rs6560652

Homo sapiens
T>C
None
Check p-value
SNV (Single Nucleotide Variation)
T==0431 (12919/29938,GnomAD)
T==0415 (12111/29118,TOPMED)
T==0345 (1730/5008,1000G)
T==0491 (1894/3854,ALSPAC)
T==0484 (1794/3708,TWINSUK)
chr9:136936488 (GRCh38.p7) (9q34.3)
AD
GWASdb2
1   publication(s)
See rs on genome
336 Enhancers around
23 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 9NC_000009.12:g.136936488T>C
GRCh37.p13 chr 9NC_000009.11:g.139830940T>C

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.302C=0.698
1000GenomesAmericanSub694T=0.550C=0.450
1000GenomesEast AsianSub1008T=0.157C=0.843
1000GenomesEuropeSub1006T=0.468C=0.532
1000GenomesGlobalStudy-wide5008T=0.345C=0.655
1000GenomesSouth AsianSub978T=0.330C=0.670
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.491C=0.509
The Genome Aggregation DatabaseAfricanSub8714T=0.346C=0.654
The Genome Aggregation DatabaseAmericanSub836T=0.510C=0.490
The Genome Aggregation DatabaseEast AsianSub1620T=0.135C=0.865
The Genome Aggregation DatabaseEuropeSub18466T=0.495C=0.504
The Genome Aggregation DatabaseGlobalStudy-wide29938T=0.431C=0.568
The Genome Aggregation DatabaseOtherSub302T=0.350C=0.650
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.415C=0.584
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.484C=0.516
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
rs65606520.000108alcohol dependence21314694

eQTL of rs6560652 in Brain tissues (GTEx Analysis Release V7)

Position (v37) eGene GeneID Variant p-value TSS Tissue
Chr9:139830940C9orf142ENSG00000148362.6T>C2.3000e-27-55930Cerebellum

meQTL of rs6560652 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 )
chr9139822692139823185E067-7755
chr9139831166139831291E067226
chr9139831314139831364E067374
chr9139831685139831739E067745
chr9139831912139831960E067972
chr9139832039139832099E0671099
chr9139832148139832303E0671208
chr9139834527139835206E0673587
chr9139841423139842961E06710483
chr9139843141139843217E06712201
chr9139843400139843477E06712460
chr9139855584139856155E06724644
chr9139856243139856392E06725303
chr9139856495139856762E06725555
chr9139856936139857011E06725996
chr9139857247139857550E06726307
chr9139857556139857626E06726616
chr9139857648139857814E06726708
chr9139857921139858156E06726981
chr9139858196139858318E06727256
chr9139858567139858633E06727627
chr9139858825139859134E06727885
chr9139859210139859275E06728270
chr9139859393139859495E06728453
chr9139859543139859771E06728603
chr9139859858139859906E06728918
chr9139860018139860069E06729078
chr9139869297139869791E06738357
chr9139869795139870667E06738855
chr9139870709139870777E06739769
chr9139870845139870946E06739905
chr9139870984139871077E06740044
chr9139871188139871242E06740248
chr9139871310139871373E06740370
chr9139874272139874425E06743332
chr9139874442139874545E06743502
chr9139874550139874676E06743610
chr9139874682139875067E06743742
chr9139875076139875135E06744136
chr9139875164139875291E06744224
chr9139875350139875493E06744410
chr9139875507139875685E06744567
chr9139878043139878255E06747103
chr9139878256139878325E06747316
chr9139878331139878511E06747391
chr9139878538139878634E06747598
chr9139878737139878882E06747797
chr9139817455139817557E068-13383
chr9139833910139834241E0682970
chr9139834283139834380E0683343
chr9139834527139835206E0683587
chr9139841423139842961E06810483
chr9139843141139843217E06812201
chr9139843400139843477E06812460
chr9139845505139845662E06814565
chr9139855584139856155E06824644
chr9139856243139856392E06825303
chr9139857247139857550E06826307
chr9139857556139857626E06826616
chr9139857648139857814E06826708
chr9139857921139858156E06826981
chr9139858825139859134E06827885
chr9139869297139869791E06838357
chr9139869795139870667E06838855
chr9139870709139870777E06839769
chr9139870845139870946E06839905
chr9139870984139871077E06840044
chr9139871188139871242E06840248
chr9139871310139871373E06840370
chr9139874059139874225E06843119
chr9139874272139874425E06843332
chr9139874442139874545E06843502
chr9139874550139874676E06843610
chr9139874682139875067E06843742
chr9139875076139875135E06844136
chr9139875164139875291E06844224
chr9139875350139875493E06844410
chr9139875698139875748E06844758
chr9139877050139877145E06846110
chr9139877189139877646E06846249
chr9139877777139877854E06846837
chr9139877865139877909E06846925
chr9139878043139878255E06847103
chr9139878256139878325E06847316
chr9139878331139878511E06847391
chr9139878538139878634E06847598
chr9139878737139878882E06847797
chr9139834527139835206E0693587
chr9139835280139835362E0694340
chr9139837462139837558E0696522
chr9139841423139842961E06910483
chr9139843400139843477E06912460
chr9139855130139855579E06924190
chr9139855584139856155E06924644
chr9139856243139856392E06925303
chr9139856495139856762E06925555
chr9139856936139857011E06925996
chr9139857247139857550E06926307
chr9139857556139857626E06926616
chr9139857648139857814E06926708
chr9139857921139858156E06926981
chr9139858196139858318E06927256
chr9139858567139858633E06927627
chr9139858825139859134E06927885
chr9139859210139859275E06928270
chr9139859393139859495E06928453
chr9139860208139860970E06929268
chr9139869795139870667E06938855
chr9139870709139870777E06939769
chr9139870845139870946E06939905
chr9139870984139871077E06940044
chr9139874272139874425E06943332
chr9139874442139874545E06943502
chr9139874550139874676E06943610
chr9139874682139875067E06943742
chr9139875076139875135E06944136
chr9139875164139875291E06944224
chr9139875350139875493E06944410
chr9139875507139875685E06944567
chr9139878043139878255E06947103
chr9139878256139878325E06947316
chr9139878331139878511E06947391
chr9139878538139878634E06947598
chr9139878737139878882E06947797
chr9139837306139837399E0706366
chr9139837462139837558E0706522
chr9139795492139797377E071-33563
chr9139833910139834241E0712970
chr9139834283139834380E0713343
chr9139834527139835206E0713587
chr9139835280139835362E0714340
chr9139835401139835882E0714461
chr9139836519139837290E0715579
chr9139837306139837399E0716366
chr9139841423139842961E07110483
chr9139843141139843217E07112201
chr9139843400139843477E07112460
chr9139855584139856155E07124644
chr9139856243139856392E07125303
chr9139856495139856762E07125555
chr9139856936139857011E07125996
chr9139857247139857550E07126307
chr9139857556139857626E07126616
chr9139857648139857814E07126708
chr9139857921139858156E07126981
chr9139858196139858318E07127256
chr9139858567139858633E07127627
chr9139858825139859134E07127885
chr9139860208139860970E07129268
chr9139869297139869791E07138357
chr9139869795139870667E07138855
chr9139870709139870777E07139769
chr9139870845139870946E07139905
chr9139870984139871077E07140044
chr9139871188139871242E07140248
chr9139871310139871373E07140370
chr9139874682139875067E07143742
chr9139875076139875135E07144136
chr9139875164139875291E07144224
chr9139875350139875493E07144410
chr9139875507139875685E07144567
chr9139875698139875748E07144758
chr9139875878139875970E07144938
chr9139876002139876336E07145062
chr9139876461139876511E07145521
chr9139876582139876688E07145642
chr9139876770139877005E07145830
chr9139877050139877145E07146110
chr9139877189139877646E07146249
chr9139877777139877854E07146837
chr9139877865139877909E07146925
chr9139878043139878255E07147103
chr9139878256139878325E07147316
chr9139878331139878511E07147391
chr9139878538139878634E07147598
chr9139878737139878882E07147797
chr9139810691139810817E072-20123
chr9139810835139810885E072-20055
chr9139810940139811075E072-19865
chr9139831166139831291E072226
chr9139831314139831364E072374
chr9139831685139831739E072745
chr9139831912139831960E072972
chr9139832039139832099E0721099
chr9139832148139832303E0721208
chr9139832341139832574E0721401
chr9139833910139834241E0722970
chr9139834283139834380E0723343
chr9139834527139835206E0723587
chr9139835280139835362E0724340
chr9139837462139837558E0726522
chr9139840062139841383E0729122
chr9139841423139842961E07210483
chr9139845505139845662E07214565
chr9139845698139845787E07214758
chr9139845872139846040E07214932
chr9139846153139846277E07215213
chr9139855130139855579E07224190
chr9139855584139856155E07224644
chr9139856243139856392E07225303
chr9139856495139856762E07225555
chr9139856936139857011E07225996
chr9139857247139857550E07226307
chr9139857556139857626E07226616
chr9139857648139857814E07226708
chr9139857921139858156E07226981
chr9139858196139858318E07227256
chr9139869297139869791E07238357
chr9139869795139870667E07238855
chr9139870709139870777E07239769
chr9139870845139870946E07239905
chr9139870984139871077E07240044
chr9139871188139871242E07240248
chr9139871310139871373E07240370
chr9139874272139874425E07243332
chr9139874442139874545E07243502
chr9139874550139874676E07243610
chr9139874682139875067E07243742
chr9139875076139875135E07244136
chr9139875164139875291E07244224
chr9139875350139875493E07244410
chr9139875507139875685E07244567
chr9139875698139875748E07244758
chr9139877050139877145E07246110
chr9139877189139877646E07246249
chr9139877777139877854E07246837
chr9139877865139877909E07246925
chr9139878043139878255E07247103
chr9139878256139878325E07247316
chr9139878331139878511E07247391
chr9139878538139878634E07247598
chr9139878737139878882E07247797
chr9139795492139797377E073-33563
chr9139822692139823185E073-7755
chr9139831912139831960E073972
chr9139832039139832099E0731099
chr9139832148139832303E0731208
chr9139832341139832574E0731401
chr9139834283139834380E0733343
chr9139834527139835206E0733587
chr9139835280139835362E0734340
chr9139835401139835882E0734461
chr9139836007139836083E0735067
chr9139836148139836223E0735208
chr9139836301139836476E0735361
chr9139836519139837290E0735579
chr9139837306139837399E0736366
chr9139837462139837558E0736522
chr9139841423139842961E07310483
chr9139843141139843217E07312201
chr9139843400139843477E07312460
chr9139845505139845662E07314565
chr9139845698139845787E07314758
chr9139845872139846040E07314932
chr9139846153139846277E07315213
chr9139853549139853622E07322609
chr9139853662139853731E07322722
chr9139853766139853922E07322826
chr9139855584139856155E07324644
chr9139856243139856392E07325303
chr9139856495139856762E07325555
chr9139856936139857011E07325996
chr9139857247139857550E07326307
chr9139858196139858318E07327256
chr9139863342139863427E07332402
chr9139863436139863480E07332496
chr9139863560139863633E07332620
chr9139867372139867441E07336432
chr9139867788139867893E07336848
chr9139869297139869791E07338357
chr9139869795139870667E07338855
chr9139870709139870777E07339769
chr9139870845139870946E07339905
chr9139870984139871077E07340044
chr9139871188139871242E07340248
chr9139871310139871373E07340370
chr9139874550139874676E07343610
chr9139874682139875067E07343742
chr9139875076139875135E07344136
chr9139875164139875291E07344224
chr9139875350139875493E07344410
chr9139875507139875685E07344567
chr9139875698139875748E07344758
chr9139875878139875970E07344938
chr9139876770139877005E07345830
chr9139877050139877145E07346110
chr9139877189139877646E07346249
chr9139877777139877854E07346837
chr9139877865139877909E07346925
chr9139878043139878255E07347103
chr9139878256139878325E07347316
chr9139878331139878511E07347391
chr9139878538139878634E07347598
chr9139878737139878882E07347797
chr9139834527139835206E0743587
chr9139835280139835362E0744340
chr9139837306139837399E0746366
chr9139837462139837558E0746522
chr9139841423139842961E07410483
chr9139843141139843217E07412201
chr9139843400139843477E07412460
chr9139855584139856155E07424644
chr9139856243139856392E07425303
chr9139857247139857550E07426307
chr9139857556139857626E07426616
chr9139857648139857814E07426708
chr9139857921139858156E07426981
chr9139858196139858318E07427256
chr9139869795139870667E07438855
chr9139870845139870946E07439905
chr9139870984139871077E07440044
chr9139871188139871242E07440248
chr9139871310139871373E07440370
chr9139874059139874225E07443119
chr9139874272139874425E07443332
chr9139874442139874545E07443502
chr9139874550139874676E07443610
chr9139874682139875067E07443742
chr9139875076139875135E07444136
chr9139875164139875291E07444224
chr9139875350139875493E07444410
chr9139875507139875685E07444567
chr9139875698139875748E07444758
chr9139876770139877005E07445830
chr9139877050139877145E07446110
chr9139877189139877646E07446249
chr9139877777139877854E07446837
chr9139877865139877909E07446925
chr9139878043139878255E07447103
chr9139878256139878325E07447316
chr9139878331139878511E07447391
chr9139878538139878634E07447598
chr9139878737139878882E07447797
chr9139837306139837399E0816366
chr9139837462139837558E0816522
chr9139845505139845662E08114565









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr9139837656139840035E0676716
chr9139843512139845441E06712572
chr9139873765139874052E06742825
chr9139837656139840035E0686716
chr9139843512139845441E06812572
chr9139873765139874052E06842825
chr9139837656139840035E0696716
chr9139843512139845441E06912572
chr9139837656139840035E0706716
chr9139843512139845441E07012572
chr9139837656139840035E0716716
chr9139843512139845441E07112572
chr9139837656139840035E0726716
chr9139843512139845441E07212572
chr9139873765139874052E07242825
chr9139837656139840035E0736716
chr9139843512139845441E07312572
chr9139873765139874052E07342825
chr9139837656139840035E0746716
chr9139843512139845441E07412572
chr9139873765139874052E07442825
chr9139837656139840035E0826716
chr9139843512139845441E08212572