rs1561451

Homo sapiens
A>G
SLC39A10 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A==0281 (8416/29894,GnomAD)
A==0324 (1621/5008,1000G)
A==0255 (981/3854,ALSPAC)
A==0244 (903/3708,TWINSUK)
chr2:195684712 (GRCh38.p7) (2q32.3)
AD
GWASdb2
1   publication(s)
See rs on genome

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 2NC_000002.12:g.195684712A>G
GRCh37.p13 chr 2NC_000002.11:g.196549436A>G

Gene: SLC39A10, solute carrier family 39 member 10(plus strand)

Molecule type Change Amino acid[Codon] SO Term
SLC39A10 transcript variant 1NM_001127257.1:c.N/AIntron Variant
SLC39A10 transcript variant 2NM_020342.2:c.N/AIntron Variant
SLC39A10 transcript variant X1XM_005246689.4:c.N/AIntron Variant
SLC39A10 transcript variant X2XM_011511504.2:c.N/AIntron Variant
SLC39A10 transcript variant X4XM_011511505.2:c.N/AIntron Variant
SLC39A10 transcript variant X3XM_011511506.2:c.N/AIntron Variant
SLC39A10 transcript variant X5XM_011511507.2:c.N/AIntron Variant
SLC39A10 transcript variant X6XM_017004522.1:c.N/AIntron Variant
SLC39A10 transcript variant X7XM_017004523.1:c.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.259G=0.741
1000GenomesAmericanSub694A=0.380G=0.620
1000GenomesEast AsianSub1008A=0.318G=0.682
1000GenomesEuropeSub1006A=0.265G=0.735
1000GenomesGlobalStudy-wide5008A=0.324G=0.676
1000GenomesSouth AsianSub978A=0.430G=0.570
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.255G=0.745
The Genome Aggregation DatabaseAfricanSub8716A=0.274G=0.726
The Genome Aggregation DatabaseAmericanSub838A=0.360G=0.640
The Genome Aggregation DatabaseEast AsianSub1614A=0.351G=0.649
The Genome Aggregation DatabaseEuropeSub18424A=0.273G=0.726
The Genome Aggregation DatabaseGlobalStudy-wide29894A=0.281G=0.718
The Genome Aggregation DatabaseOtherSub302A=0.430G=0.570
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.244G=0.756
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
rs15614510.0000886alcoholismpha002892
rs15614510.000089alcohol dependence20201924

eQTL of rs1561451 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr2:196549436SLC39A10ENSG00000196950.9A>G9.2991e-9108735Cerebellum

meQTL of rs1561451 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 )
chr2196530924196531064E067-18372
chr2196531147196531249E067-18187
chr2196552291196552796E0672855
chr2196571743196571934E06722307
chr2196531147196531249E068-18187
chr2196551759196551919E0682323
chr2196552291196552796E0682855
chr2196532763196532990E069-16446
chr2196530924196531064E070-18372
chr2196531147196531249E070-18187
chr2196551398196551453E0701962
chr2196551579196551657E0702143
chr2196551759196551919E0702323
chr2196552291196552796E0702855
chr2196532763196532990E071-16446
chr2196552291196552796E0712855
chr2196530924196531064E073-18372
chr2196531147196531249E073-18187
chr2196530924196531064E074-18372
chr2196531147196531249E074-18187
chr2196526812196526862E081-22574
chr2196527010196527154E081-22282
chr2196527701196527853E081-21583
chr2196527862196528001E081-21435
chr2196528041196528150E081-21286
chr2196531147196531249E081-18187
chr2196552291196552796E0822855









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr2196520779196524508E067-24928
chr2196520779196524508E068-24928
chr2196520779196524508E069-24928
chr2196520779196524508E070-24928
chr2196520779196524508E071-24928
chr2196520779196524508E072-24928
chr2196520779196524508E073-24928
chr2196520779196524508E074-24928
chr2196520779196524508E081-24928
chr2196520779196524508E082-24928