rs16860738

Homo sapiens
T>C
LOC284632 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0192 (5773/29942,GnomAD)
C=0173 (5039/29118,TOPMED)
C=0256 (1284/5008,1000G)
C=0175 (673/3854,ALSPAC)
C=0181 (672/3708,TWINSUK)
chr1:24205654 (GRCh38.p7) (1p36.11)
AD
GWASdb2
1   publication(s)
See rs on genome
11 Enhancers around
8 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 1NC_000001.11:g.24205654T>C
GRCh37.p13 chr 1NC_000001.10:g.24532144T>C

Gene: LOC284632, uncharacterized LOC284632(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC284632 transcriptNR_027087.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.853C=0.147
1000GenomesAmericanSub694T=0.760C=0.240
1000GenomesEast AsianSub1008T=0.429C=0.571
1000GenomesEuropeSub1006T=0.836C=0.164
1000GenomesGlobalStudy-wide5008T=0.744C=0.256
1000GenomesSouth AsianSub978T=0.810C=0.190
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.825C=0.175
The Genome Aggregation DatabaseAfricanSub8718T=0.847C=0.153
The Genome Aggregation DatabaseAmericanSub838T=0.710C=0.290
The Genome Aggregation DatabaseEast AsianSub1610T=0.412C=0.588
The Genome Aggregation DatabaseEuropeSub18474T=0.825C=0.174
The Genome Aggregation DatabaseGlobalStudy-wide29942T=0.807C=0.192
The Genome Aggregation DatabaseOtherSub302T=0.900C=0.100
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.826C=0.173
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.819C=0.181
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
rs168607380.000967alcohol dependence21314694

eQTL of rs16860738 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 rs16860738 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 )
chr12452177624521999E068-10145
chr12452839324528946E069-3198
chr12454277224542854E07010628
chr12454290624543350E07010762
chr12452632424526401E071-5743
chr12452827424528392E071-3752
chr12452839324528946E071-3198
chr12452827424528392E072-3752
chr12452839324528946E072-3198
chr12454277224542854E08110628
chr12454290624543350E08110762






Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr12451283024514629E067-17515
chr12451283024514629E068-17515
chr12451283024514629E069-17515
chr12451283024514629E071-17515
chr12451283024514629E072-17515
chr12451283024514629E073-17515
chr12451283024514629E074-17515
chr12451283024514629E082-17515