rs11825659

Organism: Homo sapiens

Alleles: A>G

Gene : Feature

IGSF9B : Intron Variant

p-value: Check p-value

Variation Type: SNV (Single Nucleotide Variation)

Frequency:

G=0113 (3388/29950,GnomAD)
G=0169 (4924/29118,TOPMED)
G=0116 (581/5008,1000G)
G=0011 (41/3854,ALSPAC)
G=0013 (49/3708,TWINSUK)

Position: chr11:133925624 (GRCh38.p7) (11q25)

Phenotype: AD

Dataset:

GWASCatalog

Publications: 1 publication(s)

Genomic View: See rs on genome

Enhancer: 321 Enhancers around

Promoter: 18 Promoters around

Variant Details Frequency Publications p-values eSNP meSNP

Genomic Coordinates

Sequence Name	Change(s)
GRCh38.p7 chr 11	NC_000011.10:g.133925624A>G
GRCh37.p13 chr 11	NC_000011.9:g.133795519A>G

Gene: IGSF9B, immunoglobulin superfamily member 9B(minus strand)

Molecule type	Change	Amino acid[Codon]	SO Term
IGSF9B transcript	NM_001277285.1:c.	N/A	Intron Variant
IGSF9B transcript variant X11	XM_006718795.3:c.	N/A	Intron Variant
IGSF9B transcript variant X1	XM_011542691.2:c.	N/A	Intron Variant
IGSF9B transcript variant X2	XM_011542692.2:c.	N/A	Intron Variant
IGSF9B transcript variant X4	XM_011542694.2:c.	N/A	Intron Variant
IGSF9B transcript variant X8	XM_011542695.2:c.	N/A	Intron Variant
IGSF9B transcript variant X3	XM_017017393.1:c.	N/A	Intron Variant
IGSF9B transcript variant X6	XM_017017394.1:c.	N/A	Intron Variant
IGSF9B transcript variant X7	XM_017017395.1:c.	N/A	Intron Variant
IGSF9B transcript variant X10	XM_017017396.1:c.	N/A	Intron Variant
IGSF9B transcript variant X5	XR_947812.2:n.	N/A	Intron Variant

Population Frequency

Study	Population	Group	Sample #	Ref Allele	Alt Allele
1000Genomes	African	Sub	1322	A=0.595	G=0.405
1000Genomes	American	Sub	694	A=0.940	G=0.060
1000Genomes	East Asian	Sub	1008	A=1.000	G=0.000
1000Genomes	Europe	Sub	1006	A=0.994	G=0.006
1000Genomes	Global	Study-wide	5008	A=0.884	G=0.116
1000Genomes	South Asian	Sub	978	A=1.000	G=0.000
The Avon Longitudinal Study of Parents and Children	PARENT AND CHILD COHORT	Study-wide	3854	A=0.989	G=0.011
The Genome Aggregation Database	African	Sub	8700	A=0.632	G=0.368
The Genome Aggregation Database	American	Sub	838	A=0.970	G=0.030
The Genome Aggregation Database	East Asian	Sub	1620	A=1.000	G=0.000
The Genome Aggregation Database	Europe	Sub	18490	A=0.991	G=0.008
The Genome Aggregation Database	Global	Study-wide	29950	A=0.886	G=0.113
The Genome Aggregation Database	Other	Sub	302	A=0.980	G=0.020
Trans-Omics for Precision Medicine	Global	Study-wide	29118	A=0.830	G=0.169
UK 10K study - Twins	TWIN COHORT	Study-wide	3708	A=0.987	G=0.013

PMID	Title	Author	Journal
29071344	Genetic Risk Variants Associated With Comorbid Alcohol Dependence and Major Depression.	Zhou H	JAMA Psychiatry

P-Value

SNP ID	p-value	Traits	Study
rs11825659	1E-06	alcohol dependence	29071344

eQTL of rs11825659 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 rs11825659 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 )
chr11	133792880	133793009	E067	-2510
chr11	133793023	133793113	E067	-2406
chr11	133793163	133793203	E067	-2316
chr11	133793658	133793751	E067	-1768
chr11	133799810	133799860	E067	4291
chr11	133803169	133803244	E067	7650
chr11	133803445	133803527	E067	7926
chr11	133803575	133803625	E067	8056
chr11	133803719	133803905	E067	8200
chr11	133804105	133804231	E067	8586
chr11	133804327	133804381	E067	8808
chr11	133804400	133805087	E067	8881
chr11	133805478	133805585	E067	9959
chr11	133805823	133805912	E067	10304
chr11	133806161	133806303	E067	10642
chr11	133815888	133815960	E067	20369
chr11	133816410	133816538	E067	20891
chr11	133819202	133819344	E067	23683
chr11	133819413	133819467	E067	23894
chr11	133819596	133819640	E067	24077
chr11	133819688	133819738	E067	24169
chr11	133819824	133819874	E067	24305
chr11	133819894	133819944	E067	24375
chr11	133819971	133820021	E067	24452
chr11	133834349	133834402	E067	38830
chr11	133834692	133835493	E067	39173
chr11	133835515	133835613	E067	39996
chr11	133835652	133835809	E067	40133
chr11	133835984	133836664	E067	40465
chr11	133836710	133837719	E067	41191
chr11	133837906	133837967	E067	42387
chr11	133838005	133838102	E067	42486
chr11	133762701	133762755	E068	-32764
chr11	133771779	133771844	E068	-23675
chr11	133775917	133776146	E068	-19373
chr11	133797299	133797416	E068	1780
chr11	133803445	133803527	E068	7926
chr11	133803575	133803625	E068	8056
chr11	133803719	133803905	E068	8200
chr11	133804105	133804231	E068	8586
chr11	133804327	133804381	E068	8808
chr11	133805290	133805378	E068	9771
chr11	133805390	133805440	E068	9871
chr11	133805478	133805585	E068	9959
chr11	133805823	133805912	E068	10304
chr11	133806161	133806303	E068	10642
chr11	133815888	133815960	E068	20369
chr11	133816018	133816243	E068	20499
chr11	133816292	133816376	E068	20773
chr11	133816410	133816538	E068	20891
chr11	133818625	133818716	E068	23106
chr11	133818734	133818897	E068	23215
chr11	133819128	133819178	E068	23609
chr11	133819202	133819344	E068	23683
chr11	133819413	133819467	E068	23894
chr11	133819596	133819640	E068	24077
chr11	133819688	133819738	E068	24169
chr11	133819824	133819874	E068	24305
chr11	133819894	133819944	E068	24375
chr11	133819971	133820021	E068	24452
chr11	133834692	133835493	E068	39173
chr11	133835515	133835613	E068	39996
chr11	133835652	133835809	E068	40133
chr11	133835984	133836664	E068	40465
chr11	133845099	133845239	E068	49580
chr11	133797299	133797416	E069	1780
chr11	133803169	133803244	E069	7650
chr11	133803445	133803527	E069	7926
chr11	133803575	133803625	E069	8056
chr11	133803719	133803905	E069	8200
chr11	133804105	133804231	E069	8586
chr11	133804327	133804381	E069	8808
chr11	133804400	133805087	E069	8881
chr11	133805478	133805585	E069	9959
chr11	133814493	133814544	E069	18974
chr11	133815888	133815960	E069	20369
chr11	133816018	133816243	E069	20499
chr11	133816292	133816376	E069	20773
chr11	133816410	133816538	E069	20891
chr11	133818734	133818897	E069	23215
chr11	133819128	133819178	E069	23609
chr11	133819971	133820021	E069	24452
chr11	133822390	133822773	E069	26871
chr11	133822874	133822935	E069	27355
chr11	133823027	133823358	E069	27508
chr11	133827791	133828152	E069	32272
chr11	133834692	133835493	E069	39173
chr11	133835515	133835613	E069	39996
chr11	133835652	133835809	E069	40133
chr11	133835984	133836664	E069	40465
chr11	133836710	133837719	E069	41191
chr11	133797299	133797416	E070	1780
chr11	133798479	133798985	E070	2960
chr11	133803575	133803625	E070	8056
chr11	133803719	133803905	E070	8200
chr11	133805478	133805585	E070	9959
chr11	133805823	133805912	E070	10304
chr11	133806161	133806303	E070	10642
chr11	133810830	133810884	E070	15311
chr11	133811005	133811092	E070	15486
chr11	133811487	133811694	E070	15968
chr11	133811893	133811958	E070	16374
chr11	133812423	133812503	E070	16904
chr11	133812541	133812814	E070	17022
chr11	133812895	133812980	E070	17376
chr11	133813515	133813561	E070	17996
chr11	133813867	133813921	E070	18348
chr11	133814493	133814544	E070	18974
chr11	133818734	133818897	E070	23215
chr11	133819128	133819178	E070	23609
chr11	133819202	133819344	E070	23683
chr11	133819413	133819467	E070	23894
chr11	133819596	133819640	E070	24077
chr11	133819688	133819738	E070	24169
chr11	133819824	133819874	E070	24305
chr11	133819894	133819944	E070	24375
chr11	133819971	133820021	E070	24452
chr11	133823486	133823710	E070	27967
chr11	133823745	133823795	E070	28226
chr11	133823974	133824049	E070	28455
chr11	133824109	133824155	E070	28590
chr11	133834349	133834402	E070	38830
chr11	133834692	133835493	E070	39173
chr11	133835515	133835613	E070	39996
chr11	133835652	133835809	E070	40133
chr11	133835984	133836664	E070	40465
chr11	133836710	133837719	E070	41191
chr11	133841499	133841572	E070	45980
chr11	133841595	133841717	E070	46076
chr11	133844483	133844533	E070	48964
chr11	133845099	133845239	E070	49580
chr11	133804105	133804231	E071	8586
chr11	133804327	133804381	E071	8808
chr11	133805290	133805378	E071	9771
chr11	133805390	133805440	E071	9871
chr11	133805478	133805585	E071	9959
chr11	133815888	133815960	E071	20369
chr11	133816018	133816243	E071	20499
chr11	133816292	133816376	E071	20773
chr11	133816410	133816538	E071	20891
chr11	133818625	133818716	E071	23106
chr11	133818734	133818897	E071	23215
chr11	133819128	133819178	E071	23609
chr11	133819202	133819344	E071	23683
chr11	133819413	133819467	E071	23894
chr11	133819596	133819640	E071	24077
chr11	133819688	133819738	E071	24169
chr11	133819824	133819874	E071	24305
chr11	133819894	133819944	E071	24375
chr11	133819971	133820021	E071	24452
chr11	133823974	133824049	E071	28455
chr11	133834349	133834402	E071	38830
chr11	133834692	133835493	E071	39173
chr11	133835515	133835613	E071	39996
chr11	133835652	133835809	E071	40133
chr11	133835984	133836664	E071	40465
chr11	133836710	133837719	E071	41191
chr11	133771779	133771844	E072	-23675
chr11	133772030	133772090	E072	-23429
chr11	133772119	133772197	E072	-23322
chr11	133772243	133772354	E072	-23165
chr11	133792405	133792791	E072	-2728
chr11	133803169	133803244	E072	7650
chr11	133803445	133803527	E072	7926
chr11	133803575	133803625	E072	8056
chr11	133803719	133803905	E072	8200
chr11	133804105	133804231	E072	8586
chr11	133804327	133804381	E072	8808
chr11	133805478	133805585	E072	9959
chr11	133806411	133806645	E072	10892
chr11	133806715	133807129	E072	11196
chr11	133815888	133815960	E072	20369
chr11	133816018	133816243	E072	20499
chr11	133816292	133816376	E072	20773
chr11	133818625	133818716	E072	23106
chr11	133818734	133818897	E072	23215
chr11	133819128	133819178	E072	23609
chr11	133834692	133835493	E072	39173
chr11	133835515	133835613	E072	39996
chr11	133835652	133835809	E072	40133
chr11	133835984	133836664	E072	40465
chr11	133836710	133837719	E072	41191
chr11	133772030	133772090	E073	-23429
chr11	133772119	133772197	E073	-23322
chr11	133772243	133772354	E073	-23165
chr11	133772375	133772485	E073	-23034
chr11	133793658	133793751	E073	-1768
chr11	133797299	133797416	E073	1780
chr11	133800278	133800342	E073	4759
chr11	133803445	133803527	E073	7926
chr11	133803575	133803625	E073	8056
chr11	133803719	133803905	E073	8200
chr11	133804105	133804231	E073	8586
chr11	133804327	133804381	E073	8808
chr11	133804400	133805087	E073	8881
chr11	133805290	133805378	E073	9771
chr11	133805390	133805440	E073	9871
chr11	133805478	133805585	E073	9959
chr11	133805823	133805912	E073	10304
chr11	133806161	133806303	E073	10642
chr11	133806326	133806379	E073	10807
chr11	133806411	133806645	E073	10892
chr11	133816018	133816243	E073	20499
chr11	133816292	133816376	E073	20773
chr11	133816410	133816538	E073	20891
chr11	133818625	133818716	E073	23106
chr11	133818734	133818897	E073	23215
chr11	133819128	133819178	E073	23609
chr11	133819202	133819344	E073	23683
chr11	133819413	133819467	E073	23894
chr11	133819596	133819640	E073	24077
chr11	133819688	133819738	E073	24169
chr11	133819824	133819874	E073	24305
chr11	133819894	133819944	E073	24375
chr11	133827791	133828152	E073	32272
chr11	133834349	133834402	E073	38830
chr11	133834692	133835493	E073	39173
chr11	133836710	133837719	E073	41191
chr11	133797299	133797416	E074	1780
chr11	133805290	133805378	E074	9771
chr11	133805390	133805440	E074	9871
chr11	133805478	133805585	E074	9959
chr11	133816560	133818507	E074	21041
chr11	133822390	133822773	E074	26871
chr11	133834349	133834402	E074	38830
chr11	133834692	133835493	E074	39173
chr11	133835515	133835613	E074	39996
chr11	133836710	133837719	E074	41191
chr11	133837906	133837967	E074	42387
chr11	133767276	133767409	E081	-28110
chr11	133791622	133791675	E081	-3844
chr11	133792094	133792240	E081	-3279
chr11	133792256	133792352	E081	-3167
chr11	133792405	133792791	E081	-2728
chr11	133803445	133803527	E081	7926
chr11	133803575	133803625	E081	8056
chr11	133803719	133803905	E081	8200
chr11	133804105	133804231	E081	8586
chr11	133804327	133804381	E081	8808
chr11	133804400	133805087	E081	8881
chr11	133805290	133805378	E081	9771
chr11	133805390	133805440	E081	9871
chr11	133810293	133810389	E081	14774
chr11	133810575	133810629	E081	15056
chr11	133810830	133810884	E081	15311
chr11	133811005	133811092	E081	15486
chr11	133812541	133812814	E081	17022
chr11	133812895	133812980	E081	17376
chr11	133815888	133815960	E081	20369
chr11	133816018	133816243	E081	20499
chr11	133816292	133816376	E081	20773
chr11	133816410	133816538	E081	20891
chr11	133816560	133818507	E081	21041
chr11	133818625	133818716	E081	23106
chr11	133818734	133818897	E081	23215
chr11	133819128	133819178	E081	23609
chr11	133819202	133819344	E081	23683
chr11	133819413	133819467	E081	23894
chr11	133819596	133819640	E081	24077
chr11	133819688	133819738	E081	24169
chr11	133819824	133819874	E081	24305
chr11	133819894	133819944	E081	24375
chr11	133819971	133820021	E081	24452
chr11	133820216	133822318	E081	24697
chr11	133822390	133822773	E081	26871
chr11	133823974	133824049	E081	28455
chr11	133824109	133824155	E081	28590
chr11	133834692	133835493	E081	39173
chr11	133835515	133835613	E081	39996
chr11	133835652	133835809	E081	40133
chr11	133835984	133836664	E081	40465
chr11	133836710	133837719	E081	41191
chr11	133837906	133837967	E081	42387
chr11	133838005	133838102	E081	42486
chr11	133838323	133838480	E081	42804
chr11	133838498	133838689	E081	42979
chr11	133841499	133841572	E081	45980
chr11	133841595	133841717	E081	46076
chr11	133841810	133842004	E081	46291
chr11	133792094	133792240	E082	-3279
chr11	133792256	133792352	E082	-3167
chr11	133792405	133792791	E082	-2728
chr11	133792880	133793009	E082	-2510
chr11	133793023	133793113	E082	-2406
chr11	133793163	133793203	E082	-2316
chr11	133810830	133810884	E082	15311
chr11	133811005	133811092	E082	15486
chr11	133811487	133811694	E082	15968
chr11	133811893	133811958	E082	16374
chr11	133812423	133812503	E082	16904
chr11	133812541	133812814	E082	17022
chr11	133812895	133812980	E082	17376
chr11	133815888	133815960	E082	20369
chr11	133816018	133816243	E082	20499
chr11	133816292	133816376	E082	20773
chr11	133819128	133819178	E082	23609
chr11	133819202	133819344	E082	23683
chr11	133819413	133819467	E082	23894
chr11	133819596	133819640	E082	24077
chr11	133819688	133819738	E082	24169
chr11	133819824	133819874	E082	24305
chr11	133819894	133819944	E082	24375
chr11	133819971	133820021	E082	24452
chr11	133820216	133822318	E082	24697
chr11	133822390	133822773	E082	26871
chr11	133835515	133835613	E082	39996
chr11	133835652	133835809	E082	40133
chr11	133835984	133836664	E082	40465
chr11	133836710	133837719	E082	41191
chr11	133838005	133838102	E082	42486
chr11	133838323	133838480	E082	42804
chr11	133838498	133838689	E082	42979
chr11	133838933	133838987	E082	43414
chr11	133839045	133839114	E082	43526
chr11	133839284	133839338	E082	43765
chr11	133841499	133841572	E082	45980
chr11	133841595	133841717	E082	46076
chr11	133841810	133842004	E082	46291
chr11	133842066	133842116	E082	46547
chr11	133844483	133844533	E082	48964
chr11	133845099	133845239	E082	49580

Promoter Annotation (GRCh37.p13)

Chromosome	Start	End	Region	Distance(-/+:Up/Downstream)
chr11	133824903	133826330	E067	29384
chr11	133826452	133827634	E067	30933
chr11	133824903	133826330	E068	29384
chr11	133826452	133827634	E068	30933
chr11	133824903	133826330	E069	29384
chr11	133826452	133827634	E069	30933
chr11	133826452	133827634	E070	30933
chr11	133824903	133826330	E071	29384
chr11	133826452	133827634	E071	30933
chr11	133826452	133827634	E072	30933
chr11	133824903	133826330	E073	29384
chr11	133826452	133827634	E073	30933
chr11	133824903	133826330	E074	29384
chr11	133826452	133827634	E074	30933
chr11	133788181	133788452	E082	-7067
chr11	133788528	133788982	E082	-6537
chr11	133824903	133826330	E082	29384
chr11	133826452	133827634	E082	30933