SNP Detail Info-rs681561

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 13	NC_000013.11:g.100246275A>C
GRCh37.p13 chr 13	NC_000013.10:g.100898529A>C
PCCA RefSeqGene	NG_008768.1:g.162193A>C

Gene: PCCA, propionyl-CoA carboxylase alpha subunit(plus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
PCCA transcript variant 1	NM_000282.3:c.	N/A	Intron Variant
PCCA transcript variant 2	NM_001127692.2:c.	N/A	Intron Variant
PCCA transcript variant 3	NM_001178004.1:c.	N/A	Intron Variant
PCCA transcript variant X15	XM_005254059.2:c.	N/A	Intron Variant
PCCA transcript variant X4	XM_011521093.1:c.	N/A	Intron Variant
PCCA transcript variant X1	XM_017020605.1:c.	N/A	Intron Variant
PCCA transcript variant X2	XM_017020606.1:c.	N/A	Intron Variant
PCCA transcript variant X3	XM_017020607.1:c.	N/A	Intron Variant
PCCA transcript variant X4	XM_017020608.1:c.	N/A	Intron Variant
PCCA transcript variant X5	XM_017020609.1:c.	N/A	Intron Variant
PCCA transcript variant X7	XM_017020610.1:c.	N/A	Intron Variant
PCCA transcript variant X6	XM_017020611.1:c.	N/A	Intron Variant
PCCA transcript variant X8	XM_017020612.1:c.	N/A	Intron Variant
PCCA transcript variant X9	XM_017020613.1:c.	N/A	Intron Variant
PCCA transcript variant X12	XM_017020614.1:c.	N/A	Intron Variant
PCCA transcript variant X12	XM_017020615.1:c.	N/A	Intron Variant
PCCA transcript variant X14	XM_017020616.1:c.	N/A	Intron Variant
PCCA transcript variant X23	XM_017020617.1:c.	N/A	Intron Variant
PCCA transcript variant X26	XM_017020618.1:c.	N/A	Intron Variant
PCCA transcript variant X7	XR_001749567.1:n.	N/A	Intron Variant
PCCA transcript variant X10	XR_001749568.1:n.	N/A	Intron Variant
PCCA transcript variant X11	XR_001749569.1:n.	N/A	Intron Variant
PCCA transcript variant X17	XR_001749570.1:n.	N/A	Intron Variant
PCCA transcript variant X20	XR_001749571.1:n.	N/A	Intron Variant
PCCA transcript variant X21	XR_001749572.1:n.	N/A	Intron Variant
PCCA transcript variant X22	XR_001749573.1:n.	N/A	Intron Variant
PCCA transcript variant X15	XR_001749574.1:n.	N/A	Intron Variant
PCCA transcript variant X25	XR_001749575.1:n.	N/A	Intron Variant
PCCA transcript variant X16	XR_001749576.1:n.	N/A	Intron Variant
PCCA transcript variant X17	XR_001749577.1:n.	N/A	Intron Variant
PCCA transcript variant X13	XR_931615.1:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.351	C=0.649
1000Genomes	American	Sub	694	A=0.410	C=0.590
1000Genomes	East Asian	Sub	1008	A=0.232	C=0.768
1000Genomes	Europe	Sub	1006	A=0.538	C=0.462
1000Genomes	Global	Study-wide	5008	A=0.355	C=0.645
1000Genomes	South Asian	Sub	978	A=0.260	C=0.740
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.523	C=0.477
The Genome Aggregation Database	African	Sub	8642	A=0.369	C=0.631
The Genome Aggregation Database	American	Sub	834	A=0.410	C=0.590
The Genome Aggregation Database	East Asian	Sub	1618	A=0.231	C=0.769
The Genome Aggregation Database	Europe	Sub	18210	A=0.514	C=0.485
The Genome Aggregation Database	Global	Study-wide	29604	A=0.454	C=0.546
The Genome Aggregation Database	Other	Sub	300	A=0.550	C=0.450
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.431	C=0.568
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.498	C=0.502

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

P-Value

SNP ID	p-value	Traits	Study
rs681561	0.000393	alcohol dependence	21314694

eQTL of rs681561 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 rs681561 in Fetal Brain

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

Enhancer Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance ( -/+ : Up/Downstream )
chr13	100849809	100850677	E067	-47852
chr13	100882213	100882539	E068	-15990
chr13	100882580	100882794	E068	-15735
chr13	100882808	100882995	E068	-15534
chr13	100883006	100883066	E068	-15463
chr13	100883085	100883220	E068	-15309
chr13	100886036	100886086	E068	-12443
chr13	100886214	100886304	E068	-12225
chr13	100886380	100886512	E068	-12017
chr13	100886583	100886695	E068	-11834
chr13	100882580	100882794	E069	-15735
chr13	100882808	100882995	E069	-15534
chr13	100883006	100883066	E069	-15463
chr13	100883085	100883220	E069	-15309
chr13	100886380	100886512	E069	-12017
chr13	100886583	100886695	E069	-11834
chr13	100886748	100886867	E069	-11662
chr13	100886940	100887027	E069	-11502
chr13	100887030	100887341	E069	-11188
chr13	100922193	100922418	E069	23664
chr13	100882213	100882539	E071	-15990
chr13	100882580	100882794	E071	-15735
chr13	100882808	100882995	E071	-15534
chr13	100883006	100883066	E071	-15463
chr13	100883085	100883220	E071	-15309
chr13	100883252	100883435	E071	-15094
chr13	100883463	100883576	E071	-14953
chr13	100883580	100883654	E071	-14875
chr13	100886380	100886512	E071	-12017
chr13	100886583	100886695	E071	-11834
chr13	100886748	100886867	E071	-11662
chr13	100886940	100887027	E071	-11502
chr13	100887030	100887341	E071	-11188
chr13	100887464	100888201	E071	-10328
chr13	100922193	100922418	E071	23664
chr13	100882808	100882995	E073	-15534
chr13	100883006	100883066	E073	-15463
chr13	100883085	100883220	E073	-15309
chr13	100886214	100886304	E073	-12225
chr13	100886380	100886512	E073	-12017
chr13	100886583	100886695	E073	-11834
chr13	100886748	100886867	E073	-11662
chr13	100886940	100887027	E073	-11502
chr13	100887030	100887341	E073	-11188
chr13	100887464	100888201	E073	-10328
chr13	100922193	100922418	E074	23664

rs681561

Genomic Coordinates

Gene: PCCA, propionyl-CoA carboxylase alpha subunit(plus strand)

Population Frequency

P-Value

eQTL of rs681561 in Brain tissues (GTEx Analysis Release V7)

meQTL of rs681561 in Fetal Brain

Genomic View

Chromatin Interaction

Enhancer Annotation (GRCh37.p13)