rs7766862

Homo sapiens
G>A
TNXB : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0259 (7757/29902,GnomAD)
A=0209 (6089/29118,TOPMED)
A=0218 (1094/5008,1000G)
A=0301 (1159/3854,ALSPAC)
A=0314 (1166/3708,TWINSUK)
chr6:32065230 (GRCh38.p7) (6p21.33)
AD
GWASdb2
1   publication(s)
See rs on genome
103 Enhancers around
13 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 6NC_000006.12:g.32065230G>A
GRCh37.p13 chr 6NC_000006.11:g.32033007G>A
TNXB RefSeqGeneNG_008337.2:g.49145C>T
GRCh38.p7 chr 6 alt locus HSCHR6_MHC_COX_CTG1NT_113891.3:g.3503552G>A
GRCh37.p13 chr 6 alt locus HSCHR6_MHC_COX_CTG1NT_113891.2:g.3503658G>A
GRCh38.p7 chr 6 alt locus HSCHR6_MHC_MCF_CTG1NT_167247.2:g.3407263A>G
GRCh37.p13 chr 6 alt locus HSCHR6_MHC_MCF_CTG1NT_167247.1:g.3412848A>G
GRCh38.p7 chr 6 alt locus HSCHR6_MHC_DBB_CTG1NT_167245.2:g.3306638G>A
GRCh37.p13 chr 6 alt locus HSCHR6_MHC_DBB_CTG1NT_167245.1:g.3312223G>A
GRCh38.p7 chr 6 alt locus HSCHR6_MHC_QBL_CTG1NT_167248.2:g.3288464G>A
GRCh37.p13 chr 6 alt locus HSCHR6_MHC_QBL_CTG1NT_167248.1:g.3294060G>A
GRCh38.p7 chr 6 alt locus HSCHR6_MHC_SSTO_CTG1NT_167249.2:g.3366417A>G
GRCh37.p13 chr 6 alt locus HSCHR6_MHC_SSTO_CTG1NT_167249.1:g.3365715A>G
GRCh38.p7 chr 6 alt locus HSCHR6_MHC_MANN_CTG1NT_167246.2:g.3370208G>A
GRCh37.p13 chr 6 alt locus HSCHR6_MHC_MANN_CTG1NT_167246.1:g.3375828G>A

Gene: TNXB, tenascin XB(minus strand)

Molecule type Change Amino acid[Codon] SO Term
TNXB transcript variant XBNM_019105.6:c.N/AIntron Variant
TNXB transcript variant XB-SNM_032470.3:c.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.974A=0.026
1000GenomesAmericanSub694G=0.630A=0.370
1000GenomesEast AsianSub1008G=0.781A=0.219
1000GenomesEuropeSub1006G=0.657A=0.343
1000GenomesGlobalStudy-wide5008G=0.782A=0.218
1000GenomesSouth AsianSub978G=0.760A=0.240
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.699A=0.301
The Genome Aggregation DatabaseAfricanSub8720G=0.942A=0.058
The Genome Aggregation DatabaseAmericanSub834G=0.580A=0.420
The Genome Aggregation DatabaseEast AsianSub1612G=0.800A=0.200
The Genome Aggregation DatabaseEuropeSub18438G=0.650A=0.349
The Genome Aggregation DatabaseGlobalStudy-wide29902G=0.740A=0.259
The Genome Aggregation DatabaseOtherSub298G=0.560A=0.440
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.790A=0.209
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.686A=0.314
PMID Title Author Journal
21529783A quantitative-trait genome-wide association study of alcoholism risk in the community: findings and implications.Heath ACBiol Psychiatry

P-Value

SNP ID p-value Traits Study
rs77668623.4E-05alcoholism (heaviness of drinking)21529783

eQTL of rs7766862 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr6:32033007HLA-CENSG00000204525.10G>A8.5000e-26793125Cerebellum
Chr6:32033007CYP21A1PENSG00000204338.4G>A1.1355e-1059541Cerebellum
Chr6:32033007CYP21A1PENSG00000204338.4G>A1.4139e-459541Frontal_Cortex_BA9
Chr6:32033007CYP21A1PENSG00000204338.4G>A2.0354e-459541Hypothalamus
Chr6:32033007CYP21A1PENSG00000204338.4G>A9.0047e-859541Cortex
Chr6:32033007CYP21A1PENSG00000204338.4G>A2.2428e-759541Cerebellar_Hemisphere
Chr6:32033007CYP21A1PENSG00000204338.4G>A3.5262e-859541Caudate_basal_ganglia
Chr6:32033007ATF6BENSG00000213676.6G>A8.9864e-5-63023Brain_Spinal_cord_cervical
Chr6:32033007CYP21A1PENSG00000204338.4G>A1.5384e-459541Putamen_basal_ganglia
Chr6:32033007CYP21A1PENSG00000204338.4G>A2.1327e-659541Anterior_cingulate_cortex
Chr6:32033007CYP21A1PENSG00000204338.4G>A9.3055e-659541Nucleus_accumbens_basal_ganglia

meQTL of rs7766862 in Fetal Brain

Probe ID Position Gene beta p-value
cg11032077chr6:32032728TNXB-0.02909826505613774.9958e-15

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 )
chr63205982532059869E06726818
chr63205992732059971E06726920
chr63206049832061316E06727491
chr63207517832075329E06742171
chr63207533332075512E06742326
chr63208117032081311E06748163
chr63208135132081494E06748344
chr63201412732016365E068-16642
chr63201640232016772E068-16235
chr63206049832061316E06827491
chr63207693032077589E06843923
chr63207774832077956E06844741
chr63207897132079399E06845964
chr63207944532080700E06846438
chr63208086632081019E06847859
chr63208104032081096E06848033
chr63208117032081311E06848163
chr63208135132081494E06848344
chr63208162532082224E06848618
chr63201391032014085E069-18922
chr63201412732016365E069-16642
chr63204368732043780E06910680
chr63204398932044519E06910982
chr63204483432044960E06911827
chr63206049832061316E06927491
chr63206133832061607E06928331
chr63207944532080700E06946438
chr63208086632081019E06947859
chr63208104032081096E06948033
chr63208117032081311E06948163
chr63208135132081494E06948344
chr63208162532082224E06948618
chr63201391032014085E070-18922
chr63201412732016365E070-16642
chr63207693032077589E07043923
chr63201391032014085E071-18922
chr63201412732016365E071-16642
chr63202594932026050E071-6957
chr63204483432044960E07111827
chr63206049832061316E07127491
chr63206133832061607E07128331
chr63207533332075512E07142326
chr63207774832077956E07144741
chr63207814432078317E07145137
chr63207834232078930E07145335
chr63207897132079399E07145964
chr63207944532080700E07146438
chr63208086632081019E07147859
chr63208104032081096E07148033
chr63208117032081311E07148163
chr63208135132081494E07148344
chr63208162532082224E07148618
chr63201391032014085E072-18922
chr63201412732016365E072-16642
chr63205982532059869E07226818
chr63205992732059971E07226920
chr63206049832061316E07227491
chr63206133832061607E07228331
chr63207897132079399E07245964
chr63208117032081311E07248163
chr63208135132081494E07248344
chr63201391032014085E073-18922
chr63201412732016365E073-16642
chr63201640232016772E073-16235
chr63204857932049777E07315572
chr63205963932059689E07326632
chr63205982532059869E07326818
chr63205992732059971E07326920
chr63206049832061316E07327491
chr63207774832077956E07344741
chr63207834232078930E07345335
chr63207897132079399E07345964
chr63208086632081019E07347859
chr63208104032081096E07348033
chr63208117032081311E07348163
chr63208135132081494E07348344
chr63201391032014085E074-18922
chr63201412732016365E074-16642
chr63201640232016772E074-16235
chr63202594932026050E074-6957
chr63204398932044519E07410982
chr63204483432044960E07411827
chr63204999432050530E07416987
chr63205982532059869E07426818
chr63205992732059971E07426920
chr63206049832061316E07427491
chr63207944532080700E07446438
chr63208086632081019E07447859
chr63208104032081096E07448033
chr63208117032081311E07448163
chr63208135132081494E07448344
chr63208162532082224E07448618
chr63201391032014085E081-18922
chr63206049832061316E08127491
chr63206133832061607E08128331
chr63206166532061725E08128658
chr63206180232061854E08128795
chr63206237632062423E08129369
chr63206320832063359E08130201
chr63206514332065344E08132136
chr63201391032014085E082-18922
chr63202594932026050E082-6957
chr63205401132054089E08221004










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr63206408632064136E06731079
chr63206420132064492E06731194
chr63206453732064587E06731530
chr63206408632064136E06831079
chr63206420132064492E06831194
chr63206453732064587E06831530
chr63206408632064136E06931079
chr63206408632064136E07031079
chr63206408632064136E07231079
chr63206408632064136E07331079
chr63206420132064492E07331194
chr63206453732064587E07331530
chr63206420132064492E08231194