rs1609276

Homo sapiens
G>C
MAGI2 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G==0048 (1450/29952,GnomAD)
G==0062 (1832/29118,TOPMED)
G==0046 (232/5008,1000G)
G==0018 (71/3854,ALSPAC)
G==0018 (67/3708,TWINSUK)
chr7:79299845 (GRCh38.p7) (7q21.11)
AD
GWASdb2
1   publication(s)
See rs on genome
45 Enhancers around
7 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 7NC_000007.14:g.79299845G>C
GRCh37.p13 chr 7NC_000007.13:g.78929161G>C
MAGI2 RefSeqGeneNG_011487.1:g.158730C>G

Gene: MAGI2, membrane associated guanylate kinase, WW and PDZ domain containing 2(minus strand)

Molecule type Change Amino acid[Codon] SO Term
MAGI2 transcript variant 2NM_001301128.1:c.N/AIntron Variant
MAGI2 transcript variant 1NM_012301.3:c.N/AIntron Variant
MAGI2 transcript variant X6XM_011516718.1:c.N/AIntron Variant
MAGI2 transcript variant X1XM_017012840.1:c.N/AIntron Variant
MAGI2 transcript variant X2XM_017012841.1:c.N/AIntron Variant
MAGI2 transcript variant X3XM_017012842.1:c.N/AIntron Variant
MAGI2 transcript variant X4XM_017012843.1:c.N/AIntron Variant
MAGI2 transcript variant X5XM_017012844.1:c.N/AIntron Variant
MAGI2 transcript variant X7XM_017012845.1:c.N/AIntron Variant
MAGI2 transcript variant X8XM_017012846.1:c.N/AIntron Variant
MAGI2 transcript variant X14XM_017012850.1:c.N/AIntron Variant
MAGI2 transcript variant X15XM_017012851.1:c.N/AIntron Variant
MAGI2 transcript variant X16XM_017012852.1:c.N/AIntron Variant
MAGI2 transcript variant X9XM_011516719.2:c.N/AGenic Upstream Transcript Variant
MAGI2 transcript variant X10XM_011516720.2:c.N/AGenic Upstream Transcript Variant
MAGI2 transcript variant X17XM_011516726.2:c.N/AGenic Upstream Transcript Variant
MAGI2 transcript variant X19XM_011516728.1:c.N/AGenic Upstream Transcript Variant
MAGI2 transcript variant X11XM_017012847.1:c.N/AGenic Upstream Transcript Variant
MAGI2 transcript variant X12XM_017012848.1:c.N/AGenic Upstream Transcript Variant
MAGI2 transcript variant X13XM_017012849.1:c.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.109C=0.891
1000GenomesAmericanSub694G=0.020C=0.980
1000GenomesEast AsianSub1008G=0.033C=0.967
1000GenomesEuropeSub1006G=0.025C=0.975
1000GenomesGlobalStudy-wide5008G=0.046C=0.954
1000GenomesSouth AsianSub978G=0.020C=0.980
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.018C=0.982
The Genome Aggregation DatabaseAfricanSub8712G=0.104C=0.896
The Genome Aggregation DatabaseAmericanSub836G=0.040C=0.960
The Genome Aggregation DatabaseEast AsianSub1618G=0.030C=0.970
The Genome Aggregation DatabaseEuropeSub18484G=0.024C=0.975
The Genome Aggregation DatabaseGlobalStudy-wide29952G=0.048C=0.951
The Genome Aggregation DatabaseOtherSub302G=0.020C=0.980
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.062C=0.937
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.018C=0.982
PMID Title Author Journal
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs16092760.00093alcohol dependence21314694

eQTL of rs1609276 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 rs1609276 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 )
chr77891055778910622E067-18539
chr77891066378910723E067-18438
chr77891080478910844E067-18317
chr77891088378910955E067-18206
chr77891108878911128E067-18033
chr77892218978922229E067-6932
chr77892229078922451E067-6710
chr77892256978922619E067-6542
chr77894692978947426E06717768
chr77896741878967592E06738257
chr77897131178971446E06742150
chr77897131178971446E06842150
chr77891143378911832E069-17329
chr77891197378912106E069-17055
chr77891740378917559E069-11602
chr77896741878967592E06938257
chr77891143378911832E071-17329
chr77891826978918319E071-10842
chr77892026178920461E071-8700
chr77892059778920794E071-8367
chr77892218978922229E071-6932
chr77892229078922451E071-6710
chr77892256978922619E071-6542
chr77893000278930190E071841
chr77893753478937798E0718373
chr77894692978947426E07117768
chr77897094578970995E07141784
chr77897131178971446E07142150
chr77889949578899575E072-29586
chr77891143378911832E072-17329
chr77891197378912106E072-17055
chr77891216478912956E072-16205
chr77896741878967592E07238257
chr77896807678968193E07238915
chr77897131178971446E07242150
chr77889624678896316E074-32845
chr77889771478897894E074-31267
chr77891740378917559E074-11602
chr77891826978918319E074-10842
chr77892218978922229E074-6932
chr77894692978947426E07417768
chr77896618478966234E07437023
chr77896741878967592E07438257
chr77896969478969767E07440533
chr77897131178971446E07442150






Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr77896712478967271E06737963
chr77896712478967271E06837963
chr77896712478967271E06937963
chr77896712478967271E07137963
chr77896712478967271E07237963
chr77896712478967271E07337963
chr77896712478967271E07437963