rs7269352

Homo sapiens
A>G
LINC01270 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0479 (14329/29910,GnomAD)
A==0448 (13060/29118,TOPMED)
G=0439 (2201/5008,1000G)
G=0415 (1598/3854,ALSPAC)
G=0403 (1495/3708,TWINSUK)
chr20:50301883 (GRCh38.p7) (20q13.13)
AD
GWASdb2
1   publication(s)
See rs on genome
180 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 20NC_000020.11:g.50301883A>G
GRCh37.p13 chr 20NC_000020.10:g.48918420A>G

Gene: LINC01270, long intergenic non-protein coding RNA 1270(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC01270 transcriptNR_034124.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.175G=0.825
1000GenomesAmericanSub694A=0.650G=0.350
1000GenomesEast AsianSub1008A=0.938G=0.062
1000GenomesEuropeSub1006A=0.555G=0.445
1000GenomesGlobalStudy-wide5008A=0.561G=0.439
1000GenomesSouth AsianSub978A=0.630G=0.370
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.585G=0.415
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.448G=0.551
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.597G=0.403
PMID Title Author Journal
20201924Genome-wide association study of alcohol dependence implicates a region on chromosome 11.Edenberg HJAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs72693520.00037alcohol dependence(early age of onset)20201924
rs72693520.00066alcohol dependence20201924

eQTL of rs7269352 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 rs7269352 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 )
chr204890867848908849E067-9571
chr204890887648909725E067-8695
chr204892475848926461E0676338
chr204896280048963873E06744380
chr204887599748876049E068-42371
chr204887614148876219E068-42201
chr204887630948876372E068-42048
chr204887640548876960E068-41460
chr204888320148883258E068-35162
chr204888331148884654E068-33766
chr204889000848890908E068-27512
chr204889215248892388E068-26032
chr204889244948892545E068-25875
chr204889258848892994E068-25426
chr204892044648923437E0682026
chr204892350048923551E0685080
chr204892369048923750E0685270
chr204892377848924146E0685358
chr204892475848926461E0686338
chr204896216748962659E06843747
chr204896280048963873E06844380
chr204888331148884654E069-33766
chr204889000848890908E069-27512
chr204889093148890985E069-27435
chr204890867848908849E069-9571
chr204890887648909725E069-8695
chr204892044648923437E0692026
chr204892475848926461E0696338
chr204895419648954282E06935776
chr204895438948954452E06935969
chr204895451148954607E06936091
chr204895477148954822E06936351
chr204895490948956417E06936489
chr204896020848960512E06941788
chr204896056048960672E06942140
chr204896067948960729E06942259
chr204896074048960800E06942320
chr204896089848961198E06942478
chr204896129348961361E06942873
chr204896143148961501E06943011
chr204896157548961625E06943155
chr204896174248961830E06943322
chr204896201648962066E06943596
chr204896216748962659E06943747
chr204896280048963873E06944380
chr204888320148883258E070-35162
chr204888331148884654E070-33766
chr204891185448912789E070-5631
chr204887640548876960E071-41460
chr204888320148883258E071-35162
chr204888331148884654E071-33766
chr204888833548888397E071-30023
chr204888841148888519E071-29901
chr204888859048888923E071-29497
chr204888894948889199E071-29221
chr204888921648889338E071-29082
chr204888934948889537E071-28883
chr204888954148889995E071-28425
chr204889000848890908E071-27512
chr204889093148890985E071-27435
chr204889244948892545E071-25875
chr204889480148895125E071-23295
chr204889512748896064E071-22356
chr204890817748908250E071-10170
chr204890832848908379E071-10041
chr204890842548908665E071-9755
chr204890867848908849E071-9571
chr204890887648909725E071-8695
chr204892008148920405E0711661
chr204892044648923437E0712026
chr204892350048923551E0715080
chr204892475848926461E0716338
chr204894714048947597E07128720
chr204895451148954607E07136091
chr204895477148954822E07136351
chr204895490948956417E07136489
chr204895655948956620E07138139
chr204895676248956875E07138342
chr204895690348957039E07138483
chr204895715648957318E07138736
chr204896067948960729E07142259
chr204896074048960800E07142320
chr204896129348961361E07142873
chr204896143148961501E07143011
chr204896157548961625E07143155
chr204896280048963873E07144380
chr204896387948964063E07145459
chr204888320148883258E072-35162
chr204888331148884654E072-33766
chr204888474648884895E072-33525
chr204888490848884989E072-33431
chr204889000848890908E072-27512
chr204889093148890985E072-27435
chr204890867848908849E072-9571
chr204890887648909725E072-8695
chr204892008148920405E0721661
chr204892475848926461E0726338
chr204895419648954282E07235776
chr204895438948954452E07235969
chr204895451148954607E07236091
chr204895477148954822E07236351
chr204895490948956417E07236489
chr204896020848960512E07241788
chr204896056048960672E07242140
chr204896174248961830E07243322
chr204896201648962066E07243596
chr204896216748962659E07243747
chr204896280048963873E07244380
chr204887614148876219E073-42201
chr204887630948876372E073-42048
chr204887640548876960E073-41460
chr204888320148883258E073-35162
chr204889512748896064E073-22356
chr204889933548900327E073-18093
chr204890039848901703E073-16717
chr204890973748910315E073-8105
chr204892008148920405E0731661
chr204892044648923437E0732026
chr204892350048923551E0735080
chr204892475848926461E0736338
chr204892653348926579E0738113
chr204892662448926701E0738204
chr204892670448926907E0738284
chr204896020848960512E07341788
chr204896056048960672E07342140
chr204896067948960729E07342259
chr204896074048960800E07342320
chr204896089848961198E07342478
chr204896129348961361E07342873
chr204896143148961501E07343011
chr204896157548961625E07343155
chr204896174248961830E07343322
chr204896201648962066E07343596
chr204896216748962659E07343747
chr204896280048963873E07344380
chr204887614148876219E074-42201
chr204887630948876372E074-42048
chr204887640548876960E074-41460
chr204888331148884654E074-33766
chr204888474648884895E074-33525
chr204888490848884989E074-33431
chr204889000848890908E074-27512
chr204890810348908153E074-10267
chr204890817748908250E074-10170
chr204890842548908665E074-9755
chr204890867848908849E074-9571
chr204890887648909725E074-8695
chr204890973748910315E074-8105
chr204892475848926461E0746338
chr204895490948956417E07436489
chr204896020848960512E07441788
chr204896056048960672E07442140
chr204896174248961830E07443322
chr204896201648962066E07443596
chr204896216748962659E07443747
chr204896280048963873E07444380
chr204888331148884654E081-33766
chr204888841148888519E081-29901
chr204888859048888923E081-29497
chr204888894948889199E081-29221
chr204888921648889338E081-29082
chr204888934948889537E081-28883
chr204888954148889995E081-28425
chr204889000848890908E081-27512
chr204889093148890985E081-27435
chr204891185448912789E081-5631
chr204895375048953832E08135330
chr204895406248954147E08135642
chr204895419648954282E08135776
chr204895438948954452E08135969
chr204895451148954607E08136091
chr204895490948956417E08136489
chr204896216748962659E08143747
chr204896280048963873E08144380
chr204888954148889995E082-28425
chr204889000848890908E082-27512
chr204889093148890985E082-27435
chr204895253648952699E08234116
chr204895270048952798E08234280
chr204896216748962659E08243747