rs10840110

Homo sapiens
C>T
TRIM66 : Intron Variant
RPL27A : 5 Prime UTR Variant
SNORA3A : 2KB Upstream Variant
Check p-value
SNV (Single Nucleotide Variation)
T=0105 (3151/29950,GnomAD)
T=0117 (3417/29118,TOPMED)
T=0116 (579/5008,1000G)
T=0085 (326/3854,ALSPAC)
T=0077 (286/3708,TWINSUK)
chr11:8682544 (GRCh38.p7) (11p15.4)
AD
GWASdb2
1   publication(s)
See rs on genome
179 Enhancers around
20 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 11NC_000011.10:g.8682544C>T
GRCh37.p13 chr 11NC_000011.9:g.8704091C>T

Gene: RPL27A, ribosomal protein L27a(plus strand)

Molecule type Change Amino acid[Codon] SO Term
RPL27A transcriptNM_000990.4:c.N/A5 Prime UTR Variant

Gene: TRIM66, tripartite motif containing 66(minus strand)

Molecule type Change Amino acid[Codon] SO Term
TRIM66 transcriptNM_014818.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X1XM_006718397.2:c.N/AIntron Variant
TRIM66 transcript variant X2XM_011520504.1:c.N/AIntron Variant
TRIM66 transcript variant X4XM_011520507.2:c.N/AIntron Variant
TRIM66 transcript variant X5XM_011520508.1:c.N/AIntron Variant
TRIM66 transcript variant X6XM_011520509.1:c.N/AIntron Variant
TRIM66 transcript variant X7XM_011520510.1:c.N/AIntron Variant
TRIM66 transcript variant X8XM_011520511.1:c.N/AIntron Variant
TRIM66 transcript variant X24XM_011520524.1:c.N/AIntron Variant
TRIM66 transcript variant X25XM_011520525.1:c.N/AIntron Variant
TRIM66 transcript variant X3XM_017018629.1:c.N/AIntron Variant
TRIM66 transcript variant X16XM_006718398.3:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X10XM_011520512.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X12XM_011520513.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X11XM_011520514.2:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X13XM_011520515.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X14XM_011520516.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X15XM_011520517.2:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X17XM_011520518.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X18XM_011520519.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X21XM_011520522.2:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X19XM_011520523.2:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X26XM_011520526.2:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X28XM_011520527.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X9XM_017018630.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X20XM_017018631.1:c.N/AGenic Upstream Transcript Variant
TRIM66 transcript variant X22XR_930929.1:n.N/AIntron Variant
TRIM66 transcript variant X23XR_930930.1:n.N/AIntron Variant
TRIM66 transcript variant X27XR_930931.1:n.N/AIntron Variant

Gene: SNORA3A, small nucleolar RNA, H/ACA box 3A(plus strand): 2KB Upstream Variant

Molecule type Change Amino acid[Codon] SO Term
SNORA3A transcriptNR_002580.1:n.N/AUpstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322C=0.810T=0.190
1000GenomesAmericanSub694C=0.900T=0.100
1000GenomesEast AsianSub1008C=0.938T=0.062
1000GenomesEuropeSub1006C=0.935T=0.065
1000GenomesGlobalStudy-wide5008C=0.884T=0.116
1000GenomesSouth AsianSub978C=0.870T=0.130
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854C=0.915T=0.085
The Genome Aggregation DatabaseAfricanSub8710C=0.830T=0.170
The Genome Aggregation DatabaseAmericanSub836C=0.900T=0.100
The Genome Aggregation DatabaseEast AsianSub1622C=0.916T=0.084
The Genome Aggregation DatabaseEuropeSub18480C=0.923T=0.076
The Genome Aggregation DatabaseGlobalStudy-wide29950C=0.894T=0.105
The Genome Aggregation DatabaseOtherSub302C=0.840T=0.160
Trans-Omics for Precision MedicineGlobalStudy-wide29118C=0.882T=0.117
UK 10K study - TwinsTWIN COHORTStudy-wide3708C=0.923T=0.077
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
rs108401100.000991alcohol dependence21314694

eQTL of rs10840110 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 rs10840110 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 )
chr1186926028693652E067-10439
chr1187064178706695E0672326
chr1187197468722250E06715655
chr1187283008729591E06724209
chr1187296108730167E06725519
chr1187301958730252E06726104
chr1187303328730380E06726241
chr1187305298731252E06726438
chr1187362028736331E06732111
chr1187363338736763E06732242
chr1187388568739151E06734765
chr1187392118741707E06735120
chr1187417268741834E06737635
chr1187451548745254E06741063
chr1187453078745444E06741216
chr1187454458745567E06741354
chr1187506278750723E06746536
chr1187507838750924E06746692
chr1187511828751249E06747091
chr1186784718678570E068-25521
chr1186786988678738E068-25353
chr1186788868679006E068-25085
chr1186790788679128E068-24963
chr1186926028693652E068-10439
chr1186936898694018E068-10073
chr1187055808706263E0681489
chr1187283008729591E06824209
chr1187296108730167E06825519
chr1187362028736331E06832111
chr1187363338736763E06832242
chr1187388568739151E06834765
chr1187392118741707E06835120
chr1187417268741834E06837635
chr1187418498744415E06837758
chr1187506278750723E06846536
chr1187507838750924E06846692
chr1187511828751249E06847091
chr1186926028693652E069-10439
chr1186936898694018E069-10073
chr1187197468722250E06915655
chr1187283008729591E06924209
chr1187296108730167E06925519
chr1187301958730252E06926104
chr1187303328730380E06926241
chr1187305298731252E06926438
chr1187362028736331E06932111
chr1187363338736763E06932242
chr1187368068737551E06932715
chr1187388568739151E06934765
chr1187392118741707E06935120
chr1187417268741834E06937635
chr1187418498744415E06937758
chr1186926028693652E070-10439
chr1187118238711928E0707732
chr1187119718712021E0707880
chr1187120698712135E0707978
chr1187121628712212E0708071
chr1187225008723218E07018409
chr1187283008729591E07024209
chr1187296108730167E07025519
chr1187301958730252E07026104
chr1187303328730380E07026241
chr1187305298731252E07026438
chr1187368068737551E07032715
chr1187388568739151E07034765
chr1186926028693652E071-10439
chr1186936898694018E071-10073
chr1187197468722250E07115655
chr1187296108730167E07125519
chr1187301958730252E07126104
chr1187363338736763E07132242
chr1187388568739151E07134765
chr1187392118741707E07135120
chr1187417268741834E07137635
chr1187418498744415E07137758
chr1187444748744570E07140383
chr1187446918744900E07140600
chr1187450578745116E07140966
chr1187451548745254E07141063
chr1187506278750723E07146536
chr1187507838750924E07146692
chr1187532138753781E07149122
chr1186936898694018E072-10073
chr1187197468722250E07215655
chr1187283008729591E07224209
chr1187378358737958E07233744
chr1187379908738156E07233899
chr1187386868738735E07234595
chr1187388568739151E07234765
chr1187392118741707E07235120
chr1187417268741834E07237635
chr1187418498744415E07237758
chr1187444748744570E07240383
chr1187446918744900E07240600
chr1187450578745116E07240966
chr1187451548745254E07241063
chr1187453078745444E07241216
chr1187454458745567E07241354
chr1187459118746090E07241820
chr1187506278750723E07246536
chr1187507838750924E07246692
chr1187511828751249E07247091
chr1186926028693652E073-10439
chr1186936898694018E073-10073
chr1187029508703007E073-1084
chr1187064178706695E0732326
chr1187197468722250E07315655
chr1187283008729591E07324209
chr1187296108730167E07325519
chr1187301958730252E07326104
chr1187303328730380E07326241
chr1187305298731252E07326438
chr1187345378734675E07330446
chr1187362028736331E07332111
chr1187363338736763E07332242
chr1187388568739151E07334765
chr1187392118741707E07335120
chr1187417268741834E07337635
chr1187418498744415E07337758
chr1187444748744570E07340383
chr1187446918744900E07340600
chr1187450578745116E07340966
chr1187451548745254E07341063
chr1187506278750723E07346536
chr1187507838750924E07346692
chr1187511828751249E07347091
chr1187514678751890E07347376
chr1187526338752697E07348542
chr1187527548752866E07348663
chr1187529008753009E07348809
chr1187530158753059E07348924
chr1187530738753146E07348982
chr1187532138753781E07349122
chr1186797498680527E074-23564
chr1186805388680605E074-23486
chr1186926028693652E074-10439
chr1187114168711756E0747325
chr1187197468722250E07415655
chr1187296108730167E07425519
chr1187301958730252E07426104
chr1187388568739151E07434765
chr1187392118741707E07435120
chr1187417268741834E07437635
chr1187418498744415E07437758
chr1187486608748751E07444569
chr1187487948750561E07444703
chr1187507838750924E07446692
chr1187511828751249E07447091
chr1187532138753781E07449122
chr1186631388663226E081-40865
chr1186632868663502E081-40589
chr1186636838664257E081-39834
chr1186644408664492E081-39599
chr1186645548664594E081-39497
chr1186797498680527E081-23564
chr1186805388680605E081-23486
chr1186926028693652E081-10439
chr1186936898694018E081-10073
chr1187055808706263E0811489
chr1187088238708898E0814732
chr1187296108730167E08125519
chr1187301958730252E08126104
chr1187303328730380E08126241
chr1187305298731252E08126438
chr1187386868738735E08134595
chr1187388568739151E08134765
chr1187487948750561E08144703
chr1187506278750723E08146536
chr1186636838664257E082-39834
chr1186644408664492E082-39599
chr1186645548664594E082-39497
chr1186926028693652E082-10439
chr1187296108730167E08225519
chr1187301958730252E08226104
chr1187303328730380E08226241
chr1187392118741707E08235120
chr1187506278750723E08246536
chr1187507838750924E08246692
chr1187511828751249E08247091










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr1187033418705272E0670
chr1187093768711272E0675285
chr1187033418705272E0680
chr1187093768711272E0685285
chr1187033418705272E0690
chr1187093768711272E0695285
chr1187033418705272E0700
chr1187093768711272E0705285
chr1187033418705272E0710
chr1187093768711272E0715285
chr1187033418705272E0720
chr1187093768711272E0725285
chr1187033418705272E0730
chr1187093768711272E0735285
chr1187033418705272E0740
chr1187093768711272E0745285
chr1187033418705272E0810
chr1187093768711272E0815285
chr1187033418705272E0820
chr1187093768711272E0825285