rs928072

Homo sapiens
A>G
LINC01271 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0161 (4842/29968,GnomAD)
G=0156 (4566/29118,TOPMED)
G=0131 (657/5008,1000G)
G=0207 (797/3854,ALSPAC)
G=0202 (748/3708,TWINSUK)
chr20:50318241 (GRCh38.p7) (20q13.13)
ND
GWASdb2
1   publication(s)
See rs on genome
161 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 20NC_000020.11:g.50318241A>G
GRCh37.p13 chr 20NC_000020.10:g.48934778A>G

Gene: LINC01271, long intergenic non-protein coding RNA 1271(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC01271 transcriptNR_109950.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.918G=0.082
1000GenomesAmericanSub694A=0.830G=0.170
1000GenomesEast AsianSub1008A=0.999G=0.001
1000GenomesEuropeSub1006A=0.792G=0.208
1000GenomesGlobalStudy-wide5008A=0.869G=0.131
1000GenomesSouth AsianSub978A=0.780G=0.220
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.793G=0.207
The Genome Aggregation DatabaseAfricanSub8720A=0.894G=0.106
The Genome Aggregation DatabaseAmericanSub838A=0.870G=0.130
The Genome Aggregation DatabaseEast AsianSub1622A=0.997G=0.003
The Genome Aggregation DatabaseEuropeSub18486A=0.798G=0.201
The Genome Aggregation DatabaseGlobalStudy-wide29968A=0.838G=0.161
The Genome Aggregation DatabaseOtherSub302A=0.750G=0.250
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.843G=0.156
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.798G=0.202
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs9280726.94E-05alcohol and nictotine co-dependence20158304

eQTL of rs928072 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 rs928072 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 )
chr204890867848908849E067-25929
chr204890887648909725E067-25053
chr204892475848926461E067-8317
chr204896280048963873E06728022
chr204889000848890908E068-43870
chr204889215248892388E068-42390
chr204889244948892545E068-42233
chr204889258848892994E068-41784
chr204892044648923437E068-11341
chr204892350048923551E068-11227
chr204892369048923750E068-11028
chr204892377848924146E068-10632
chr204892475848926461E068-8317
chr204896216748962659E06827389
chr204896280048963873E06828022
chr204889000848890908E069-43870
chr204889093148890985E069-43793
chr204890867848908849E069-25929
chr204890887648909725E069-25053
chr204892044648923437E069-11341
chr204892475848926461E069-8317
chr204895419648954282E06919418
chr204895438948954452E06919611
chr204895451148954607E06919733
chr204895477148954822E06919993
chr204895490948956417E06920131
chr204896020848960512E06925430
chr204896056048960672E06925782
chr204896067948960729E06925901
chr204896074048960800E06925962
chr204896089848961198E06926120
chr204896129348961361E06926515
chr204896143148961501E06926653
chr204896157548961625E06926797
chr204896174248961830E06926964
chr204896201648962066E06927238
chr204896216748962659E06927389
chr204896280048963873E06928022
chr204891185448912789E070-21989
chr204888833548888397E071-46381
chr204888841148888519E071-46259
chr204888859048888923E071-45855
chr204888894948889199E071-45579
chr204888921648889338E071-45440
chr204888934948889537E071-45241
chr204888954148889995E071-44783
chr204889000848890908E071-43870
chr204889093148890985E071-43793
chr204889244948892545E071-42233
chr204889480148895125E071-39653
chr204889512748896064E071-38714
chr204890817748908250E071-26528
chr204890832848908379E071-26399
chr204890842548908665E071-26113
chr204890867848908849E071-25929
chr204890887648909725E071-25053
chr204892008148920405E071-14373
chr204892044648923437E071-11341
chr204892350048923551E071-11227
chr204892475848926461E071-8317
chr204894714048947597E07112362
chr204895451148954607E07119733
chr204895477148954822E07119993
chr204895490948956417E07120131
chr204895655948956620E07121781
chr204895676248956875E07121984
chr204895690348957039E07122125
chr204895715648957318E07122378
chr204896067948960729E07125901
chr204896074048960800E07125962
chr204896129348961361E07126515
chr204896143148961501E07126653
chr204896157548961625E07126797
chr204896280048963873E07128022
chr204896387948964063E07129101
chr204896985648969982E07135078
chr204896999848970064E07135220
chr204897006848970362E07135290
chr204897038148970460E07135603
chr204888490848884989E072-49789
chr204889000848890908E072-43870
chr204889093148890985E072-43793
chr204890867848908849E072-25929
chr204890887648909725E072-25053
chr204892008148920405E072-14373
chr204892475848926461E072-8317
chr204895419648954282E07219418
chr204895438948954452E07219611
chr204895451148954607E07219733
chr204895477148954822E07219993
chr204895490948956417E07220131
chr204896020848960512E07225430
chr204896056048960672E07225782
chr204896174248961830E07226964
chr204896201648962066E07227238
chr204896216748962659E07227389
chr204896280048963873E07228022
chr204889512748896064E073-38714
chr204889933548900327E073-34451
chr204890039848901703E073-33075
chr204890973748910315E073-24463
chr204892008148920405E073-14373
chr204892044648923437E073-11341
chr204892350048923551E073-11227
chr204892475848926461E073-8317
chr204892653348926579E073-8199
chr204892662448926701E073-8077
chr204892670448926907E073-7871
chr204896020848960512E07325430
chr204896056048960672E07325782
chr204896067948960729E07325901
chr204896074048960800E07325962
chr204896089848961198E07326120
chr204896129348961361E07326515
chr204896143148961501E07326653
chr204896157548961625E07326797
chr204896174248961830E07326964
chr204896201648962066E07327238
chr204896216748962659E07327389
chr204896280048963873E07328022
chr204888490848884989E074-49789
chr204889000848890908E074-43870
chr204890810348908153E074-26625
chr204890817748908250E074-26528
chr204890842548908665E074-26113
chr204890867848908849E074-25929
chr204890887648909725E074-25053
chr204890973748910315E074-24463
chr204892475848926461E074-8317
chr204895490948956417E07420131
chr204896020848960512E07425430
chr204896056048960672E07425782
chr204896174248961830E07426964
chr204896201648962066E07427238
chr204896216748962659E07427389
chr204896280048963873E07428022
chr204888841148888519E081-46259
chr204888859048888923E081-45855
chr204888894948889199E081-45579
chr204888921648889338E081-45440
chr204888934948889537E081-45241
chr204888954148889995E081-44783
chr204889000848890908E081-43870
chr204889093148890985E081-43793
chr204891185448912789E081-21989
chr204895375048953832E08118972
chr204895406248954147E08119284
chr204895419648954282E08119418
chr204895438948954452E08119611
chr204895451148954607E08119733
chr204895490948956417E08120131
chr204896216748962659E08127389
chr204896280048963873E08128022
chr204897315148973279E08138373
chr204897328148973356E08138503
chr204888954148889995E082-44783
chr204889000848890908E082-43870
chr204889093148890985E082-43793
chr204895253648952699E08217758
chr204895270048952798E08217922
chr204896216748962659E08227389