rs2842891

Homo sapiens
C>T
STX7 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C==0229 (6874/29924,GnomAD)
C==0204 (5967/29118,TOPMED)
C==0224 (1124/5008,1000G)
C==0226 (871/3854,ALSPAC)
C==0217 (803/3708,TWINSUK)
chr6:132496758 (GRCh38.p7) (6q23.2)
AD
GWASdb2
1   publication(s)
See rs on genome
119 Enhancers around
25 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.132496758C>T
GRCh37.p13 chr 6NC_000006.11:g.132817897C>T

Gene: STX7, syntaxin 7(minus strand)

Molecule type Change Amino acid[Codon] SO Term
STX7 transcript variant 3NM_003569.2:c.N/AIntron Variant
STX7 transcript variant X1XM_011536178.1:c.N/AIntron Variant
STX7 transcript variant X2XR_001743677.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.211T=0.789
1000GenomesAmericanSub694C=0.270T=0.730
1000GenomesEast AsianSub1008C=0.204T=0.796
1000GenomesEuropeSub1006C=0.187T=0.813
1000GenomesGlobalStudy-wide5008C=0.224T=0.776
1000GenomesSouth AsianSub978C=0.270T=0.730
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.226T=0.774
The Genome Aggregation DatabaseAfricanSub8714C=0.217T=0.783
The Genome Aggregation DatabaseAmericanSub838C=0.300T=0.700
The Genome Aggregation DatabaseEast AsianSub1612C=0.208T=0.792
The Genome Aggregation DatabaseEuropeSub18458C=0.236T=0.763
The Genome Aggregation DatabaseGlobalStudy-wide29924C=0.229T=0.770
The Genome Aggregation DatabaseOtherSub302C=0.120T=0.880
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.204T=0.795
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.217T=0.783
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
rs28428910.000225alcohol dependence21314694

eQTL of rs2842891 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 rs2842891 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 )
chr6132810264132811638E067-6259
chr6132811743132811842E067-6055
chr6132811847132812565E067-5332
chr6132812595132812745E067-5152
chr6132812769132813133E067-4764
chr6132813232132813339E067-4558
chr6132821297132821365E0673400
chr6132825386132825483E0677489
chr6132825510132825560E0677613
chr6132826011132826157E0678114
chr6132826414132826576E0678517
chr6132829091132829427E06711194
chr6132799780132799824E068-18073
chr6132803687132803758E068-14139
chr6132805248132805741E068-12156
chr6132805755132805825E068-12072
chr6132810264132811638E068-6259
chr6132811743132811842E068-6055
chr6132811847132812565E068-5332
chr6132812595132812745E068-5152
chr6132812769132813133E068-4764
chr6132825386132825483E0687489
chr6132825510132825560E0687613
chr6132826011132826157E0688114
chr6132826414132826576E0688517
chr6132829091132829427E06811194
chr6132799780132799824E069-18073
chr6132810264132811638E069-6259
chr6132811743132811842E069-6055
chr6132811847132812565E069-5332
chr6132812595132812745E069-5152
chr6132812769132813133E069-4764
chr6132813232132813339E069-4558
chr6132821297132821365E0693400
chr6132825386132825483E0697489
chr6132825510132825560E0697613
chr6132826011132826157E0698114
chr6132826414132826576E0698517
chr6132827767132827851E0699870
chr6132829091132829427E06911194
chr6132831952132832141E06914055
chr6132826414132826576E0708517
chr6132787359132787409E071-30488
chr6132787453132787530E071-30367
chr6132799780132799824E071-18073
chr6132800454132800504E071-17393
chr6132805248132805741E071-12156
chr6132805755132805825E071-12072
chr6132810264132811638E071-6259
chr6132811743132811842E071-6055
chr6132811847132812565E071-5332
chr6132812595132812745E071-5152
chr6132812769132813133E071-4764
chr6132813232132813339E071-4558
chr6132825386132825483E0717489
chr6132825510132825560E0717613
chr6132826011132826157E0718114
chr6132826414132826576E0718517
chr6132827767132827851E0719870
chr6132828144132828279E07110247
chr6132828502132828872E07110605
chr6132829091132829427E07111194
chr6132831738132831794E07113841
chr6132831952132832141E07114055
chr6132834909132835491E07117012
chr6132799780132799824E072-18073
chr6132800454132800504E072-17393
chr6132803830132803966E072-13931
chr6132803996132804070E072-13827
chr6132810264132811638E072-6259
chr6132811847132812565E072-5332
chr6132812595132812745E072-5152
chr6132812769132813133E072-4764
chr6132813232132813339E072-4558
chr6132826011132826157E0728114
chr6132826414132826576E0728517
chr6132831952132832141E07214055
chr6132799780132799824E073-18073
chr6132800454132800504E073-17393
chr6132805248132805741E073-12156
chr6132805755132805825E073-12072
chr6132810264132811638E073-6259
chr6132811743132811842E073-6055
chr6132811847132812565E073-5332
chr6132812595132812745E073-5152
chr6132812769132813133E073-4764
chr6132813232132813339E073-4558
chr6132820586132821156E0732689
chr6132826011132826157E0738114
chr6132826414132826576E0738517
chr6132834909132835491E07317012
chr6132799780132799824E074-18073
chr6132800454132800504E074-17393
chr6132805248132805741E074-12156
chr6132805755132805825E074-12072
chr6132810264132811638E074-6259
chr6132811743132811842E074-6055
chr6132811847132812565E074-5332
chr6132812595132812745E074-5152
chr6132812769132813133E074-4764
chr6132813232132813339E074-4558
chr6132825386132825483E0747489
chr6132825510132825560E0747613
chr6132826011132826157E0748114
chr6132826414132826576E0748517
chr6132827767132827851E0749870
chr6132829091132829427E07411194
chr6132834909132835491E07417012
chr6132777942132778296E081-39601
chr6132812595132812745E081-5152
chr6132831738132831794E08113841
chr6132831952132832141E08114055
chr6132834909132835491E08117012
chr6132845975132846423E08128078
chr6132846569132846789E08128672
chr6132847151132847353E08129254
chr6132811743132811842E082-6055
chr6132812769132813133E082-4764
chr6132831738132831794E08213841










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr6132833034132833247E06715137
chr6132833587132834819E06715690
chr6132851479132851846E06733582
chr6132833034132833247E06815137
chr6132833587132834819E06815690
chr6132833034132833247E06915137
chr6132833587132834819E06915690
chr6132851288132851476E06933391
chr6132851479132851846E06933582
chr6132833034132833247E07015137
chr6132833587132834819E07015690
chr6132833034132833247E07115137
chr6132833587132834819E07115690
chr6132851288132851476E07133391
chr6132851479132851846E07133582
chr6132833034132833247E07215137
chr6132833587132834819E07215690
chr6132833034132833247E07315137
chr6132833587132834819E07315690
chr6132833034132833247E07415137
chr6132833587132834819E07415690
chr6132833034132833247E08115137
chr6132833587132834819E08115690
chr6132833034132833247E08215137
chr6132833587132834819E08215690