SNP Detail Info-rs9463046

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 6	NC_000006.12:g.44834981T>C
GRCh37.p13 chr 6	NC_000006.11:g.44802718T>C

Gene: SUPT3H, SPT3 homolog, SAGA and STAGA complex component(minus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
SUPT3H transcript variant 3	NM_001261823.1:c.	N/A	Intron Variant
SUPT3H transcript variant 1	NM_003599.3:c.	N/A	Intron Variant
SUPT3H transcript variant 2	NM_181356.2:c.	N/A	Intron Variant
SUPT3H transcript variant X4	XM_011514949.2:c.	N/A	Intron Variant
SUPT3H transcript variant X6	XM_011514950.1:c.	N/A	Intron Variant
SUPT3H transcript variant X7	XM_011514951.2:c.	N/A	Intron Variant
SUPT3H transcript variant X8	XM_011514952.2:c.	N/A	Intron Variant
SUPT3H transcript variant X8	XM_011514953.2:c.	N/A	Intron Variant
SUPT3H transcript variant X10	XM_011514954.2:c.	N/A	Intron Variant
SUPT3H transcript variant X3	XM_017011369.1:c.	N/A	Intron Variant
SUPT3H transcript variant X5	XM_017011370.1:c.	N/A	Intron Variant
SUPT3H transcript variant X11	XM_017011371.1:c.	N/A	Intron Variant
SUPT3H transcript variant X14	XM_017011372.1:c.	N/A	Intron Variant
SUPT3H transcript variant X16	XM_017011373.1:c.	N/A	Intron Variant
SUPT3H transcript variant X21	XM_017011374.1:c.	N/A	Intron Variant
SUPT3H transcript variant X2	XR_001743685.1:n.	N/A	Intron Variant
SUPT3H transcript variant X12	XR_001743686.1:n.	N/A	Intron Variant
SUPT3H transcript variant X15	XR_001743687.1:n.	N/A	Intron Variant
SUPT3H transcript variant X13	XR_001743688.1:n.	N/A	Intron Variant
SUPT3H transcript variant X19	XR_001743689.1:n.	N/A	Intron Variant
SUPT3H transcript variant X17	XR_001743691.1:n.	N/A	Intron Variant
SUPT3H transcript variant X1	XR_926319.2:n.	N/A	Intron Variant
SUPT3H transcript variant X20	XR_001743690.1:n.	N/A	Genic Downstream Transcript Variant
SUPT3H transcript variant X18	XR_001743692.1:n.	N/A	Genic Downstream Transcript Variant
SUPT3H transcript variant X10	XR_926320.1:n.	N/A	Genic Downstream Transcript Variant
SUPT3H transcript variant X14	XR_926321.1:n.	N/A	Genic Downstream Transcript Variant

Gene: LOC107986600, uncharacterized LOC107986600(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
LOC107986600 transcript	XR_001744142.1:n....XR_001744142.1:n.3963T>C	T>C	Non Coding Transcript Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	T=0.754	C=0.246
1000Genomes	American	Sub	694	T=0.920	C=0.080
1000Genomes	East Asian	Sub	1008	T=0.996	C=0.004
1000Genomes	Europe	Sub	1006	T=0.952	C=0.048
1000Genomes	Global	Study-wide	5008	T=0.904	C=0.096
1000Genomes	South Asian	Sub	978	T=0.950	C=0.050
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	T=0.961	C=0.039
The Genome Aggregation Database	African	Sub	8702	T=0.810	C=0.190
The Genome Aggregation Database	American	Sub	838	T=0.890	C=0.110
The Genome Aggregation Database	East Asian	Sub	1616	T=0.999	C=0.001
The Genome Aggregation Database	Europe	Sub	18484	T=0.959	C=0.040
The Genome Aggregation Database	Global	Study-wide	29942	T=0.916	C=0.083
The Genome Aggregation Database	Other	Sub	302	T=0.970	C=0.030
Trans-Omics for Precision Medicine	Global	Study-wide	29118	T=0.893	C=0.107
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	T=0.970	C=0.030

PMID	Title	Author	Journal
23953852	Genome-wide association studies of maximum number of drinks.	Pan Y	J Psychiatr Res

P-Value

SNP ID	p-value	Traits	Study
rs9463046	1.62E-05	alcohol consumption	23953852

eQTL of rs9463046 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 rs9463046 in Fetal Brain

Probe ID	Position	Gene	beta	p-value
There is no meQTL annotation for this SNP

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr6	44810308	44811350	E069	7590
chr6	44823596	44824311	E070	20878
chr6	44824366	44824465	E070	21648
chr6	44825639	44825910	E070	22921
chr6	44825922	44826044	E070	23204
chr6	44826727	44826785	E070	24009
chr6	44826864	44827997	E070	24146
chr6	44767847	44768497	E071	-34221
chr6	44823596	44824311	E073	20878
chr6	44824366	44824465	E073	21648
chr6	44810308	44811350	E074	7590
chr6	44811613	44811657	E074	8895
chr6	44811774	44811883	E074	9056
chr6	44823596	44824311	E081	20878
chr6	44824366	44824465	E081	21648
chr6	44824366	44824465	E082	21648
chr6	44825639	44825910	E082	22921
chr6	44825922	44826044	E082	23204
chr6	44826727	44826785	E082	24009

rs9463046

Genomic Coordinates

Gene: SUPT3H, SPT3 homolog, SAGA and STAGA complex component(minus strand)

Gene: LOC107986600, uncharacterized LOC107986600(plus strand)

Population Frequency

P-Value

eQTL of rs9463046 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs9463046 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)