SNP Detail Info-rs11099777

Organism: Homo sapiens

Alleles: G>A

Gene : Feature

LRBA : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

A=0077 (2319/29896,GnomAD)
A=0085 (2474/29118,TOPMED)
A=0141 (706/5008,1000G)
A=0064 (246/3854,ALSPAC)
A=0067 (248/3708,TWINSUK)

Position: chr4:150854107 (GRCh38.p7) (4q31.3)

Phenotype: AD

Dataset:

GWASdb2

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 17 Enhancers around

Promoter: 0 Promoter around

Molecule type	Change	Amino acid[Codon]	SO Term
LRBA transcript variant 1	NM_001199282.2:c.	N/A	Intron Variant
LRBA transcript variant 2	NM_006726.4:c.	N/A	Intron Variant
LRBA transcript variant X1	XM_005263372.3:c.	N/A	Intron Variant
LRBA transcript variant X2	XM_005263373.2:c.	N/A	Intron Variant
LRBA transcript variant X4	XM_005263374.3:c.	N/A	Intron Variant
LRBA transcript variant X6	XM_005263375.3:c.	N/A	Intron Variant
LRBA transcript variant X3	XM_011532434.2:c.	N/A	Intron Variant
LRBA transcript variant X5	XM_017008872.1:c.	N/A	Intron Variant
LRBA transcript variant X7	XM_017008873.1:c.	N/A	Genic Upstream Transcript Variant
LRBA transcript variant X8	XM_017008874.1:c.	N/A	Genic Upstream Transcript Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.946	A=0.054
1000Genomes	American	Sub	694	G=0.860	A=0.140
1000Genomes	East Asian	Sub	1008	G=0.722	A=0.278
1000Genomes	Europe	Sub	1006	G=0.940	A=0.060
1000Genomes	Global	Study-wide	5008	G=0.859	A=0.141
1000Genomes	South Asian	Sub	978	G=0.800	A=0.200
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.936	A=0.064
The Genome Aggregation Database	African	Sub	8710	G=0.936	A=0.064
The Genome Aggregation Database	American	Sub	838	G=0.850	A=0.150
The Genome Aggregation Database	East Asian	Sub	1604	G=0.752	A=0.248
The Genome Aggregation Database	Europe	Sub	18442	G=0.933	A=0.066
The Genome Aggregation Database	Global	Study-wide	29896	G=0.922	A=0.077
The Genome Aggregation Database	Other	Sub	302	G=0.930	A=0.070
Trans-Omics for Precision Medicine	Global	Study-wide	29118	G=0.915	A=0.085
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.933	A=0.067

PMID	Title	Author	Journal
21314694	Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.	Kendler KS	Alcohol Clin Exp Res

SNP ID	p-value	Traits	Study
rs11099777	0.000512	alcohol dependence	21314694

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
There is no eQTL annotation for this SNP

Probe ID	Position	Gene	beta	p-value
cg05823493	chr6:49518103	C6orf141	0.0357649204321511	7.0128e-9

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr4	151795584	151795812	E067	20325
chr4	151795903	151795957	E067	20644
chr4	151742842	151743190	E068	-32069
chr4	151795584	151795812	E068	20325
chr4	151795903	151795957	E068	20644
chr4	151795584	151795812	E069	20325
chr4	151795903	151795957	E069	20644
chr4	151733389	151733614	E070	-41645
chr4	151795584	151795812	E071	20325
chr4	151795903	151795957	E071	20644
chr4	151806437	151806594	E071	31178
chr4	151806680	151806760	E071	31421
chr4	151806845	151806966	E071	31586
chr4	151795584	151795812	E072	20325
chr4	151795903	151795957	E072	20644
chr4	151795584	151795812	E073	20325
chr4	151795903	151795957	E073	20644

rs11099777