rs16858596

Homo sapiens
G>A
ARHGAP15 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0042 (1270/29980,GnomAD)
A=0027 (800/29118,TOPMED)
A=0033 (163/5008,1000G)
A=0052 (201/3854,ALSPAC)
A=0047 (175/3708,TWINSUK)
chr2:143132712 (GRCh38.p7) (2q22.2)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 2NC_000002.12:g.143132712G>A
GRCh37.p13 chr 2NC_000002.11:g.143890281G>A

Gene: ARHGAP15, Rho GTPase activating protein 15(plus strand)

Molecule type Change Amino acid[Codon] SO Term
ARHGAP15 transcriptNM_018460.3:c.N/AIntron Variant
ARHGAP15 transcript variant X1XM_011511479.2:c.N/AIntron Variant
ARHGAP15 transcript variant X4XM_011511481.2:c.N/AIntron Variant
ARHGAP15 transcript variant X6XM_011511482.2:c.N/AIntron Variant
ARHGAP15 transcript variant X8XM_011511484.1:c.N/AIntron Variant
ARHGAP15 transcript variant X2XM_017004499.1:c.N/AIntron Variant
ARHGAP15 transcript variant X5XM_017004500.1:c.N/AIntron Variant
ARHGAP15 transcript variant X9XM_017004501.1:c.N/AIntron Variant
ARHGAP15 transcript variant X7XM_011511483.1:c.N/AGenic Upstream Transcript Variant
ARHGAP15 transcript variant X3XR_001738850.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.986A=0.014
1000GenomesAmericanSub694G=0.970A=0.030
1000GenomesEast AsianSub1008G=0.979A=0.021
1000GenomesEuropeSub1006G=0.935A=0.065
1000GenomesGlobalStudy-wide5008G=0.967A=0.033
1000GenomesSouth AsianSub978G=0.960A=0.040
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.948A=0.052
The Genome Aggregation DatabaseAfricanSub8724G=0.985A=0.015
The Genome Aggregation DatabaseAmericanSub838G=0.980A=0.020
The Genome Aggregation DatabaseEast AsianSub1620G=0.977A=0.023
The Genome Aggregation DatabaseEuropeSub18496G=0.941A=0.058
The Genome Aggregation DatabaseGlobalStudy-wide29980G=0.957A=0.042
The Genome Aggregation DatabaseOtherSub302G=0.980A=0.020
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.972A=0.027
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.953A=0.047
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
rs168585960.00053alcohol dependence20201924

eQTL of rs16858596 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 rs16858596 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 )
chr2143919827143920158E06729546
chr2143919827143920158E06829546
chr2143914580143914648E07024299
chr2143914717143914850E07024436
chr2143914897143914953E07024616
chr2143915030143915520E07024749
chr2143915578143915679E07025297
chr2143915793143915897E07025512
chr2143915898143915988E07025617
chr2143916155143916437E07025874
chr2143916557143916738E07026276
chr2143916820143917507E07026539
chr2143918453143918564E07028172
chr2143918714143918967E07028433
chr2143919155143919213E07028874
chr2143919531143919607E07029250
chr2143919827143920158E07029546
chr2143919827143920158E07429546
chr2143913151143913201E08122870
chr2143913392143913605E08123111
chr2143914580143914648E08124299
chr2143914717143914850E08124436
chr2143914897143914953E08124616
chr2143915030143915520E08124749
chr2143915578143915679E08125297
chr2143915793143915897E08125512
chr2143915898143915988E08125617
chr2143916155143916437E08125874
chr2143916557143916738E08126276
chr2143916820143917507E08126539
chr2143917543143917666E08127262
chr2143918453143918564E08128172
chr2143918714143918967E08128433
chr2143919155143919213E08128874
chr2143919531143919607E08129250
chr2143919827143920158E08129546
chr2143920771143920842E08130490
chr2143914580143914648E08224299
chr2143914717143914850E08224436
chr2143914897143914953E08224616
chr2143916155143916437E08225874
chr2143916557143916738E08226276
chr2143916820143917507E08226539
chr2143917543143917666E08227262
chr2143918714143918967E08228433
chr2143919155143919213E08228874
chr2143919531143919607E08229250
chr2143919827143920158E08229546
chr2143920771143920842E08230490