rs10178320

Homo sapiens
T>C
SLC39A10 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T==0302 (9053/29932,GnomAD)
T==0309 (8998/29118,TOPMED)
T==0393 (1967/5008,1000G)
T==0257 (990/3854,ALSPAC)
T==0246 (911/3708,TWINSUK)
chr2:195677278 (GRCh38.p7) (2q32.3)
AD
GWASdb2
1   publication(s)
See rs on genome
27 Enhancers around
10 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 2NC_000002.12:g.195677278T>C
GRCh37.p13 chr 2NC_000002.11:g.196542002T>C

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/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.265C=0.735
1000GenomesAmericanSub694T=0.450C=0.550
1000GenomesEast AsianSub1008T=0.587C=0.413
1000GenomesEuropeSub1006T=0.266C=0.734
1000GenomesGlobalStudy-wide5008T=0.393C=0.607
1000GenomesSouth AsianSub978T=0.450C=0.550
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.257C=0.743
The Genome Aggregation DatabaseAfricanSub8702T=0.279C=0.721
The Genome Aggregation DatabaseAmericanSub838T=0.450C=0.550
The Genome Aggregation DatabaseEast AsianSub1608T=0.628C=0.372
The Genome Aggregation DatabaseEuropeSub18482T=0.276C=0.723
The Genome Aggregation DatabaseGlobalStudy-wide29932T=0.302C=0.697
The Genome Aggregation DatabaseOtherSub302T=0.430C=0.570
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.309C=0.691
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.246C=0.754
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
rs101783200.00015alcohol dependence20201924

eQTL of rs10178320 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr2:196542002SLC39A10ENSG00000196950.9T>C9.2991e-9101301Cerebellum

meQTL of rs10178320 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 )
chr2196530924196531064E067-10938
chr2196531147196531249E067-10753
chr2196552291196552796E06710289
chr2196571743196571934E06729741
chr2196531147196531249E068-10753
chr2196551759196551919E0689757
chr2196552291196552796E06810289
chr2196532763196532990E069-9012
chr2196530924196531064E070-10938
chr2196531147196531249E070-10753
chr2196551398196551453E0709396
chr2196551579196551657E0709577
chr2196551759196551919E0709757
chr2196552291196552796E07010289
chr2196532763196532990E071-9012
chr2196552291196552796E07110289
chr2196530924196531064E073-10938
chr2196531147196531249E073-10753
chr2196530924196531064E074-10938
chr2196531147196531249E074-10753
chr2196526812196526862E081-15140
chr2196527010196527154E081-14848
chr2196527701196527853E081-14149
chr2196527862196528001E081-14001
chr2196528041196528150E081-13852
chr2196531147196531249E081-10753
chr2196552291196552796E08210289









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr2196520779196524508E067-17494
chr2196520779196524508E068-17494
chr2196520779196524508E069-17494
chr2196520779196524508E070-17494
chr2196520779196524508E071-17494
chr2196520779196524508E072-17494
chr2196520779196524508E073-17494
chr2196520779196524508E074-17494
chr2196520779196524508E081-17494
chr2196520779196524508E082-17494