rs5904713

Homo sapiens
G>T
None
Check p-value
SNV (Single Nucleotide Variation)
T=0130 (2698/20647,GnomAD)
T=0161 (606/3775,1000G)
T=0072 (266/3708,TWINSUK)
T=0076 (219/2889,ALSPAC)
chrX:147159661 (GRCh38.p7) (Xq27.3)
ND
GWASdb2
1   publication(s)
See rs on genome
10 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr XNC_000023.11:g.147159661G>T
GRCh37.p13 chr X fix patch HG1459_PATCHNW_004070890.2:g.2684052G>T
GRCh37.p13 chr XNC_000023.10:g.146241179G>T

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1003G=0.666T=0.334
1000GenomesAmericanSub524G=0.940T=0.060
1000GenomesEast AsianSub764G=0.930T=0.070
1000GenomesEuropeSub766G=0.940T=0.060
1000GenomesGlobalStudy-wide3775G=0.839T=0.161
1000GenomesSouth AsianSub718G=0.810T=0.190
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide2889G=0.924T=0.076
The Genome Aggregation DatabaseAfricanSub5760G=0.690T=0.310
The Genome Aggregation DatabaseAmericanSub609G=0.940T=0.060
The Genome Aggregation DatabaseEast AsianSub997G=0.920T=0.080
The Genome Aggregation DatabaseEuropeSub13090G=0.940T=0.059
The Genome Aggregation DatabaseGlobalStudy-wide20647G=0.869T=0.130
The Genome Aggregation DatabaseOtherSub191G=0.930T=0.070
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.928T=0.072
PMID Title Author Journal
17158188Novel genes identified in a high-density genome wide association study for nicotine dependence.Bierut LJHum Mol Genet

P-Value

SNP ID p-value Traits Study
rs59047130.000305nicotine dependence17158188

eQTL of rs5904713 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 rs5904713 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 )
chrX26834382683500E070-552
chrX26835602683661E070-391
chrX26837132683785E070-267
chrX26839862684078E0700
chrX27293832729530E07445331
chrX27299772730462E07445925
chrX26512552651322E081-32730
chrX26513962651646E081-32406
chrX26518582651908E081-32144
chrX26585412658623E082-25429