rs17600802

Homo sapiens
T>C
TEX26 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0231 (6915/29924,GnomAD)
C=0200 (5838/29116,TOPMED)
C=0204 (1023/5008,1000G)
C=0308 (1188/3854,ALSPAC)
C=0305 (1131/3708,TWINSUK)
chr13:30938017 (GRCh38.p7) (13q12.3)
AD
GWASdb2
1   publication(s)
See rs on genome
29 Enhancers around
2 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 13NC_000013.11:g.30938017T>C
GRCh37.p13 chr 13NC_000013.10:g.31512154T>C

Gene: TEX26, testis expressed 26(plus strand)

Molecule type Change Amino acid[Codon] SO Term
TEX26 transcriptNM_152325.1:c.N/AIntron Variant
TEX26 transcript variant X1XM_011534919.2:c.N/AIntron Variant
TEX26 transcript variant X3XM_011534921.2:c.N/AIntron Variant
TEX26 transcript variant X5XM_011534924.2:c.N/AIntron Variant
TEX26 transcript variant X6XM_011534925.2:c.N/AIntron Variant
TEX26 transcript variant X7XM_011534926.2:c.N/AIntron Variant
TEX26 transcript variant X8XM_011534927.2:c.N/AIntron Variant
TEX26 transcript variant X9XM_011534928.2:c.N/AIntron Variant
TEX26 transcript variant X2XR_001749479.1:n.N/AIntron Variant
TEX26 transcript variant X4XR_941493.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.983C=0.017
1000GenomesAmericanSub694T=0.690C=0.310
1000GenomesEast AsianSub1008T=0.832C=0.168
1000GenomesEuropeSub1006T=0.710C=0.290
1000GenomesGlobalStudy-wide5008T=0.796C=0.204
1000GenomesSouth AsianSub978T=0.670C=0.330
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.692C=0.308
The Genome Aggregation DatabaseAfricanSub8710T=0.935C=0.065
The Genome Aggregation DatabaseAmericanSub836T=0.660C=0.340
The Genome Aggregation DatabaseEast AsianSub1610T=0.848C=0.152
The Genome Aggregation DatabaseEuropeSub18466T=0.688C=0.311
The Genome Aggregation DatabaseGlobalStudy-wide29924T=0.768C=0.231
The Genome Aggregation DatabaseOtherSub302T=0.760C=0.240
Trans-Omics for Precision MedicineGlobalStudy-wide29116T=0.799C=0.200
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.695C=0.305
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
rs176008020.00014alcohol dependence20201924

eQTL of rs17600802 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 rs17600802 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 )
chr133148223331482418E069-29736
chr133147216831472218E070-39936
chr133147235931472465E070-39689
chr133148223331482418E070-29736
chr133148255931482862E070-29292
chr133150802631508076E070-4078
chr133150814231508221E070-3933
chr133155334131553905E07041187
chr133155718231557677E07045028
chr133155767931557885E07045525
chr133155792231557982E07045768
chr133150617631507646E071-4508
chr133147259831473638E081-38516
chr133148223331482418E081-29736
chr133148255931482862E081-29292
chr133148288731483121E081-29033
chr133150617631507646E081-4508
chr133150802631508076E081-4078
chr133150814231508221E081-3933
chr133154419231544242E08132038
chr133154438731544449E08132233
chr133154446531544666E08132311
chr133154481531544865E08132661
chr133154493531544987E08132781
chr133154526631545407E08133112
chr133154548131545541E08133327
chr133147259831473638E082-38516
chr133148223331482418E082-29736
chr133148255931482862E082-29292





Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr133147983931482158E071-29996
chr133147983931482158E073-29996