rs8046979

Homo sapiens
A>G
TOX3 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A==0392 (11755/29946,GnomAD)
A==0326 (9507/29118,TOPMED)
A==0330 (1654/5008,1000G)
G=0453 (1747/3854,ALSPAC)
G=0477 (1769/3708,TWINSUK)
chr16:52521830 (GRCh38.p7) (16q12.1)
ND
GWASdb2
1   publication(s)
See rs on genome
165 Enhancers around
34 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 16NC_000016.10:g.52521830A>G
GRCh37.p13 chr 16NC_000016.9:g.52555742A>G
TOX3 RefSeqGeneNG_012623.1:g.30973T>C

Gene: TOX3, TOX high mobility group box family member 3(minus strand)

Molecule type Change Amino acid[Codon] SO Term
TOX3 transcript variant 1NM_001080430.3:c.N/AIntron Variant
TOX3 transcript variant 2NM_001146188.2:c.N/AIntron Variant
TOX3 transcript variant X1XM_005255892.3:c.N/AIntron Variant
TOX3 transcript variant X4XM_011523002.2:c.N/AGenic Upstream Transcript Variant
TOX3 transcript variant X2XM_017023142.1:c.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.043G=0.957
1000GenomesAmericanSub694A=0.430G=0.570
1000GenomesEast AsianSub1008A=0.266G=0.734
1000GenomesEuropeSub1006A=0.509G=0.491
1000GenomesGlobalStudy-wide5008A=0.330G=0.670
1000GenomesSouth AsianSub978A=0.530G=0.470
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.547G=0.453
The Genome Aggregation DatabaseAfricanSub8718A=0.107G=0.893
The Genome Aggregation DatabaseAmericanSub838A=0.460G=0.540
The Genome Aggregation DatabaseEast AsianSub1620A=0.262G=0.738
The Genome Aggregation DatabaseEuropeSub18468A=0.535G=0.464
The Genome Aggregation DatabaseGlobalStudy-wide29946A=0.392G=0.607
The Genome Aggregation DatabaseOtherSub302A=0.390G=0.610
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.326G=0.673
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.523G=0.477
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs80469792.3E-05alcohol and nictotine co-dependence20158304

eQTL of rs8046979 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 rs8046979 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 )
chr165253080952531812E067-23930
chr165253194352532056E067-23686
chr165253324352533624E067-22118
chr165253000752530718E068-25024
chr165253080952531812E068-23930
chr165253300252533127E068-22615
chr165253313552533220E068-22522
chr165252515852525352E069-30390
chr165252542352525510E069-30232
chr165252983652529890E069-25852
chr165253000752530718E069-25024
chr165253080952531812E069-23930
chr165253194352532056E069-23686
chr165254616952546219E069-9523
chr165254635152546503E069-9239
chr165252270052522965E070-32777
chr165252298552523035E070-32707
chr165252515852525352E070-30390
chr165252678552527381E070-28361
chr165252773352527783E070-27959
chr165252804652528228E070-27514
chr165252865652528811E070-26931
chr165252891952528969E070-26773
chr165252904852529166E070-26576
chr165252945152529712E070-26030
chr165252983652529890E070-25852
chr165253000752530718E070-25024
chr165253080952531812E070-23930
chr165253194352532056E070-23686
chr165253391852534020E070-21722
chr165253496152535019E070-20723
chr165254015152540201E070-15541
chr165254035052540400E070-15342
chr165254071552540797E070-14945
chr165254353652543623E070-12119
chr165254369252543877E070-11865
chr165254616952546219E070-9523
chr165254635152546503E070-9239
chr165254654852547011E070-8731
chr165254949952549549E070-6193
chr165255118652551247E070-4495
chr165255216152552236E070-3506
chr165255550252555857E0700
chr165255588352555979E070141
chr165255630152556351E070559
chr165255652452556615E070782
chr165255673452556784E070992
chr165255727852557328E0701536
chr165255752352558126E0701781
chr165255989852560460E0704156
chr165256101352561057E0705271
chr165256123952561337E0705497
chr165256138452561665E0705642
chr165256200752562115E0706265
chr165256231052562987E0706568
chr165256302852563475E0707286
chr165256353652563635E0707794
chr165256525052565304E0709508
chr165256624652566330E07010504
chr165256652852566578E07010786
chr165256777652567860E07012034
chr165256790052567950E07012158
chr165257107152571125E07015329
chr165257113652571186E07015394
chr165257126852571393E07015526
chr165257143652571771E07015694
chr165257179152571946E07016049
chr165257317752573517E07017435
chr165257462452574674E07018882
chr165257491452575141E07019172
chr165258346252583567E07027720
chr165258361952583717E07027877
chr165258428552584380E07028543
chr165258512952585305E07029387
chr165258568352585799E07029941
chr165258608652586347E07030344
chr165258644152586540E07030699
chr165258662352586877E07030881
chr165258735052587466E07031608
chr165258751252587651E07031770
chr165258805552588172E07032313
chr165258820952588249E07032467
chr165260272852602788E07046986
chr165260287452602923E07047132
chr165260298752603181E07047245
chr165260322852603450E07047486
chr165253000752530718E071-25024
chr165253080952531812E071-23930
chr165253324352533624E071-22118
chr165253374752533859E071-21883
chr165253391852534020E071-21722
chr165253080952531812E072-23930
chr165253324352533624E072-22118
chr165253374752533859E072-21883
chr165252515852525352E074-30390
chr165252542352525510E074-30232
chr165253000752530718E074-25024
chr165253080952531812E074-23930
chr165253194352532056E074-23686
chr165253300252533127E074-22615
chr165253313552533220E074-22522
chr165253324352533624E074-22118
chr165253374752533859E074-21883
chr165253606152536133E074-19609
chr165254635152546503E074-9239
chr165254654852547011E074-8731
chr165254708052547131E074-8611
chr165256072152560995E0744979
chr165256101352561057E0745271
chr165256123952561337E0745497
chr165256138452561665E0745642
chr165250946452509514E081-46228
chr165250952152509600E081-46142
chr165250970452510103E081-45639
chr165251011152510327E081-45415
chr165251058552510648E081-45094
chr165252945152529712E081-26030
chr165252983652529890E081-25852
chr165253000752530718E081-25024
chr165253080952531812E081-23930
chr165253194352532056E081-23686
chr165253224352532525E081-23217
chr165253300252533127E081-22615
chr165253313552533220E081-22522
chr165253324352533624E081-22118
chr165253374752533859E081-21883
chr165253391852534020E081-21722
chr165254324352543335E081-12407
chr165254335752543452E081-12290
chr165254353652543623E081-12119
chr165254369252543877E081-11865
chr165255727852557328E0811536
chr165255752352558126E0811781
chr165255833152558435E0812589
chr165255846852558624E0812726
chr165255900452559054E0813262
chr165255919552559235E0813453
chr165255938152559435E0813639
chr165255957152559761E0813829
chr165255989852560460E0814156
chr165256047152560650E0814729
chr165256072152560995E0814979
chr165257107152571125E08115329
chr165257113652571186E08115394
chr165258185152582288E08126109
chr165252945152529712E082-26030
chr165252983652529890E082-25852
chr165253080952531812E082-23930
chr165253194352532056E082-23686
chr165253224352532525E082-23217
chr165253300252533127E082-22615
chr165253313552533220E082-22522
chr165253324352533624E082-22118
chr165253374752533859E082-21883
chr165255752352558126E0821781
chr165255833152558435E0822589
chr165255846852558624E0822726
chr165255900452559054E0823262
chr165255919552559235E0823453
chr165255938152559435E0823639
chr165255957152559761E0823829
chr165255989852560460E0824156
chr165256777652567860E08212034
chr165256790052567950E08212158
chr165257317752573517E08217435









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr165257862552580620E06722883
chr165258064352580855E06724901
chr165257862552580620E06822883
chr165257862552580620E06922883
chr165258064352580855E06924901
chr165258094252581840E06925200
chr165257755252577719E07021810
chr165257777552578002E07022033
chr165257843352578615E07022691
chr165257862552580620E07022883
chr165258064352580855E07024901
chr165258094252581840E07025200
chr165257862552580620E07122883
chr165258064352580855E07124901
chr165258094252581840E07125200
chr165257843352578615E07222691
chr165257862552580620E07222883
chr165258064352580855E07224901
chr165258094252581840E07225200
chr165257862552580620E07322883
chr165258064352580855E07324901
chr165258094252581840E07325200
chr165257843352578615E07422691
chr165257862552580620E07422883
chr165258064352580855E07424901
chr165258094252581840E07425200
chr165257843352578615E08122691
chr165257862552580620E08122883
chr165257755252577719E08221810
chr165257777552578002E08222033
chr165257843352578615E08222691
chr165257862552580620E08222883
chr165258064352580855E08224901
chr165258094252581840E08225200