rs2887631

Homo sapiens
G>A
LRTM2 : Intron Variant
CACNA2D4 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G==0253 (7596/29912,GnomAD)
G==0266 (7754/29118,TOPMED)
G==0268 (1343/5008,1000G)
G==0277 (1068/3854,ALSPAC)
G==0281 (1043/3708,TWINSUK)
chr12:1825415 (GRCh38.p7) (12p13.33)
AD
GWASCatalog
1   publication(s)
See rs on genome
7 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 12NC_000012.12:g.1825415G>A
GRCh37.p13 chr 12NC_000012.11:g.1934581G>A
CACNA2D4 RefSeqGeneNG_012663.1:g.98290C>T

Gene: LRTM2, leucine-rich repeats and transmembrane domains 2(plus strand)

Molecule type Change Amino acid[Codon] SO Term
LRTM2 transcript variant 1NM_001039029.2:c.N/AIntron Variant
LRTM2 transcript variant 2NM_001163925.1:c.N/AIntron Variant
LRTM2 transcript variant 3NM_001163926.1:c.N/AIntron Variant
LRTM2 transcript variant X2XM_011521015.1:c.N/AIntron Variant
LRTM2 transcript variant X1XM_017019848.1:c.N/AGenic Upstream Transcript Variant

Gene: CACNA2D4, calcium voltage-gated channel auxiliary subunit alpha2delta 4(minus strand)

Molecule type Change Amino acid[Codon] SO Term
CACNA2D4 transcriptNM_172364.4:c.N/AIntron Variant
CACNA2D4 transcript variant X1XM_011521041.2:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.284A=0.716
1000GenomesAmericanSub694G=0.260A=0.740
1000GenomesEast AsianSub1008G=0.140A=0.860
1000GenomesEuropeSub1006G=0.274A=0.726
1000GenomesGlobalStudy-wide5008G=0.268A=0.732
1000GenomesSouth AsianSub978G=0.380A=0.620
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.277A=0.723
The Genome Aggregation DatabaseAfricanSub8704G=0.287A=0.713
The Genome Aggregation DatabaseAmericanSub836G=0.230A=0.770
The Genome Aggregation DatabaseEast AsianSub1618G=0.112A=0.888
The Genome Aggregation DatabaseEuropeSub18452G=0.252A=0.747
The Genome Aggregation DatabaseGlobalStudy-wide29912G=0.253A=0.746
The Genome Aggregation DatabaseOtherSub302G=0.240A=0.760
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.266A=0.733
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.281A=0.719
PMID Title Author Journal
23942779A genome-wide association study of behavioral disinhibition.McGue MBehav Genet

P-Value

SNP ID p-value Traits Study
rs28876314E-06alcohol dependence23942779

eQTL of rs2887631 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 rs2887631 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 )
chr1218846651884853E067-49728
chr1218849331885033E067-49548
chr1218851801885280E067-49301
chr1218853161886193E067-48388
chr1218869461887305E067-47276
chr1218878091887859E067-46722
chr1218881271888395E067-46186
chr1218885651888627E067-45954
chr1218887821888850E067-45731
chr1218889571889298E067-45283
chr1218896581889702E067-44879
chr1218904571890572E067-44009
chr1218907731891428E067-43153
chr1218915391891605E067-42976
chr1218970321897145E067-37436
chr1218971551897236E067-37345
chr1218972811897331E067-37250
chr1218975071897600E067-36981
chr1218995671900061E067-34520
chr1219000671901183E067-33398
chr1219288051928901E067-5680
chr1219459901946220E06711409
chr1219462841946566E06711703
chr1219482071948257E06713626
chr1219483221948403E06713741
chr1219484131948625E06713832
chr1218846651884853E068-49728
chr1218849331885033E068-49548
chr1218851801885280E068-49301
chr1218853161886193E068-48388
chr1218869461887305E068-47276
chr1218878091887859E068-46722
chr1218881271888395E068-46186
chr1218885651888627E068-45954
chr1218887821888850E068-45731
chr1218889571889298E068-45283
chr1218896581889702E068-44879
chr1218904571890572E068-44009
chr1218907731891428E068-43153
chr1218915391891605E068-42976
chr1218931921893360E068-41221
chr1218970321897145E068-37436
chr1218971551897236E068-37345
chr1218972811897331E068-37250
chr1218975071897600E068-36981
chr1218976071897668E068-36913
chr1218979001897986E068-36595
chr1218995671900061E068-34520
chr1219000671901183E068-33398
chr1219039761904183E068-30398
chr1219042181904699E068-29882
chr1219371281937201E0682547
chr1219397561939806E0685175
chr1219398911939942E0685310
chr1219400631941045E0685482
chr1219413401941408E0686759
chr1219455701945653E06810989
chr1219456881945747E06811107
chr1219467001946837E06812119
chr1219468581946923E06812277
chr1219469641947299E06812383
chr1219473371947850E06812756
chr1219482071948257E06813626
chr1219483221948403E06813741
chr1219484131948625E06813832
chr1218846651884853E069-49728
chr1218849331885033E069-49548
chr1218851801885280E069-49301
chr1218853161886193E069-48388
chr1218869461887305E069-47276
chr1218878091887859E069-46722
chr1218881271888395E069-46186
chr1218885651888627E069-45954
chr1218887821888850E069-45731
chr1218889571889298E069-45283
chr1218896581889702E069-44879
chr1218907731891428E069-43153
chr1218915391891605E069-42976
chr1218931921893360E069-41221
chr1218970321897145E069-37436
chr1218971551897236E069-37345
chr1218972811897331E069-37250
chr1218975071897600E069-36981
chr1218976071897668E069-36913
chr1218979001897986E069-36595
chr1218995671900061E069-34520
chr1219000671901183E069-33398
chr1219042181904699E069-29882
chr1219135191914219E069-20362
chr1219286261928718E069-5863
chr1219288051928901E069-5680
chr1219289991929173E069-5408
chr1219400631941045E0695482
chr1219445261944657E0699945
chr1219446751944843E06910094
chr1219452551945299E06910674
chr1219453161945495E06910735
chr1219455701945653E06910989
chr1219456881945747E06911107
chr1219459901946220E06911409
chr1219462841946566E06911703
chr1219467001946837E06912119
chr1219468581946923E06912277
chr1219469641947299E06912383
chr1219473371947850E06912756
chr1219482071948257E06913626
chr1219483221948403E06913741
chr1218887821888850E070-45731
chr1218889571889298E070-45283
chr1219097201910456E070-24125
chr1219142491914750E070-19831
chr1219289991929173E070-5408
chr1219310351931436E070-3145
chr1219314391931489E070-3092
chr1219361171936197E0701536
chr1219459901946220E07011409
chr1219462841946566E07011703
chr1219467001946837E07012119
chr1219468581946923E07012277
chr1219469641947299E07012383
chr1219473371947850E07012756
chr1219482071948257E07013626
chr1219483221948403E07013741
chr1219484131948625E07013832
chr1219489321949047E07014351
chr1219492131949357E07014632
chr1219494831949565E07014902
chr1219498691949909E07015288
chr1219501901950287E07015609
chr1219536071953685E07019026
chr1219538041954069E07019223
chr1219545251954575E07019944
chr1219546101954763E07020029
chr1219828501982912E07048269
chr1219830001983400E07048419
chr1218846651884853E071-49728
chr1218849331885033E071-49548
chr1218851801885280E071-49301
chr1218853161886193E071-48388
chr1218869461887305E071-47276
chr1218878091887859E071-46722
chr1218881271888395E071-46186
chr1218896581889702E071-44879
chr1218904571890572E071-44009
chr1218907731891428E071-43153
chr1218915391891605E071-42976
chr1218931921893360E071-41221
chr1218963631896433E071-38148
chr1218966561896746E071-37835
chr1218967771896827E071-37754
chr1218970321897145E071-37436
chr1218971551897236E071-37345
chr1218972811897331E071-37250
chr1218975071897600E071-36981
chr1218976071897668E071-36913
chr1218979001897986E071-36595
chr1218995671900061E071-34520
chr1219000671901183E071-33398
chr1219042181904699E071-29882
chr1219135191914219E071-20362
chr1219142491914750E071-19831
chr1219228841922934E071-11647
chr1219288051928901E071-5680
chr1219289991929173E071-5408
chr1219338541933953E071-628
chr1219452551945299E07110674
chr1219453161945495E07110735
chr1219455701945653E07110989
chr1219456881945747E07111107
chr1219459901946220E07111409
chr1219462841946566E07111703
chr1219467001946837E07112119
chr1219468581946923E07112277
chr1219469641947299E07112383
chr1219473371947850E07112756
chr1218846651884853E072-49728
chr1218849331885033E072-49548
chr1218851801885280E072-49301
chr1218853161886193E072-48388
chr1218869461887305E072-47276
chr1218878091887859E072-46722
chr1218881271888395E072-46186
chr1218885651888627E072-45954
chr1218887821888850E072-45731
chr1218889571889298E072-45283
chr1218904571890572E072-44009
chr1218907731891428E072-43153
chr1218915391891605E072-42976
chr1218931921893360E072-41221
chr1218938201893864E072-40717
chr1218958591896039E072-38542
chr1218960561896137E072-38444
chr1218961581896254E072-38327
chr1218963631896433E072-38148
chr1218966561896746E072-37835
chr1218967771896827E072-37754
chr1218970321897145E072-37436
chr1218971551897236E072-37345
chr1218972811897331E072-37250
chr1218975071897600E072-36981
chr1218995671900061E072-34520
chr1219000671901183E072-33398
chr1219042181904699E072-29882
chr1219135191914219E072-20362
chr1219286261928718E072-5863
chr1219288051928901E072-5680
chr1219289991929173E072-5408
chr1219338541933953E072-628
chr1219341891934239E072-342
chr1219342601934347E072-234
chr1219396431939701E0725062
chr1219397561939806E0725175
chr1219398911939942E0725310
chr1219400631941045E0725482
chr1219452551945299E07210674
chr1219453161945495E07210735
chr1219455701945653E07210989
chr1219456881945747E07211107
chr1219467001946837E07212119
chr1219468581946923E07212277
chr1219469641947299E07212383
chr1219473371947850E07212756
chr1219482071948257E07213626
chr1219483221948403E07213741
chr1218846651884853E073-49728
chr1218849331885033E073-49548
chr1218851801885280E073-49301
chr1218853161886193E073-48388
chr1218885651888627E073-45954
chr1218887821888850E073-45731
chr1218889571889298E073-45283
chr1218896581889702E073-44879
chr1218904571890572E073-44009
chr1218907731891428E073-43153
chr1218915391891605E073-42976
chr1218931921893360E073-41221
chr1218944251894475E073-40106
chr1218944771894628E073-39953
chr1218946511895003E073-39578
chr1218970321897145E073-37436
chr1218971551897236E073-37345
chr1218972811897331E073-37250
chr1218975071897600E073-36981
chr1218995671900061E073-34520
chr1219000671901183E073-33398
chr1219286261928718E073-5863
chr1219288051928901E073-5680
chr1219289991929173E073-5408
chr1219338541933953E073-628
chr1219341891934239E073-342
chr1219342601934347E073-234
chr1219346121934662E07331
chr1219397561939806E0735175
chr1219398911939942E0735310
chr1219400631941045E0735482
chr1219445261944657E0739945
chr1219446751944843E07310094
chr1219467001946837E07312119
chr1219468581946923E07312277
chr1219469641947299E07312383
chr1219473371947850E07312756
chr1219482071948257E07313626
chr1219483221948403E07313741
chr1219484131948625E07313832
chr1218846651884853E074-49728
chr1218849331885033E074-49548
chr1218851801885280E074-49301
chr1218853161886193E074-48388
chr1218869461887305E074-47276
chr1218878091887859E074-46722
chr1218881271888395E074-46186
chr1218885651888627E074-45954
chr1218887821888850E074-45731
chr1218889571889298E074-45283
chr1218896581889702E074-44879
chr1218904571890572E074-44009
chr1218907731891428E074-43153
chr1218915391891605E074-42976
chr1218931921893360E074-41221
chr1218938201893864E074-40717
chr1218939651894077E074-40504
chr1218944251894475E074-40106
chr1218944771894628E074-39953
chr1218946511895003E074-39578
chr1218955551895658E074-38923
chr1218958591896039E074-38542
chr1218960561896137E074-38444
chr1218961581896254E074-38327
chr1218963631896433E074-38148
chr1218966561896746E074-37835
chr1218967771896827E074-37754
chr1218970321897145E074-37436
chr1218971551897236E074-37345
chr1218972811897331E074-37250
chr1218975071897600E074-36981
chr1218976071897668E074-36913
chr1218979001897986E074-36595
chr1218986081898731E074-35850
chr1218991241899183E074-35398
chr1218995671900061E074-34520
chr1219000671901183E074-33398
chr1219467001946837E07412119
chr1219468581946923E07412277
chr1219469641947299E07412383
chr1218846651884853E081-49728
chr1218849331885033E081-49548
chr1218851801885280E081-49301
chr1219135191914219E081-20362
chr1219154741915671E081-18910
chr1219157051915822E081-18759
chr1219158801916060E081-18521
chr1219161771916539E081-18042
chr1219165531916735E081-17846
chr1219168901916980E081-17601
chr1219173391917438E081-17143
chr1219176351917675E081-16906
chr1219177211917836E081-16745
chr1219260091926194E081-8387
chr1219284141928508E081-6073
chr1219286261928718E081-5863
chr1219288051928901E081-5680
chr1219289991929173E081-5408
chr1219310351931436E081-3145
chr1219314391931489E081-3092
chr1219397561939806E0815175
chr1219398911939942E0815310
chr1219400631941045E0815482
chr1219421921942547E0817611
chr1219432381943289E0818657
chr1219445261944657E0819945
chr1219446751944843E08110094
chr1219452551945299E08110674
chr1219453161945495E08110735
chr1219455701945653E08110989
chr1219456881945747E08111107
chr1219459901946220E08111409
chr1219462841946566E08111703
chr1219467001946837E08112119
chr1219468581946923E08112277
chr1219469641947299E08112383
chr1219473371947850E08112756
chr1219482071948257E08113626
chr1219483221948403E08113741
chr1219484131948625E08113832
chr1219489321949047E08114351
chr1219498691949909E08115288
chr1219501901950287E08115609
chr1219536071953685E08119026
chr1219538041954069E08119223
chr1219545251954575E08119944
chr1219546101954763E08120029
chr1219549511955001E08120370
chr1219600811960161E08125500
chr1219602581960320E08125677
chr1219603751960827E08125794
chr1219609361961036E08126355
chr1219611461961214E08126565
chr1219613471961464E08126766
chr1219793301979476E08144749
chr1219794981979738E08144917
chr1219798051979981E08145224
chr1219799851980035E08145404
chr1219809661981020E08146385
chr1219811121981548E08146531
chr1219816211981864E08147040
chr1219828501982912E08148269
chr1219830001983400E08148419
chr1219834011983557E08148820
chr1219836671983772E08149086
chr1218846651884853E082-49728
chr1218849331885033E082-49548
chr1218851801885280E082-49301
chr1218853161886193E082-48388
chr1219097201910456E082-24125
chr1219284141928508E082-6073
chr1219286261928718E082-5863
chr1219288051928901E082-5680
chr1219289991929173E082-5408
chr1219361171936197E0821536
chr1219366321936694E0822051
chr1219381321938289E0823551
chr1219396431939701E0825062
chr1219397561939806E0825175
chr1219398911939942E0825310
chr1219421921942547E0827611
chr1219455701945653E08210989
chr1219456881945747E08211107
chr1219459901946220E08211409
chr1219462841946566E08211703
chr1219467001946837E08212119
chr1219468581946923E08212277
chr1219469641947299E08212383
chr1219482071948257E08213626
chr1219483221948403E08213741
chr1219484131948625E08213832
chr1219489321949047E08214351
chr1219492131949357E08214632
chr1219494831949565E08214902
chr1219498691949909E08215288
chr1219527491952833E08218168
chr1219536071953685E08219026
chr1219538041954069E08219223
chr1219545251954575E08219944
chr1219546101954763E08220029
chr1219549511955001E08220370
chr1219799851980035E08245404
chr1219809661981020E08246385
chr1219811121981548E08246531
chr1219816211981864E08247040
chr1219828501982912E08248269
chr1219830001983400E08248419
chr1219834011983557E08248820
chr1219836671983772E08249086










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr1219047021907236E067-27345
chr1219047021907236E068-27345
chr1219047021907236E069-27345
chr1219047021907236E071-27345
chr1219047021907236E072-27345
chr1219047021907236E073-27345
chr1219047021907236E074-27345