rs28620095

Homo sapiens
A>G
LOC105374366 : Non Coding Transcript Variant
LOC93622 : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0013 (406/30004,GnomAD)
G=0018 (538/29118,TOPMED)
G=0015 (74/5008,1000G)
G=0001 (3/3854,ALSPAC)
G=0000 (0/3708,TWINSUK)
chr4:6673802 (GRCh38.p7) (4p16.1)
AD
GWASdb2
1   publication(s)
See rs on genome
128 Enhancers around
98 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 4NC_000004.12:g.6673802A>G
GRCh37.p13 chr 4NC_000004.11:g.6675529A>G

Gene: LOC105374366, uncharacterized LOC105374366(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC02482 transcript variant 2NR_134665.1:n.80T>CT>CNon Coding Transcript Variant
LINC02482 transcript variant 1NR_134664.1:n.80T>CT>CNon Coding Transcript Variant

Gene: LOC93622, Morf4 family associated protein 1 like 1 pseudogene(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
LOC93622 transcriptNR_015433.1:n.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.946G=0.054
1000GenomesAmericanSub694A=1.000G=0.000
1000GenomesEast AsianSub1008A=1.000G=0.000
1000GenomesEuropeSub1006A=1.000G=0.000
1000GenomesGlobalStudy-wide5008A=0.985G=0.015
1000GenomesSouth AsianSub978A=1.000G=0.000
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.999G=0.001
The Genome Aggregation DatabaseAfricanSub8732A=0.954G=0.046
The Genome Aggregation DatabaseAmericanSub838A=1.000G=0.000
The Genome Aggregation DatabaseEast AsianSub1622A=1.000G=0.000
The Genome Aggregation DatabaseEuropeSub18510A=0.999G=0.000
The Genome Aggregation DatabaseGlobalStudy-wide30004A=0.986G=0.013
The Genome Aggregation DatabaseOtherSub302A=1.000G=0.000
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.981G=0.018
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=1.000G=0.000
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
rs286200950.000355alcohol dependence20201924

eQTL of rs28620095 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 rs28620095 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 )
chr466445176644557E067-30972
chr466446036644743E067-30786
chr466447846644837E067-30692
chr466448406644915E067-30614
chr466450636645154E067-30375
chr466774906677530E0671961
chr466775686677612E0672039
chr466777126677854E0672183
chr466778606677945E0672331
chr466804436680483E0674914
chr467056416705761E06730112
chr467092656709385E06733736
chr467194146719462E06743885
chr467224746722639E06746945
chr466450636645154E068-30375
chr466774906677530E0681961
chr466775686677612E0682039
chr466777126677854E0682183
chr466778606677945E0682331
chr467056416705761E06830112
chr467125976712658E06837068
chr467224746722639E06846945
chr466440966644154E069-31375
chr466443196644418E069-31111
chr466445176644557E069-30972
chr466446036644743E069-30786
chr466447846644837E069-30692
chr466448406644915E069-30614
chr466450636645154E069-30375
chr466452616645625E069-29904
chr466654756665571E069-9958
chr466774906677530E0691961
chr466775686677612E0692039
chr466777126677854E0692183
chr466778606677945E0692331
chr467092656709385E06933736
chr467172016717304E06941672
chr467194146719462E06943885
chr467224746722639E06946945
chr466448406644915E070-30614
chr466593566659442E070-16087
chr466595856659647E070-15882
chr466597896659850E070-15679
chr466774906677530E0701961
chr466775686677612E0702039
chr466777126677854E0702183
chr466778606677945E0702331
chr466788956679157E0703366
chr466793496679393E0703820
chr466348206635303E071-40226
chr466353566635560E071-39969
chr466445176644557E071-30972
chr466446036644743E071-30786
chr466447846644837E071-30692
chr466448406644915E071-30614
chr466450636645154E071-30375
chr466452616645625E071-29904
chr466774906677530E0711961
chr466775686677612E0712039
chr466777126677854E0712183
chr466778606677945E0712331
chr467056416705761E07130112
chr467092656709385E07133736
chr467219486722396E07146419
chr467224746722639E07146945
chr466409846641044E072-34485
chr466440966644154E072-31375
chr466443196644418E072-31111
chr466445176644557E072-30972
chr466446036644743E072-30786
chr466447846644837E072-30692
chr466448406644915E072-30614
chr466450636645154E072-30375
chr467092656709385E07233736
chr467125976712658E07237068
chr467172016717304E07241672
chr467194146719462E07243885
chr467219486722396E07246419
chr467224746722639E07246945
chr466446036644743E073-30786
chr466447846644837E073-30692
chr466448406644915E073-30614
chr466450636645154E073-30375
chr466452616645625E073-29904
chr466774906677530E0731961
chr466775686677612E0732039
chr466777126677854E0732183
chr466778606677945E0732331
chr466788956679157E0733366
chr466804436680483E0734914
chr467056416705761E07330112
chr467092656709385E07333736
chr467125976712658E07337068
chr467224746722639E07346945
chr466440966644154E074-31375
chr466443196644418E074-31111
chr466445176644557E074-30972
chr466446036644743E074-30786
chr466447846644837E074-30692
chr466448406644915E074-30614
chr466450636645154E074-30375
chr466774906677530E0741961
chr466775686677612E0742039
chr466777126677854E0742183
chr466778606677945E0742331
chr466788956679157E0743366
chr467092656709385E07433736
chr467219486722396E07446419
chr466440966644154E081-31375
chr466443196644418E081-31111
chr466445176644557E081-30972
chr466446036644743E081-30786
chr466447846644837E081-30692
chr466593566659442E081-16087
chr466595856659647E081-15882
chr466597896659850E081-15679
chr466774906677530E0811961
chr466775686677612E0812039
chr466777126677854E0812183
chr466778606677945E0812331
chr467092656709385E08133736
chr467125976712658E08137068
chr467194146719462E08143885
chr466774906677530E0821961
chr466775686677612E0822039
chr466777126677854E0822183
chr466778606677945E0822331
chr467172016717304E08241672










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr466416666641744E067-33785
chr466417806643885E067-31644
chr466600566660849E067-14680
chr466609086660989E067-14540
chr466656286665698E067-9831
chr466658886665999E067-9530
chr466660286666137E067-9392
chr466749916675052E067-477
chr466751406675329E067-200
chr466754476676811E0670
chr467107916712381E06735262
chr467174106718936E06741881
chr466416666641744E068-33785
chr466417806643885E068-31644
chr466600566660849E068-14680
chr466609086660989E068-14540
chr466658886665999E068-9530
chr466660286666137E068-9392
chr466749916675052E068-477
chr466751406675329E068-200
chr466754476676811E0680
chr467107916712381E06835262
chr467174106718936E06841881
chr466416666641744E069-33785
chr466417806643885E069-31644
chr466600566660849E069-14680
chr466658886665999E069-9530
chr466660286666137E069-9392
chr466749916675052E069-477
chr466751406675329E069-200
chr466754476676811E0690
chr467107916712381E06935262
chr467174106718936E06941881
chr466416666641744E070-33785
chr466417806643885E070-31644
chr466600566660849E070-14680
chr466656286665698E070-9831
chr466658886665999E070-9530
chr466660286666137E070-9392
chr466749916675052E070-477
chr466751406675329E070-200
chr466754476676811E0700
chr467107916712381E07035262
chr467174106718936E07041881
chr466416666641744E071-33785
chr466417806643885E071-31644
chr466600566660849E071-14680
chr466609086660989E071-14540
chr466658886665999E071-9530
chr466660286666137E071-9392
chr466749916675052E071-477
chr466751406675329E071-200
chr466754476676811E0710
chr467107916712381E07135262
chr467174106718936E07141881
chr466416666641744E072-33785
chr466417806643885E072-31644
chr466600566660849E072-14680
chr466609086660989E072-14540
chr466656286665698E072-9831
chr466658886665999E072-9530
chr466660286666137E072-9392
chr466749916675052E072-477
chr466751406675329E072-200
chr466754476676811E0720
chr467107916712381E07235262
chr467174106718936E07241881
chr466416666641744E073-33785
chr466417806643885E073-31644
chr466600566660849E073-14680
chr466609086660989E073-14540
chr466656286665698E073-9831
chr466658886665999E073-9530
chr466660286666137E073-9392
chr466749916675052E073-477
chr466751406675329E073-200
chr466754476676811E0730
chr467107916712381E07335262
chr467174106718936E07341881
chr466417806643885E074-31644
chr466749916675052E074-477
chr466751406675329E074-200
chr466754476676811E0740
chr467107916712381E07435262
chr467174106718936E07441881
chr466416666641744E081-33785
chr466754476676811E0810
chr467107916712381E08135262
chr467174106718936E08141881
chr466416666641744E082-33785
chr466417806643885E082-31644
chr466600566660849E082-14680
chr466609086660989E082-14540
chr466749916675052E082-477
chr466751406675329E082-200
chr466754476676811E0820
chr467107916712381E08235262
chr467174106718936E08241881