rs10273901

Homo sapiens
T>C
PLXNA4 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0128 (3860/29964,GnomAD)
C=0157 (4599/29118,TOPMED)
C=0121 (604/5008,1000G)
C=0043 (165/3854,ALSPAC)
C=0041 (152/3708,TWINSUK)
chr7:132143808 (GRCh38.p7) (7q32.3)
AD
GWASdb2
1   publication(s)
See rs on genome
162 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 7NC_000007.14:g.132143808T>C
GRCh37.p13 chr 7NC_000007.13:g.131828567T>C

Gene: PLXNA4, plexin A4(minus strand)

Molecule type Change Amino acid[Codon] SO Term
PLXNA4 transcript variant 1NM_020911.1:c.N/AIntron Variant
PLXNA4 transcript variant 3NM_001105543.1:c.N/AGenic Downstream Transcript Variant
PLXNA4 transcript variant 2NM_181775.3:c.N/AGenic Downstream Transcript Variant
PLXNA4 transcript variant X2XM_005250686.4:c.N/AIntron Variant
PLXNA4 transcript variant X1XM_006716171.3:c.N/AIntron Variant
PLXNA4 transcript variant X3XM_017012779.1:c.N/AIntron Variant
PLXNA4 transcript variant X4XM_011516676.2:c.N/AGenic Downstream Transcript Variant
PLXNA4 transcript variant X5XR_927546.2:n.N/AGenic Downstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322T=0.649C=0.351
1000GenomesAmericanSub694T=0.950C=0.050
1000GenomesEast AsianSub1008T=0.999C=0.001
1000GenomesEuropeSub1006T=0.945C=0.055
1000GenomesGlobalStudy-wide5008T=0.879C=0.121
1000GenomesSouth AsianSub978T=0.950C=0.050
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.957C=0.043
The Genome Aggregation DatabaseAfricanSub8704T=0.696C=0.304
The Genome Aggregation DatabaseAmericanSub838T=0.960C=0.040
The Genome Aggregation DatabaseEast AsianSub1622T=0.999C=0.001
The Genome Aggregation DatabaseEuropeSub18498T=0.937C=0.062
The Genome Aggregation DatabaseGlobalStudy-wide29964T=0.871C=0.128
The Genome Aggregation DatabaseOtherSub302T=0.950C=0.050
Trans-Omics for Precision MedicineGlobalStudy-wide29118T=0.842C=0.157
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.959C=0.041
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
rs102739010.000928alcohol dependence20201924

eQTL of rs10273901 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 rs10273901 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 )
chr7131824892131825282E067-3285
chr7131825393131825569E067-2998
chr7131829948131830001E0671381
chr7131830013131830097E0671446
chr7131830162131830629E0671595
chr7131836810131837186E0678243
chr7131845356131846405E06716789
chr7131861840131862016E06833273
chr7131862056131862145E06833489
chr7131875288131875338E06846721
chr7131875472131875566E06846905
chr7131829948131830001E0691381
chr7131830013131830097E0691446
chr7131830162131830629E0691595
chr7131845356131846405E06916789
chr7131789941131790131E070-38436
chr7131790425131790644E070-37923
chr7131796939131797217E070-31350
chr7131797251131797323E070-31244
chr7131797529131797716E070-30851
chr7131797902131797958E070-30609
chr7131798084131798146E070-30421
chr7131798149131798261E070-30306
chr7131808494131808548E070-20019
chr7131808623131808787E070-19780
chr7131808819131808895E070-19672
chr7131845356131846405E07016789
chr7131846926131847325E07018359
chr7131847370131847868E07018803
chr7131861697131861776E07033130
chr7131861840131862016E07033273
chr7131862056131862145E07033489
chr7131862195131862862E07033628
chr7131862938131863000E07034371
chr7131863053131863194E07034486
chr7131863195131863433E07034628
chr7131845356131846405E07116789
chr7131829858131829944E0721291
chr7131829948131830001E0721381
chr7131830162131830629E0721595
chr7131837670131837720E0729103
chr7131845356131846405E07216789
chr7131846926131847325E07218359
chr7131797902131797958E073-30609
chr7131825393131825569E073-2998
chr7131845356131846405E07416789
chr7131787794131787867E081-40700
chr7131788042131788092E081-40475
chr7131788129131788198E081-40369
chr7131788529131788790E081-39777
chr7131789719131789782E081-38785
chr7131789941131790131E081-38436
chr7131790425131790644E081-37923
chr7131796798131796848E081-31719
chr7131796939131797217E081-31350
chr7131797251131797323E081-31244
chr7131797529131797716E081-30851
chr7131797902131797958E081-30609
chr7131798084131798146E081-30421
chr7131798149131798261E081-30306
chr7131808623131808787E081-19780
chr7131808819131808895E081-19672
chr7131809077131809131E081-19436
chr7131825393131825569E081-2998
chr7131825941131826221E081-2346
chr7131826797131826848E081-1719
chr7131826927131827042E081-1525
chr7131827477131827531E081-1036
chr7131827611131827745E081-822
chr7131828076131828184E081-383
chr7131828621131828674E08154
chr7131828790131828856E081223
chr7131828922131828972E081355
chr7131829260131829340E081693
chr7131829351131829401E081784
chr7131829662131829790E0811095
chr7131829858131829944E0811291
chr7131829948131830001E0811381
chr7131834103131834532E0815536
chr7131834788131834895E0816221
chr7131835168131835257E0816601
chr7131835358131835421E0816791
chr7131840708131840810E08112141
chr7131840979131841097E08112412
chr7131841344131841420E08112777
chr7131842565131842615E08113998
chr7131842745131842825E08114178
chr7131842846131842896E08114279
chr7131842969131843244E08114402
chr7131843356131843477E08114789
chr7131843791131843867E08115224
chr7131845086131845126E08116519
chr7131845356131846405E08116789
chr7131846450131846564E08117883
chr7131846592131846827E08118025
chr7131846926131847325E08118359
chr7131847370131847868E08118803
chr7131847937131847991E08119370
chr7131848242131848322E08119675
chr7131848540131848590E08119973
chr7131848628131848718E08120061
chr7131848848131849019E08120281
chr7131849242131849292E08120675
chr7131849342131849477E08120775
chr7131860522131860572E08131955
chr7131862056131862145E08133489
chr7131862195131862862E08133628
chr7131862938131863000E08134371
chr7131863053131863194E08134486
chr7131863195131863433E08134628
chr7131863522131863576E08134955
chr7131863673131863813E08135106
chr7131863841131864073E08135274
chr7131864312131864449E08135745
chr7131867569131867669E08139002
chr7131867684131867734E08139117
chr7131867776131868096E08139209
chr7131868144131868184E08139577
chr7131868245131868843E08139678
chr7131868880131869103E08140313
chr7131793137131793263E082-35304
chr7131793305131793619E082-34948
chr7131796939131797217E082-31350
chr7131797251131797323E082-31244
chr7131797529131797716E082-30851
chr7131797902131797958E082-30609
chr7131798084131798146E082-30421
chr7131798149131798261E082-30306
chr7131808494131808548E082-20019
chr7131808623131808787E082-19780
chr7131808819131808895E082-19672
chr7131809077131809131E082-19436
chr7131825941131826221E082-2346
chr7131826797131826848E082-1719
chr7131828790131828856E082223
chr7131828922131828972E082355
chr7131829260131829340E082693
chr7131829351131829401E082784
chr7131829662131829790E0821095
chr7131829858131829944E0821291
chr7131829948131830001E0821381
chr7131834788131834895E0826221
chr7131839415131839463E08210848
chr7131839564131839735E08210997
chr7131839841131839891E08211274
chr7131839991131840235E08211424
chr7131840380131840494E08211813
chr7131842745131842825E08214178
chr7131842846131842896E08214279
chr7131842969131843244E08214402
chr7131843356131843477E08214789
chr7131845356131846405E08216789
chr7131846450131846564E08217883
chr7131846592131846827E08218025
chr7131846926131847325E08218359
chr7131847370131847868E08218803
chr7131847937131847991E08219370
chr7131861840131862016E08233273
chr7131862056131862145E08233489
chr7131862195131862862E08233628
chr7131868245131868843E08239678
chr7131868880131869103E08240313