SNP Detail Info-rs2609954

Sequence Name	Change(s)
GRCh38.p7 chr 2	NC_000002.12:g.30648942G>A
GRCh37.p13 chr 2	NC_000002.11:g.30871808G>A

Molecule type	Change	Amino acid[Codon]	SO Term
CAPN13 transcript	NM_144575.2:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X7	XM_017005265.1:c.	N/A	Intron Variant
CAPN13 transcript variant X1	XM_011533159.2:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X4	XM_011533160.2:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X6	XM_011533161.2:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X11	XM_011533163.2:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X5	XM_017005264.1:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X8	XM_017005266.1:c.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X9	XR_001739074.1:n.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X2	XR_939741.2:n.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X3	XR_939742.2:n.	N/A	Genic Downstream Transcript Variant
CAPN13 transcript variant X9	XR_939743.2:n.	N/A	Genic Downstream Transcript Variant

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	G=0.229	A=0.771
1000Genomes	American	Sub	694	G=0.130	A=0.870
1000Genomes	East Asian	Sub	1008	G=0.134	A=0.866
1000Genomes	Europe	Sub	1006	G=0.208	A=0.792
1000Genomes	Global	Study-wide	5008	G=0.211	A=0.789
1000Genomes	South Asian	Sub	978	G=0.320	A=0.680
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	G=0.190	A=0.810
The Genome Aggregation Database	African	Sub	8604	G=0.241	A=0.759
The Genome Aggregation Database	American	Sub	832	G=0.110	A=0.890
The Genome Aggregation Database	East Asian	Sub	1612	G=0.135	A=0.865
The Genome Aggregation Database	Europe	Sub	18158	G=0.215	A=0.784
The Genome Aggregation Database	Global	Study-wide	29504	G=0.216	A=0.783
The Genome Aggregation Database	Other	Sub	298	G=0.280	A=0.720
Trans-Omics for Precision Medicine	Global	Study-wide	29116	G=0.200	A=0.800
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	G=0.191	A=0.809

PMID	Title	Author	Journal
20201924	Genome-wide association study of alcohol dependence implicates a region on chromosome 11.	Edenberg HJ	Alcohol Clin Exp Res

SNP ID	p-value	Traits	Study
rs2609954	0.0001	alcohol dependence	20201924

Position (v37)	eGene	GeneID	Variant	p-value	TSS	Tissue
Chr2:30871808	LCLAT1	ENSG00000172954.9	G>A	9.0207e-7	201716	Cortex

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

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr2	30902693	30902896	E067	30885
chr2	30902693	30902896	E068	30885
chr2	30911779	30912027	E069	39971
chr2	30912205	30912725	E069	40397
chr2	30827018	30827167	E070	-44641
chr2	30828144	30828346	E070	-43462
chr2	30848791	30849130	E070	-22678
chr2	30849230	30849292	E070	-22516
chr2	30850048	30850193	E070	-21615
chr2	30902693	30902896	E070	30885
chr2	30909393	30909507	E070	37585
chr2	30909561	30909697	E070	37753
chr2	30909712	30909786	E070	37904
chr2	30911274	30911335	E070	39466
chr2	30911779	30912027	E070	39971
chr2	30912205	30912725	E070	40397
chr2	30902693	30902896	E071	30885
chr2	30902693	30902896	E073	30885
chr2	30911779	30912027	E073	39971
chr2	30912205	30912725	E073	40397
chr2	30913035	30913126	E073	41227
chr2	30913168	30913249	E073	41360
chr2	30913266	30913362	E073	41458
chr2	30901711	30901854	E081	29903
chr2	30902693	30902896	E081	30885
chr2	30906940	30907725	E081	35132
chr2	30911274	30911335	E081	39466
chr2	30911779	30912027	E081	39971
chr2	30917246	30917336	E081	45438
chr2	30917525	30917939	E081	45717
chr2	30828144	30828346	E082	-43462
chr2	30902693	30902896	E082	30885
chr2	30906940	30907725	E082	35132
chr2	30911274	30911335	E082	39466
chr2	30911779	30912027	E082	39971
chr2	30912205	30912725	E082	40397

rs2609954