rs2179556

Homo sapiens
T>C
LOC105374972 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
T==0202 (6051/29936,GnomAD)
T==0157 (4572/29118,TOPMED)
T==0198 (994/5008,1000G)
T==0229 (884/3854,ALSPAC)
T==0241 (895/3708,TWINSUK)
chr6:22689022 (GRCh38.p7) (6p22.3)
AD
GWASdb2
1   publication(s)
See rs on genome
63 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.22689022T>C
GRCh37.p13 chr 6NC_000006.11:g.22689251T>C

Gene: LOC105374972, uncharacterized LOC105374972(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105374972 transcript variant 1NR_134613.1:n.N/AIntron Variant
LOC105374972 transcript variant 2NR_134614.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.076C=0.924
1000GenomesAmericanSub694T=0.150C=0.850
1000GenomesEast AsianSub1008T=0.361C=0.639
1000GenomesEuropeSub1006T=0.242C=0.758
1000GenomesGlobalStudy-wide5008T=0.198C=0.802
1000GenomesSouth AsianSub978T=0.190C=0.810
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.229C=0.771
The Genome Aggregation DatabaseAfricanSub8716T=0.099C=0.901
The Genome Aggregation DatabaseAmericanSub838T=0.120C=0.880
The Genome Aggregation DatabaseEast AsianSub1618T=0.339C=0.661
The Genome Aggregation DatabaseEuropeSub18462T=0.241C=0.758
The Genome Aggregation DatabaseGlobalStudy-wide29936T=0.202C=0.797
The Genome Aggregation DatabaseOtherSub302T=0.250C=0.750
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.157C=0.843
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.241C=0.759
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
rs21795560.00091alcohol dependence20201924

eQTL of rs2179556 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 rs2179556 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 )
chr62265494522655093E067-34158
chr62265679822658987E067-30264
chr62265907522659601E067-29650
chr62265494522655093E068-34158
chr62265679822658987E068-30264
chr62265907522659601E068-29650
chr62266031322660363E068-28888
chr62266048622660557E068-28694
chr62269881122698889E0689560
chr62269915522699205E0689904
chr62269941722699914E06810166
chr62270912222709352E06819871
chr62271001622711317E06820765
chr62271822322718398E06828972
chr62265406822654800E069-34451
chr62265679822658987E069-30264
chr62265907522659601E069-29650
chr62269941722699914E06910166
chr62271001622711317E06920765
chr62273718922737464E06947938
chr62264772822647778E070-41473
chr62264804722648214E070-41037
chr62265653822656614E070-32637
chr62265661922656753E070-32498
chr62265679822658987E070-30264
chr62265907522659601E070-29650
chr62266031322660363E070-28888
chr62266048622660557E070-28694
chr62266065922660750E070-28501
chr62269683822696945E0707587
chr62269763422697704E0708383
chr62269915522699205E0709904
chr62269941722699914E07010166
chr62273753322737990E07048282
chr62265406822654800E071-34451
chr62265494522655093E071-34158
chr62265679822658987E071-30264
chr62265907522659601E071-29650
chr62269881122698889E0719560
chr62269915522699205E0719904
chr62269941722699914E07110166
chr62271001622711317E07120765
chr62265211822652214E072-37037
chr62265406822654800E072-34451
chr62265494522655093E072-34158
chr62265907522659601E072-29650
chr62269915522699205E0729904
chr62265614322656203E074-33048
chr62265653822656614E074-32637
chr62265661922656753E074-32498
chr62265679822658987E074-30264
chr62265907522659601E074-29650
chr62271001622711317E07420765
chr62271822322718398E07428972
chr62265907522659601E081-29650
chr62266031322660363E081-28888
chr62266048622660557E081-28694
chr62266065922660750E081-28501
chr62266885022669547E081-19704
chr62265679822658987E082-30264
chr62265907522659601E082-29650
chr62271001622711317E08220765
chr62271822322718398E08228972