DatabaseEast AsianSub1608T=0.633G=0.367
The Genome Aggregation DatabaseEuropeSub18424T=0.307G=0.692
The Genome Aggregation DatabaseGlobalStudy-wide29888T=0.331G=0.668
The Genome Aggregation DatabaseOtherSub302T=0.370G=0.630
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.339G=0.660
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.321G=0.679
PMID Title Author Journal
23743675A meta-analysis of two genome-wide association studies to identify novel loci for maximum number of alcoholic drinks.Kapoor MHum Genet

P-Value

SNP ID p-value Traits Study
rs132552623.31E-05alcohol consumption23743675

eQTL of rs13255262 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 rs13255262 in Fetal Brain

Probe ID Position Gene beta p-value
cg17211192chr8:82754475SNX160.06479748977329936.7363e-27
cg27398817chr8:82754497SNX160.03840175693116452.7176e-15
cg23324259chr8:82754387SNX160.01771319224007824.3004e-14

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 )
chr88272692182727044E067-980
chr88272708482727145E067-879
chr88272739782727713E067-311
chr88275141582751459E06723391
chr88275155182751632E06723527
chr88275169382751743E06723669
chr88275176982751905E06723745
chr88275192082751978E06723896
chr88275205182752101E06724027
chr88275213682752286E06724112
chr88275242482752500E06724400
chr88275252382752586E06724499
chr88274913582749745E06821111
chr88275040382750493E06822379
chr88275055782750622E06822533
chr88275073382750913E06822709
chr88275118682751259E06823162
chr88275141582751459E06823391
chr88275155182751632E06823527
chr88275169382751743E06823669
chr88275242482752500E06824400
chr88275252382752586E06824499
chr88275264882752702E06824624
chr88275205182752101E06924027
chr88275213682752286E06924112
chr88275242482752500E06924400
chr88275252382752586E06924499
chr88275264882752702E06924624
chr88270876682709232E070-18792
chr88270927582709325E070-18699
chr88270935482709440E070-18584
chr88273635982736422E0708335
chr88273760682737656E0709582
chr88273770482737783E0709680
chr88274913582749745E07021111
chr88272692182727044E071-980
chr88272739782727713E071-311
chr88275040382750493E07122379
chr88275055782750622E07122533
chr88275073382750913E07122709
chr88275176982751905E07123745
chr88275192082751978E07123896
chr88275205182752101E07124027
chr88275213682752286E07124112
chr88275242482752500E07124400
chr88275252382752586E07124499
chr88275264882752702E07124624
chr88277068982771569E07142665
chr88269268482693377E072-34647
chr88272629482726439E072-1585
chr88272692182727044E072-980
chr88272708482727145E072-879
chr88272739782727713E072-311
chr88272739782727713E073-311
chr88272692182727044E074-980
chr88275040382750493E07422379
chr88275055782750622E07422533
chr88275073382750913E07422709
chr88275118682751259E07423162
chr88275141582751459E07423391
chr88275155182751632E07423527
chr88275169382751743E07423669
chr88275176982751905E07423745
chr88275192082751978E07423896
chr88275205182752101E07424027
chr88275213682752286E07424112
chr88275242482752500E07424400
chr88275252382752586E07424499
chr88275264882752702E07424624
chr88269268482693377E081-34647
chr88274894182748991E08120917
chr88275118682751259E08123162
chr88275141582751459E08123391
chr88275155182751632E08123527
chr88275169382751743E08123669
chr88275176982751905E08123745
chr88275192082751978E08123896
chr88275205182752101E08124027
chr88275213682752286E08124112
chr88275242482752500E08124400
chr88275252382752586E08124499
chr88275264882752702E08124624
chr88269939382699447E082-28577
chr88269957982699654E082-28370
chr88274913582749745E08221111
chr88274982582749873E08221801
chr88275155182751632E08223527
chr88275169382751743E08223669
chr88275176982751905E08223745
chr88275192082751978E08223896
chr88275205182752101E08224027
chr88275213682752286E08224112
chr88275242482752500E08224400
chr88275252382752586E08224499










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr88275290282753069E06724878
chr88275314082753307E06725116
chr88275349982753591E06725475
chr88275360282754599E06725578
chr88275349982753591E06825475
chr88275360282754599E06825578
chr88275461982755486E06826595
chr88275290282753069E06924878
chr88275314082753307E06925116
chr88275349982753591E06925475
chr88275360282754599E06925578
chr88275290282753069E07024878
chr88275314082753307E07025116
chr88275349982753591E07025475
chr88275360282754599E07025578
chr88275290282753069E07124878
chr88275314082753307E07125116
chr88275349982753591E07125475
chr88275360282754599E07125578
chr88275461982755486E07126595
chr88275290282753069E07224878
chr88275314082753307E07225116
chr88275349982753591E07225475
chr88275360282754599E07225578
chr88275290282753069E07324878
chr88275314082753307E07325116
chr88275349982753591E07325475
chr88275360282754599E07325578
chr88275461982755486E07326595
chr88275314082753307E07425116
chr88275349982753591E07425475
chr88275360282754599E07425578
chr88275461982755486E07426595
chr88275360282754599E08125578
chr88275290282753069E08224878
chr88275314082753307E08225116
chr88275349982753591E08225475
chr88275360282754599E08225578
chr88275461982755486E08226595