rs1558637

Homo sapiens
G>A / G>T
TRAK2 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0280 (8368/29842,GnomAD)
T=0241 (1208/5008,1000G)
T=0289 (1114/3854,ALSPAC)
T=0291 (1080/3708,TWINSUK)
chr2:201398651 (GRCh38.p7) (2q33.1)
AD
GWASdb2
1   publication(s)
See rs on genome
18 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 2NC_000002.12:g.201398651G>A
GRCh38.p7 chr 2NC_000002.12:g.201398651G>T
GRCh37.p13 chr 2NC_000002.11:g.202263374G>A
GRCh37.p13 chr 2NC_000002.11:g.202263374G>T

Gene: TRAK2, trafficking protein, kinesin binding 2(minus strand)

Molecule type Change Amino acid[Codon] SO Term
TRAK2 transcriptNM_015049.2:c.N/AIntron Variant
TRAK2 transcript variant X1XM_011511690.1:c.N/AIntron Variant
TRAK2 transcript variant X2XM_017004772.1:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.790T=0.210
1000GenomesAmericanSub694G=0.610T=0.390
1000GenomesEast AsianSub1008G=0.747T=0.253
1000GenomesEuropeSub1006G=0.686T=0.314
1000GenomesGlobalStudy-wide5008G=0.759T=0.241
1000GenomesSouth AsianSub978G=0.910T=0.090
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.711T=0.289
The Genome Aggregation DatabaseAfricanSub8690G=0.772T=0.228
The Genome Aggregation DatabaseAmericanSub832G=0.610T=0.390
The Genome Aggregation DatabaseEast AsianSub1610G=0.776T=0.224
The Genome Aggregation DatabaseEuropeSub18410G=0.696T=0.304
The Genome Aggregation DatabaseGlobalStudy-wide29842G=0.719T=0.280
The Genome Aggregation DatabaseOtherSub300G=0.660T=0.340
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.709T=0.291
PMID Title Author Journal
20201924Genome-wide association study of alcohol dependence implicates a region on chromosome 11.Edenberg HJAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs15586370.00093alcohol dependence20201924

eQTL of rs1558637 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 rs1558637 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 )
chr2158936211158936455E0688005
chr2158890789158891233E070-36973
chr2158895122158895270E070-32936
chr2158898016158898377E070-29829
chr2158898716158899052E070-29154
chr2158899347158899603E070-28603
chr2158900091158900353E070-27853
chr2158972032158972080E07043826
chr2158972161158972259E07043955
chr2158977620158977670E07049414
chr2158978014158978064E07049808
chr2158972032158972080E07143826
chr2158972161158972259E07143955
chr2158977299158977465E08149093
chr2158977620158977670E08149414
chr2158971841158971972E08243635
chr2158972032158972080E08243826
chr2158972161158972259E08243955