rs4821670

Homo sapiens
T>C
LGALS2 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0481 (14014/29114,TOPMED)
T==0484 (13842/28594,GnomAD)
C=0472 (2364/5008,1000G)
T==0380 (1465/3854,ALSPAC)
T==0400 (1483/3708,TWINSUK)
chr22:37574859 (GRCh38.p7) (22q13.1)
AD
GWASdb2
1   publication(s)
See rs on genome
238 Enhancers around
18 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 22NC_000022.11:g.37574859T>C
GRCh37.p13 chr 22NC_000022.10:g.37970866T>C
LGALS2 RefSeqGeneNG_012096.1:g.10159A>G

Gene: LGALS2, lectin, galactoside binding soluble 2(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LGALS2 transcriptNM_006498.2:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.689C=0.311
1000GenomesAmericanSub694T=0.370C=0.630
1000GenomesEast AsianSub1008T=0.636C=0.364
1000GenomesEuropeSub1006T=0.420C=0.580
1000GenomesGlobalStudy-wide5008T=0.528C=0.472
1000GenomesSouth AsianSub978T=0.420C=0.580
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.380C=0.620
The Genome Aggregation DatabaseAfricanSub8470T=0.654C=0.346
The Genome Aggregation DatabaseAmericanSub798T=0.390C=0.610
The Genome Aggregation DatabaseEast AsianSub1600T=0.699C=0.301
The Genome Aggregation DatabaseEuropeSub17428T=0.384C=0.615
The Genome Aggregation DatabaseGlobalStudy-wide28594T=0.484C=0.515
The Genome Aggregation DatabaseOtherSub298T=0.580C=0.420
Trans-Omics for Precision MedicineGlobalStudy-wide29114T=0.518C=0.481
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.400C=0.600
PMID Title Author Journal
21703634A meta-analysis of two genome-wide association studies identifies 3 new loci for alcohol dependence.Wang KSJ Psychiatr Res

P-Value

SNP ID p-value Traits Study
rs48216707.42E-05alcohol dependence21703634

eQTL of rs4821670 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 rs4821670 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 )
chr223793453237934623E067-36243
chr223793465737935352E067-35514
chr223794097737943786E067-27080
chr223794505937945153E067-25713
chr223794518037945248E067-25618
chr223794563637946058E067-24808
chr223794617237946238E067-24628
chr223794710037947208E067-23658
chr223794727837947440E067-23426
chr223794745537947495E067-23371
chr223794750637947705E067-23161
chr223794780937949254E067-21612
chr223795903837959143E067-11723
chr223796108237961156E067-9710
chr223796124737961378E067-9488
chr223796147237961548E067-9318
chr223796160537961675E067-9191
chr223796169837961748E067-9118
chr223796187337963950E067-6916
chr223796398737964073E067-6793
chr223796407837964336E067-6530
chr223796452037964602E067-6264
chr223796464237964692E067-6174
chr223796478037967001E067-3865
chr223796701737967818E067-3048
chr223798815537988221E06717289
chr223798822937988977E06717363
chr223799496237995527E06724096
chr223800657638007839E06735710
chr223794097737943786E068-27080
chr223794505937945153E068-25713
chr223794518037945248E068-25618
chr223794617237946238E068-24628
chr223794655237946640E068-24226
chr223794669137946754E068-24112
chr223794684637946890E068-23976
chr223794710037947208E068-23658
chr223794727837947440E068-23426
chr223794745537947495E068-23371
chr223794750637947705E068-23161
chr223794780937949254E068-21612
chr223796108237961156E068-9710
chr223796124737961378E068-9488
chr223796147237961548E068-9318
chr223796160537961675E068-9191
chr223796169837961748E068-9118
chr223796187337963950E068-6916
chr223796398737964073E068-6793
chr223796407837964336E068-6530
chr223796452037964602E068-6264
chr223796464237964692E068-6174
chr223796478037967001E068-3865
chr223796701737967818E068-3048
chr223799481437994895E06823948
chr223799496237995527E06824096
chr223800657638007839E06835710
chr223801929138020339E06848425
chr223794097737943786E069-27080
chr223794505937945153E069-25713
chr223794518037945248E069-25618
chr223794563637946058E069-24808
chr223794617237946238E069-24628
chr223794655237946640E069-24226
chr223794669137946754E069-24112
chr223794684637946890E069-23976
chr223794710037947208E069-23658
chr223794727837947440E069-23426
chr223794745537947495E069-23371
chr223794750637947705E069-23161
chr223794780937949254E069-21612
chr223795903837959143E069-11723
chr223796108237961156E069-9710
chr223796124737961378E069-9488
chr223796147237961548E069-9318
chr223796160537961675E069-9191
chr223796169837961748E069-9118
chr223796187337963950E069-6916
chr223796398737964073E069-6793
chr223796407837964336E069-6530
chr223796452037964602E069-6264
chr223796464237964692E069-6174
chr223796478037967001E069-3865
chr223796701737967818E069-3048
chr223796783737967960E069-2906
chr223799496237995527E06924096
chr223800657638007839E06935710
chr223801929138020339E06948425
chr223794780937949254E070-21612
chr223798455537984627E07013689
chr223798463037984890E07013764
chr223798490837985102E07014042
chr223798518737985237E07014321
chr223798533537985405E07014469
chr223798546837985592E07014602
chr223798569837986003E07014832
chr223798613737986237E07015271
chr223798641737986762E07015551
chr223798822937988977E07017363
chr223800657638007839E07035710
chr223793453237934623E071-36243
chr223794097737943786E071-27080
chr223794471937944809E071-26057
chr223794505937945153E071-25713
chr223794518037945248E071-25618
chr223794563637946058E071-24808
chr223794617237946238E071-24628
chr223794710037947208E071-23658
chr223794727837947440E071-23426
chr223794745537947495E071-23371
chr223794750637947705E071-23161
chr223794780937949254E071-21612
chr223795467937954821E071-16045
chr223795484437954909E071-15957
chr223795493537955199E071-15667
chr223795529337955416E071-15450
chr223796108237961156E071-9710
chr223796124737961378E071-9488
chr223796147237961548E071-9318
chr223796160537961675E071-9191
chr223796169837961748E071-9118
chr223796398737964073E071-6793
chr223796407837964336E071-6530
chr223796452037964602E071-6264
chr223796464237964692E071-6174
chr223796478037967001E071-3865
chr223796701737967818E071-3048
chr223796783737967960E071-2906
chr223798815537988221E07117289
chr223798822937988977E07117363
chr223799496237995527E07124096
chr223799728537998346E07126419
chr223800657638007839E07135710
chr223801929138020339E07148425
chr223794097737943786E072-27080
chr223794471937944809E072-26057
chr223794505937945153E072-25713
chr223794518037945248E072-25618
chr223794563637946058E072-24808
chr223794617237946238E072-24628
chr223794655237946640E072-24226
chr223794669137946754E072-24112
chr223794684637946890E072-23976
chr223794710037947208E072-23658
chr223794727837947440E072-23426
chr223794745537947495E072-23371
chr223794750637947705E072-23161
chr223794780937949254E072-21612
chr223795467937954821E072-16045
chr223795484437954909E072-15957
chr223795493537955199E072-15667
chr223795529337955416E072-15450
chr223796108237961156E072-9710
chr223796124737961378E072-9488
chr223796147237961548E072-9318
chr223796160537961675E072-9191
chr223796169837961748E072-9118
chr223796187337963950E072-6916
chr223796398737964073E072-6793
chr223796407837964336E072-6530
chr223796452037964602E072-6264
chr223796464237964692E072-6174
chr223796478037967001E072-3865
chr223796701737967818E072-3048
chr223798795437988118E07217088
chr223798815537988221E07217289
chr223798822937988977E07217363
chr223799496237995527E07224096
chr223800657638007839E07235710
chr223794097737943786E073-27080
chr223794505937945153E073-25713
chr223794518037945248E073-25618
chr223794563637946058E073-24808
chr223794617237946238E073-24628
chr223794727837947440E073-23426
chr223794745537947495E073-23371
chr223794750637947705E073-23161
chr223794780937949254E073-21612
chr223795903837959143E073-11723
chr223795915137960771E073-10095
chr223796147237961548E073-9318
chr223796160537961675E073-9191
chr223796169837961748E073-9118
chr223796187337963950E073-6916
chr223796398737964073E073-6793
chr223796407837964336E073-6530
chr223796478037967001E073-3865
chr223800657638007839E07335710
chr223800937538009463E07338509
chr223800967138010449E07338805
chr223801929138020339E07348425
chr223793453237934623E074-36243
chr223793465737935352E074-35514
chr223794097737943786E074-27080
chr223794471937944809E074-26057
chr223794505937945153E074-25713
chr223794518037945248E074-25618
chr223794563637946058E074-24808
chr223794617237946238E074-24628
chr223794655237946640E074-24226
chr223794669137946754E074-24112
chr223794684637946890E074-23976
chr223794710037947208E074-23658
chr223794727837947440E074-23426
chr223794745537947495E074-23371
chr223794750637947705E074-23161
chr223794780937949254E074-21612
chr223795467937954821E074-16045
chr223795484437954909E074-15957
chr223795493537955199E074-15667
chr223795529337955416E074-15450
chr223795859837959030E074-11836
chr223795903837959143E074-11723
chr223796108237961156E074-9710
chr223796124737961378E074-9488
chr223796147237961548E074-9318
chr223796160537961675E074-9191
chr223796169837961748E074-9118
chr223796187337963950E074-6916
chr223796398737964073E074-6793
chr223796407837964336E074-6530
chr223796452037964602E074-6264
chr223796464237964692E074-6174
chr223796478037967001E074-3865
chr223796701737967818E074-3048
chr223798822937988977E07417363
chr223799496237995527E07424096
chr223800657638007839E07435710
chr223792842837928478E081-42388
chr223792949137929677E081-41189
chr223792976237930753E081-40113
chr223793465737935352E081-35514
chr223794563637946058E081-24808
chr223798815537988221E08117289
chr223798822937988977E08117363
chr223799270537992748E08121839
chr223800657638007839E08135710
chr223792286337923041E082-47825
chr223792976237930753E082-40113










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr223795549137958425E067-12441
chr223800289938006355E06732033
chr223795549137958425E068-12441
chr223800289938006355E06832033
chr223795549137958425E069-12441
chr223800289938006355E06932033
chr223800289938006355E07032033
chr223795549137958425E071-12441
chr223800289938006355E07132033
chr223795549137958425E072-12441
chr223800289938006355E07232033
chr223795549137958425E073-12441
chr223800289938006355E07332033
chr223795549137958425E074-12441
chr223800289938006355E07432033
chr223800289938006355E08132033
chr223795549137958425E082-12441
chr223800289938006355E08232033