rs10431903

Homo sapiens
G>A
HS3ST4 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0277 (8283/29884,GnomAD)
A=0248 (7226/29118,TOPMED)
A=0356 (1782/5008,1000G)
A=0309 (1190/3854,ALSPAC)
A=0293 (1088/3708,TWINSUK)
chr16:25744980 (GRCh38.p7) (16p12.1)
ND
GWASdb2
1   publication(s)
See rs on genome
30 Enhancers around
6 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 16NC_000016.10:g.25744980G>A
GRCh37.p13 chr 16NC_000016.9:g.25756301G>A

Gene: HS3ST4, heparan sulfate-glucosamine 3-sulfotransferase 4(plus strand)

Molecule type Change Amino acid[Codon] SO Term
HS3ST4 transcriptNM_006040.2:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.854A=0.146
1000GenomesAmericanSub694G=0.610A=0.390
1000GenomesEast AsianSub1008G=0.398A=0.602
1000GenomesEuropeSub1006G=0.704A=0.296
1000GenomesGlobalStudy-wide5008G=0.644A=0.356
1000GenomesSouth AsianSub978G=0.580A=0.420
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.691A=0.309
The Genome Aggregation DatabaseAfricanSub8712G=0.838A=0.162
The Genome Aggregation DatabaseAmericanSub836G=0.560A=0.440
The Genome Aggregation DatabaseEast AsianSub1604G=0.374A=0.626
The Genome Aggregation DatabaseEuropeSub18432G=0.709A=0.290
The Genome Aggregation DatabaseGlobalStudy-wide29884G=0.722A=0.277
The Genome Aggregation DatabaseOtherSub300G=0.570A=0.430
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.751A=0.248
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.707A=0.293
PMID Title Author Journal
19268276Genome-wide association study of smoking initiation and current smoking.Vink JMAm J Hum Genet

P-Value

SNP ID p-value Traits Study
rs104319030.000513nicotine smoking19268276

eQTL of rs10431903 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 rs10431903 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 )
chr162576184925762120E0705548
chr162576217525762269E0705874
chr162576230325762398E0706002
chr162576240725762541E0706106
chr162576261825763034E0706317
chr162579424425794589E07037943
chr162579470625794838E07038405
chr162572055525720890E081-35411
chr162572090025721090E081-35211
chr162572120225721399E081-34902
chr162572161925721691E081-34610
chr162573809925738216E081-18085
chr162574551025745787E081-10514
chr162574583625746091E081-10210
chr162574637225746431E081-9870
chr162576184925762120E0815548
chr162576217525762269E0815874
chr162576230325762398E0816002
chr162576240725762541E0816106
chr162576261825763034E0816317
chr162577571325776246E08119412
chr162577662425776708E08120323
chr162579793125798040E08141630
chr162579816225798669E08141861
chr162572055525720890E082-35411
chr162572090025721090E082-35211
chr162576184925762120E0825548
chr162576217525762269E0825874
chr162576230325762398E0826002
chr162576240725762541E0826106



Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr162570676825706829E081-49472
chr162570720625707256E081-49045
chr162570732525707393E081-48908
chr162570676825706829E082-49472
chr162570720625707256E082-49045
chr162570732525707393E082-48908