rs7380658

Homo sapiens
G>T
GMCL1P1 : Non Coding Transcript Variant
Check p-value
SNV (Single Nucleotide Variation)
G==0222 (6651/29938,GnomAD)
G==0259 (7550/29118,TOPMED)
G==0188 (939/5008,1000G)
G==0145 (559/3854,ALSPAC)
G==0142 (526/3708,TWINSUK)
chr5:178185033 (GRCh38.p7) (5q35.3)
AD
GWASdb2
1   publication(s)
See rs on genome

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.178185033G>T
GRCh37.p13 chr 5NC_000005.9:g.177612034G>T

Gene: GMCL1P1, germ cell-less, spermatogenesis associated 1 pseudogene 1(minus strand)

Molecule type Change Amino acid[Codon] SO Term
Non-protein-coding transcriptsNR_003281.1:n.240...NR_003281.1:n.2400C>AC>ANon Coding Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.467T=0.533
1000GenomesAmericanSub694G=0.150T=0.850
1000GenomesEast AsianSub1008G=0.022T=0.978
1000GenomesEuropeSub1006G=0.127T=0.873
1000GenomesGlobalStudy-wide5008G=0.188T=0.812
1000GenomesSouth AsianSub978G=0.070T=0.930
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.145T=0.855
The Genome Aggregation DatabaseAfricanSub8708G=0.437T=0.563
The Genome Aggregation DatabaseAmericanSub838G=0.120T=0.880
The Genome Aggregation DatabaseEast AsianSub1616G=0.002T=0.998
The Genome Aggregation DatabaseEuropeSub18474G=0.146T=0.853
The Genome Aggregation DatabaseGlobalStudy-wide29938G=0.222T=0.777
The Genome Aggregation DatabaseOtherSub302G=0.100T=0.900
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.259T=0.740
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.142T=0.858
PMID Title Author Journal
21703634A meta-analysis of two genome-wide association studies identifies 3 new loci for alcohol dependence.Wang KSJ Psychiatr Res

P-Value

SNP ID p-value Traits Study
rs73806584.85E-05alcohol dependence21703634

eQTL of rs7380658 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 rs7380658 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 )
chr5177578833177578896E067-33138
chr5177579529177579619E067-32415
chr5177633799177634006E06721765
chr5177656761177656845E06744727
chr5177656884177656946E06744850
chr5177657023177657131E06744989
chr5177657264177657318E06745230
chr5177657405177657459E06745371
chr5177657660177657762E06745626
chr5177578395177578494E068-33540
chr5177578551177578723E068-33311
chr5177578833177578896E068-33138
chr5177579529177579619E068-32415
chr5177633799177634006E06821765
chr5177634057177634818E06822023
chr5177634826177634972E06822792
chr5177657660177657762E06845626
chr5177579529177579619E069-32415
chr5177633799177634006E06921765
chr5177634057177634818E06922023
chr5177656761177656845E06944727
chr5177656884177656946E06944850
chr5177657023177657131E06944989
chr5177657264177657318E06945230
chr5177657405177657459E06945371
chr5177657660177657762E06945626
chr5177578551177578723E070-33311
chr5177578833177578896E070-33138
chr5177634826177634972E07022792
chr5177635074177635315E07023040
chr5177637079177637188E07025045
chr5177657023177657131E07044989
chr5177657264177657318E07045230
chr5177657405177657459E07045371
chr5177657660177657762E07045626
chr5177576659177576847E071-35187
chr5177576911177576991E071-35043
chr5177577013177577087E071-34947
chr5177579529177579619E071-32415
chr5177633799177634006E07121765
chr5177634057177634818E07122023
chr5177640320177640394E07128286
chr5177640479177640559E07128445
chr5177656761177656845E07144727
chr5177656884177656946E07144850
chr5177657023177657131E07144989
chr5177657264177657318E07145230
chr5177657405177657459E07145371
chr5177657660177657762E07145626
chr5177579529177579619E072-32415
chr5177657023177657131E07244989
chr5177657264177657318E07245230
chr5177657405177657459E07245371
chr5177657660177657762E07245626
chr5177570584177570645E073-41389
chr5177570686177570797E073-41237
chr5177570931177571213E073-40821
chr5177578395177578494E073-33540
chr5177578551177578723E073-33311
chr5177578833177578896E073-33138
chr5177579529177579619E073-32415
chr5177633799177634006E07321765
chr5177634057177634818E07322023
chr5177634826177634972E07322792
chr5177635074177635315E07323040
chr5177635362177635454E07323328
chr5177635660177635854E07323626
chr5177657405177657459E07345371
chr5177657660177657762E07345626
chr5177578833177578896E074-33138
chr5177579529177579619E074-32415
chr5177581683177581747E074-30287
chr5177633799177634006E07421765
chr5177634057177634818E07422023
chr5177634826177634972E07422792
chr5177635074177635315E07423040
chr5177657023177657131E07444989
chr5177657264177657318E07445230
chr5177657405177657459E07445371
chr5177657660177657762E07445626
chr5177660594177660644E07448560
chr5177633799177634006E08121765
chr5177634057177634818E08122023
chr5177645989177646080E08133955
chr5177657023177657131E08144989
chr5177657264177657318E08145230
chr5177657405177657459E08145371
chr5177657660177657762E08145626
chr5177581683177581747E082-30287
chr5177634826177634972E08222792
chr5177635074177635315E08223040
chr5177657405177657459E08245371
chr5177657660177657762E08245626










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr5177580272177580431E067-31603
chr5177580579177581256E067-30778
chr5177581258177581342E067-30692
chr5177630843177632916E06718809
chr5177658763177660458E06746729
chr5177580272177580431E068-31603
chr5177580579177581256E068-30778
chr5177581258177581342E068-30692
chr5177630843177632916E06818809
chr5177658763177660458E06846729
chr5177580272177580431E069-31603
chr5177580579177581256E069-30778
chr5177581258177581342E069-30692
chr5177630843177632916E06918809
chr5177658763177660458E06946729
chr5177580272177580431E070-31603
chr5177580579177581256E070-30778
chr5177581258177581342E070-30692
chr5177630843177632916E07018809
chr5177658763177660458E07046729
chr5177580272177580431E071-31603
chr5177580579177581256E071-30778
chr5177581258177581342E071-30692
chr5177630843177632916E07118809
chr5177658763177660458E07146729
chr5177580272177580431E072-31603
chr5177580579177581256E072-30778
chr5177581258177581342E072-30692
chr5177630843177632916E07218809
chr5177658763177660458E07246729
chr5177580272177580431E073-31603
chr5177580579177581256E073-30778
chr5177581258177581342E073-30692
chr5177630843177632916E07318809
chr5177658763177660458E07346729
chr5177580272177580431E074-31603
chr5177580579177581256E074-30778
chr5177581258177581342E074-30692
chr5177630843177632916E07418809
chr5177658763177660458E07446729
chr5177580272177580431E081-31603
chr5177580579177581256E081-30778
chr5177580272177580431E082-31603
chr5177580579177581256E082-30778
chr5177581258177581342E082-30692
chr5177630843177632916E08218809
chr5177658763177660458E08246729