rs1551534

Homo sapiens
A>G
SLC24A2 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0130 (3899/29952,GnomAD)
G=0126 (3687/29118,TOPMED)
G=0157 (788/5008,1000G)
G=0081 (313/3854,ALSPAC)
G=0091 (339/3708,TWINSUK)
chr9:20255357 (GRCh38.p7) (9p21.3)
AD
GWASdb2
1   publication(s)
See rs on genome
33 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 9NC_000009.12:g.20255357A>G
GRCh37.p13 chr 9NC_000009.11:g.20255355A>G

Gene: SLC24A2, solute carrier family 24 member 2(minus strand)

Molecule type Change Amino acid[Codon] SO Term
SLC24A2 transcript variant 2NM_001193288.2:c.N/AGenic Upstream Transcript Variant
SLC24A2 transcript variant 1NM_020344.3:c.N/AGenic Upstream Transcript Variant
SLC24A2 transcript variant X3XM_017014592.1:c.N/AIntron Variant
SLC24A2 transcript variant X2XM_005251425.2:c.N/AGenic Upstream Transcript Variant
SLC24A2 transcript variant X1XM_005251426.4:c.N/AGenic Upstream Transcript Variant
SLC24A2 transcript variant X4XM_006716750.3:c.N/AGenic Upstream Transcript Variant
SLC24A2 transcript variant X5XM_017014593.1:c.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.809G=0.191
1000GenomesAmericanSub694A=0.930G=0.070
1000GenomesEast AsianSub1008A=0.778G=0.222
1000GenomesEuropeSub1006A=0.912G=0.088
1000GenomesGlobalStudy-wide5008A=0.843G=0.157
1000GenomesSouth AsianSub978A=0.820G=0.180
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.919G=0.081
The Genome Aggregation DatabaseAfricanSub8712A=0.806G=0.194
The Genome Aggregation DatabaseAmericanSub838A=0.900G=0.100
The Genome Aggregation DatabaseEast AsianSub1618A=0.793G=0.207
The Genome Aggregation DatabaseEuropeSub18482A=0.904G=0.095
The Genome Aggregation DatabaseGlobalStudy-wide29952A=0.869G=0.130
The Genome Aggregation DatabaseOtherSub302A=0.900G=0.100
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.873G=0.126
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.909G=0.091
PMID Title Author Journal
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs15515340.000646alcohol dependence21314694

eQTL of rs1551534 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 rs1551534 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 )
chr92024319820243649E070-11706
chr92020913820209269E081-46086
chr92020948720210481E081-44874
chr92024319820243649E081-11706
chr92024373220243905E081-11450
chr92024393620244162E081-11193
chr92024433520244620E081-10735
chr92024464020244756E081-10599
chr92024497520245043E081-10312
chr92025090520251084E081-4271
chr92027096320271047E08115608
chr92027108220271464E08115727
chr92028923120289428E08133876
chr92028955720290129E08134202
chr92029018620290681E08134831
chr92029089520290945E08135540
chr92029107320291123E08135718
chr92029136820291437E08136013
chr92029749820297555E08142143
chr92029761620298167E08142261
chr92024198620242046E082-13309
chr92024319820243649E082-11706
chr92024373220243905E082-11450
chr92024393620244162E082-11193
chr92024433520244620E082-10735
chr92024464020244756E082-10599
chr92024497520245043E082-10312
chr92028955720290129E08234202
chr92029018620290681E08234831
chr92029089520290945E08235540
chr92029107320291123E08235718
chr92029761620298167E08242261
chr92030107420301129E08245719