rs17629188

Homo sapiens
G>A / G>T
FNDC8 : Intron VariantNLE1 : 3 Prime UTR Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0105 (3138/29870,GnomAD)
A=0093 (2712/29118,TOPMED)
A=0065 (328/5008,1000G)
A=0161 (619/3854,ALSPAC)
A=0163 (606/3708,TWINSUK)
chr17:35130009 (GRCh38.p7) (17q12)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 17NC_000017.11:g.35130009G>A
GRCh38.p7 chr 17NC_000017.11:g.35130009G>T
GRCh37.p13 chr 17NC_000017.10:g.33457028G>A
GRCh37.p13 chr 17NC_000017.10:g.33457028G>T

Gene: FNDC8, fibronectin type III domain containing 8(plus strand)

Molecule type Change Amino acid[Codon] SO Term
FNDC8 transcriptNM_017559.2:c.N/AIntron Variant

Gene: NLE1, notchless homolog 1 (Drosophila)(minus strand)

Molecule type Change Amino acid[Codon] SO Term
NLE1 transcript variant 2NM_001014445.2:c.N/AGenic Downstream Transcript Variant
NLE1 transcript variant 1NM_018096.4:c.N/AGenic Downstream Transcript Variant
NLE1 transcript variant X1XM_017024777.1:c.N/A3 Prime UTR Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.992A=0.008
1000GenomesAmericanSub694G=0.910A=0.090
1000GenomesEast AsianSub1008G=1.000A=0.000
1000GenomesEuropeSub1006G=0.832A=0.168
1000GenomesGlobalStudy-wide5008G=0.935A=0.065
1000GenomesSouth AsianSub978G=0.910A=0.090
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.839A=0.161
The Genome Aggregation DatabaseAfricanSub8704G=0.973A=0.027
The Genome Aggregation DatabaseAmericanSub838G=0.920A=0.08,
The Genome Aggregation DatabaseEast AsianSub1618G=0.998A=0.002
The Genome Aggregation DatabaseEuropeSub18408G=0.849A=0.150
The Genome Aggregation DatabaseGlobalStudy-wide29870G=0.894A=0.105
The Genome Aggregation DatabaseOtherSub302G=0.810A=0.19,
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.906A=0.093
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.837A=0.163
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
rs176291880.00037alcohol dependence20201924

eQTL of rs17629188 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 rs17629188 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.