rs12677898

Homo sapiens
A>G
SCARA3 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0051 (1539/29952,GnomAD)
G=0049 (1441/29118,TOPMED)
G=0131 (656/5008,1000G)
G=0038 (148/3854,ALSPAC)
G=0033 (122/3708,TWINSUK)
chr8:27655269 (GRCh38.p7) (8p21.1)
AD
GWASdb2
1   publication(s)
See rs on genome
397 Enhancers around
27 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 8NC_000008.11:g.27655269A>G
GRCh37.p13 chr 8NC_000008.10:g.27512786A>G

Gene: SCARA3, scavenger receptor class A member 3(plus strand)

Molecule type Change Amino acid[Codon] SO Term
SCARA3 transcript variant 1NM_016240.2:c.N/AIntron Variant
SCARA3 transcript variant 2NM_182826.1:c.N/AIntron Variant
SCARA3 transcript variant X1XM_017013535.1:c.N/AIntron Variant
SCARA3 transcript variant X2XM_017013536.1:c.N/AIntron Variant
SCARA3 transcript variant X3XM_017013537.1:c.N/AIntron Variant
SCARA3 transcript variant X4XR_949419.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.997G=0.003
1000GenomesAmericanSub694A=0.880G=0.120
1000GenomesEast AsianSub1008A=0.671G=0.329
1000GenomesEuropeSub1006A=0.964G=0.036
1000GenomesGlobalStudy-wide5008A=0.869G=0.131
1000GenomesSouth AsianSub978A=0.800G=0.200
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.962G=0.038
The Genome Aggregation DatabaseAfricanSub8710A=0.990G=0.010
The Genome Aggregation DatabaseAmericanSub838A=0.830G=0.170
The Genome Aggregation DatabaseEast AsianSub1612A=0.632G=0.368
The Genome Aggregation DatabaseEuropeSub18490A=0.961G=0.038
The Genome Aggregation DatabaseGlobalStudy-wide29952A=0.948G=0.051
The Genome Aggregation DatabaseOtherSub302A=0.980G=0.020
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.950G=0.049
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.967G=0.033
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
rs126778980.000799alcohol dependence21314694

eQTL of rs12677898 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 rs12677898 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 )
chr82746546827465629E067-47157
chr82746563527465729E067-47057
chr82746575927466832E067-45954
chr82746690327467085E067-45701
chr82746720727467275E067-45511
chr82746729227467342E067-45444
chr82746740727467457E067-45329
chr82747418127475182E067-37604
chr82749505227495192E067-17594
chr82749525327495303E067-17483
chr82749693327497040E067-15746
chr82749709227497161E067-15625
chr82749718327497392E067-15394
chr82749754427497584E067-15202
chr82752231027522441E0679524
chr82752249627522823E0679710
chr82752304427523084E06710258
chr82752337127523455E06710585
chr82752351027523688E06710724
chr82752369227524183E06710906
chr82752420227524429E06711416
chr82752447427524544E06711688
chr82752473927524843E06711953
chr82752504827525292E06712262
chr82752652927526588E06713743
chr82752675227526898E06713966
chr82752696927527052E06714183
chr82752708027527314E06714294
chr82752732127527770E06714535
chr82752788827527962E06715102
chr82752910927529269E06716323
chr82752957427529624E06716788
chr82755918227559529E06746396
chr82755963427559723E06746848
chr82755976327560954E06746977
chr82756103027561090E06748244
chr82756115627561229E06748370
chr82756220927562360E06749423
chr82756237627562457E06749590
chr82756253027562602E06749744
chr82746546827465629E068-47157
chr82746563527465729E068-47057
chr82746690327467085E068-45701
chr82747418127475182E068-37604
chr82749340227493647E068-19139
chr82749365727493925E068-18861
chr82749486627494936E068-17850
chr82749505227495192E068-17594
chr82750976127509892E068-2894
chr82751005927510439E068-2347
chr82751050027510579E068-2207
chr82752231027522441E0689524
chr82752249627522823E0689710
chr82752304427523084E06810258
chr82752420227524429E06811416
chr82752447427524544E06811688
chr82752473927524843E06811953
chr82752504827525292E06812262
chr82752530527525516E06812519
chr82752554027525600E06812754
chr82752566927525724E06812883
chr82752652927526588E06813743
chr82752675227526898E06813966
chr82752696927527052E06814183
chr82752708027527314E06814294
chr82752732127527770E06814535
chr82752788827527962E06815102
chr82752910927529269E06816323
chr82755918227559529E06846396
chr82755963427559723E06846848
chr82756103027561090E06848244
chr82756115627561229E06848370
chr82756220927562360E06849423
chr82756237627562457E06849590
chr82756253027562602E06849744
chr82746289627462981E069-49805
chr82746361827463770E069-49016
chr82746385727463945E069-48841
chr82746397727464055E069-48731
chr82746424827464302E069-48484
chr82746546827465629E069-47157
chr82746563527465729E069-47057
chr82746575927466832E069-45954
chr82746690327467085E069-45701
chr82746720727467275E069-45511
chr82746729227467342E069-45444
chr82747300127473271E069-39515
chr82747418127475182E069-37604
chr82749505227495192E069-17594
chr82749525327495303E069-17483
chr82749586827495918E069-16868
chr82749598027496034E069-16752
chr82749608827496204E069-16582
chr82751050027510579E069-2207
chr82752123427521370E0698448
chr82752304427523084E06910258
chr82752337127523455E06910585
chr82752351027523688E06910724
chr82752369227524183E06910906
chr82752504827525292E06912262
chr82752530527525516E06912519
chr82752652927526588E06913743
chr82752675227526898E06913966
chr82752732127527770E06914535
chr82752788827527962E06915102
chr82755918227559529E06946396
chr82755963427559723E06946848
chr82755976327560954E06946977
chr82756103027561090E06948244
chr82756115627561229E06948370
chr82756220927562360E06949423
chr82756237627562457E06949590
chr82756253027562602E06949744
chr82746397727464055E070-48731
chr82746424827464302E070-48484
chr82746533527465396E070-47390
chr82746983427469916E070-42870
chr82746996327470075E070-42711
chr82747016627470416E070-42370
chr82747043127470500E070-42286
chr82747300127473271E070-39515
chr82749443727494648E070-18138
chr82749470227494793E070-17993
chr82749486627494936E070-17850
chr82749505227495192E070-17594
chr82749525327495303E070-17483
chr82749586827495918E070-16868
chr82749598027496034E070-16752
chr82749608827496204E070-16582
chr82749624627496296E070-16490
chr82749630027496350E070-16436
chr82749665027496734E070-16052
chr82749676227496821E070-15965
chr82749682227496912E070-15874
chr82749693327497040E070-15746
chr82749709227497161E070-15625
chr82749718327497392E070-15394
chr82750909327509180E070-3606
chr82750976127509892E070-2894
chr82750989827510054E070-2732
chr82751005927510439E070-2347
chr82751050027510579E070-2207
chr82751219427512284E070-502
chr82751241027512657E070-129
chr82752123427521370E0708448
chr82752231027522441E0709524
chr82752249627522823E0709710
chr82752304427523084E07010258
chr82752337127523455E07010585
chr82752351027523688E07010724
chr82752675227526898E07013966
chr82752696927527052E07014183
chr82752708027527314E07014294
chr82752732127527770E07014535
chr82755976327560954E07046977
chr82746361827463770E071-49016
chr82746385727463945E071-48841
chr82746397727464055E071-48731
chr82746424827464302E071-48484
chr82746533527465396E071-47390
chr82746546827465629E071-47157
chr82746563527465729E071-47057
chr82746690327467085E071-45701
chr82747300127473271E071-39515
chr82747336827473464E071-39322
chr82747351327473588E071-39198
chr82747360327473669E071-39117
chr82747391027474171E071-38615
chr82747418127475182E071-37604
chr82749470227494793E071-17993
chr82749486627494936E071-17850
chr82749665027496734E071-16052
chr82749676227496821E071-15965
chr82749682227496912E071-15874
chr82749693327497040E071-15746
chr82749709227497161E071-15625
chr82749718327497392E071-15394
chr82750275327502803E071-9983
chr82750282727503263E071-9523
chr82750976127509892E071-2894
chr82750989827510054E071-2732
chr82751005927510439E071-2347
chr82751050027510579E071-2207
chr82752083827520899E0718052
chr82752123427521370E0718448
chr82752231027522441E0719524
chr82752473927524843E07111953
chr82752504827525292E07112262
chr82752652927526588E07113743
chr82752675227526898E07113966
chr82752696927527052E07114183
chr82752708027527314E07114294
chr82752732127527770E07114535
chr82752788827527962E07115102
chr82752910927529269E07116323
chr82752957427529624E07116788
chr82752963727529709E07116851
chr82752971927529769E07116933
chr82752982727529960E07117041
chr82753004927530099E07117263
chr82753010627531501E07117320
chr82753158727531723E07118801
chr82753472027534815E07121934
chr82753482927534971E07122043
chr82755918227559529E07146396
chr82755963427559723E07146848
chr82755976327560954E07146977
chr82756103027561090E07148244
chr82756115627561229E07148370
chr82756220927562360E07149423
chr82756237627562457E07149590
chr82756253027562602E07149744
chr82746397727464055E072-48731
chr82746546827465629E072-47157
chr82746563527465729E072-47057
chr82746575927466832E072-45954
chr82746690327467085E072-45701
chr82746720727467275E072-45511
chr82746729227467342E072-45444
chr82746740727467457E072-45329
chr82747391027474171E072-38615
chr82747418127475182E072-37604
chr82749470227494793E072-17993
chr82749486627494936E072-17850
chr82749505227495192E072-17594
chr82749665027496734E072-16052
chr82749676227496821E072-15965
chr82749682227496912E072-15874
chr82749693327497040E072-15746
chr82749718327497392E072-15394
chr82751980227519877E0727016
chr82751990127519951E0727115
chr82751999927520053E0727213
chr82752231027522441E0729524
chr82752249627522823E0729710
chr82752304427523084E07210258
chr82752337127523455E07210585
chr82752351027523688E07210724
chr82752369227524183E07210906
chr82752420227524429E07211416
chr82752447427524544E07211688
chr82752473927524843E07211953
chr82752504827525292E07212262
chr82752652927526588E07213743
chr82752675227526898E07213966
chr82752696927527052E07214183
chr82752708027527314E07214294
chr82752732127527770E07214535
chr82752957427529624E07216788
chr82752963727529709E07216851
chr82752971927529769E07216933
chr82755918227559529E07246396
chr82755963427559723E07246848
chr82756220927562360E07249423
chr82756237627562457E07249590
chr82756253027562602E07249744
chr82746385727463945E073-48841
chr82746397727464055E073-48731
chr82746424827464302E073-48484
chr82746533527465396E073-47390
chr82746546827465629E073-47157
chr82746563527465729E073-47057
chr82746740727467457E073-45329
chr82747300127473271E073-39515
chr82747336827473464E073-39322
chr82747351327473588E073-39198
chr82747418127475182E073-37604
chr82749340227493647E073-19139
chr82749365727493925E073-18861
chr82749404927494401E073-18385
chr82749443727494648E073-18138
chr82749470227494793E073-17993
chr82749486627494936E073-17850
chr82749505227495192E073-17594
chr82749525327495303E073-17483
chr82749586827495918E073-16868
chr82749598027496034E073-16752
chr82749608827496204E073-16582
chr82749624627496296E073-16490
chr82749630027496350E073-16436
chr82749665027496734E073-16052
chr82749676227496821E073-15965
chr82749682227496912E073-15874
chr82749693327497040E073-15746
chr82749709227497161E073-15625
chr82749718327497392E073-15394
chr82749754427497584E073-15202
chr82749870227499102E073-13684
chr82750282727503263E073-9523
chr82752231027522441E0739524
chr82752249627522823E0739710
chr82752304427523084E07310258
chr82752337127523455E07310585
chr82752351027523688E07310724
chr82752369227524183E07310906
chr82752420227524429E07311416
chr82752447427524544E07311688
chr82752473927524843E07311953
chr82752504827525292E07312262
chr82752530527525516E07312519
chr82752652927526588E07313743
chr82752675227526898E07313966
chr82752696927527052E07314183
chr82752708027527314E07314294
chr82752732127527770E07314535
chr82752788827527962E07315102
chr82752910927529269E07316323
chr82755918227559529E07346396
chr82755963427559723E07346848
chr82755976327560954E07346977
chr82756103027561090E07348244
chr82756115627561229E07348370
chr82756220927562360E07349423
chr82756237627562457E07349590
chr82756253027562602E07349744
chr82746397727464055E074-48731
chr82746424827464302E074-48484
chr82746546827465629E074-47157
chr82746563527465729E074-47057
chr82746575927466832E074-45954
chr82746690327467085E074-45701
chr82746720727467275E074-45511
chr82746729227467342E074-45444
chr82746740727467457E074-45329
chr82746983427469916E074-42870
chr82747418127475182E074-37604
chr82749340227493647E074-19139
chr82749365727493925E074-18861
chr82749443727494648E074-18138
chr82749470227494793E074-17993
chr82749486627494936E074-17850
chr82749505227495192E074-17594
chr82749525327495303E074-17483
chr82749586827495918E074-16868
chr82749598027496034E074-16752
chr82749608827496204E074-16582
chr82749624627496296E074-16490
chr82749630027496350E074-16436
chr82750909327509180E074-3606
chr82752123427521370E0748448
chr82752231027522441E0749524
chr82752249627522823E0749710
chr82752304427523084E07410258
chr82752337127523455E07410585
chr82752351027523688E07410724
chr82752369227524183E07410906
chr82752420227524429E07411416
chr82752447427524544E07411688
chr82752473927524843E07411953
chr82752504827525292E07412262
chr82752530527525516E07412519
chr82752554027525600E07412754
chr82752566927525724E07412883
chr82752652927526588E07413743
chr82752675227526898E07413966
chr82752696927527052E07414183
chr82752708027527314E07414294
chr82752732127527770E07414535
chr82752788827527962E07415102
chr82752910927529269E07416323
chr82752957427529624E07416788
chr82752963727529709E07416851
chr82752971927529769E07416933
chr82752982727529960E07417041
chr82753004927530099E07417263
chr82753010627531501E07417320
chr82753257227533054E07419786
chr82753372027533991E07420934
chr82755466527554936E07441879
chr82755918227559529E07446396
chr82755963427559723E07446848
chr82755976327560954E07446977
chr82756103027561090E07448244
chr82756115627561229E07448370
chr82756220927562360E07449423
chr82756237627562457E07449590
chr82756253027562602E07449744
chr82746546827465629E081-47157
chr82746563527465729E081-47057
chr82746575927466832E081-45954
chr82746690327467085E081-45701
chr82746720727467275E081-45511
chr82746729227467342E081-45444
chr82746740727467457E081-45329
chr82746754227467837E081-44949
chr82746786427469811E081-42975
chr82752231027522441E0819524
chr82746690327467085E082-45701
chr82746720727467275E082-45511
chr82746729227467342E082-45444
chr82746740727467457E082-45329
chr82749470227494793E082-17993
chr82749486627494936E082-17850
chr82749505227495192E082-17594
chr82750989827510054E082-2732
chr82751005927510439E082-2347
chr82752369227524183E08210906










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr82749085827491492E067-21294
chr82749149427492021E067-20765
chr82749203427492097E067-20689
chr82749085827491492E068-21294
chr82749149427492021E068-20765
chr82749203427492097E068-20689
chr82749085827491492E069-21294
chr82749149427492021E069-20765
chr82749203427492097E069-20689
chr82749085827491492E070-21294
chr82749149427492021E070-20765
chr82749203427492097E070-20689
chr82749085827491492E071-21294
chr82749149427492021E071-20765
chr82749203427492097E071-20689
chr82749085827491492E072-21294
chr82749149427492021E072-20765
chr82749203427492097E072-20689
chr82749085827491492E073-21294
chr82749149427492021E073-20765
chr82749203427492097E073-20689
chr82749085827491492E074-21294
chr82749149427492021E074-20765
chr82749203427492097E074-20689
chr82749085827491492E082-21294
chr82749149427492021E082-20765
chr82749203427492097E082-20689