rs13154710

Homo sapiens
A>G
SKIV2L2 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0055 (1641/29700,GnomAD)
G=0069 (2026/29118,TOPMED)
G=0089 (445/5008,1000G)
G=0018 (71/3854,ALSPAC)
G=0016 (61/3708,TWINSUK)
chr5:55315905 (GRCh38.p7) (5q11.2)
ND
GWASdb2
1   publication(s)
See rs on genome
36 Enhancers around
10 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 5NC_000005.10:g.55315905A>G
GRCh37.p13 chr 5NC_000005.9:g.54611733A>G

Gene: SKIV2L2, Ski2 like RNA helicase 2(plus strand)

Molecule type Change Amino acid[Codon] SO Term
MTREX transcriptNM_015360.4:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.862G=0.138
1000GenomesAmericanSub694A=0.860G=0.140
1000GenomesEast AsianSub1008A=0.943G=0.057
1000GenomesEuropeSub1006A=0.987G=0.013
1000GenomesGlobalStudy-wide5008A=0.911G=0.089
1000GenomesSouth AsianSub978A=0.900G=0.100
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.982G=0.018
The Genome Aggregation DatabaseAfricanSub8682A=0.877G=0.123
The Genome Aggregation DatabaseAmericanSub816A=0.850G=0.150
The Genome Aggregation DatabaseEast AsianSub1618A=0.938G=0.062
The Genome Aggregation DatabaseEuropeSub18282A=0.980G=0.019
The Genome Aggregation DatabaseGlobalStudy-wide29700A=0.944G=0.055
The Genome Aggregation DatabaseOtherSub302A=1.000G=0.000
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.930G=0.069
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.984G=0.016
PMID Title Author Journal
20158304A genomewide association study of nicotine and alcohol dependence in Australian and Dutch populations.Lind PATwin Res Hum Genet

P-Value

SNP ID p-value Traits Study
rs131547102.53E-05alcohol and nictotine co-dependence20158304

eQTL of rs13154710 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 rs13154710 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 )
chr55459902354599564E067-12169
chr55460002954600105E067-11628
chr55460043354600523E067-11210
chr55460057754600625E067-11108
chr55460091654600956E067-10777
chr55460131854601392E067-10341
chr55463416154634277E06722428
chr55463465954634775E06722926
chr55463481554634933E06723082
chr55460131854601392E068-10341
chr55460995754610001E068-1732
chr55461016954610257E068-1476
chr55461060354610671E068-1062
chr55461072954610868E068-865
chr55464032954640522E06828596
chr55460131854601392E069-10341
chr55460729754607383E069-4350
chr55463416154634277E06922428
chr55460131854601392E070-10341
chr55460002954600105E071-11628
chr55460131854601392E071-10341
chr55460729754607383E071-4350
chr55462449054624733E07112757
chr55460043354600523E072-11210
chr55460057754600625E072-11108
chr55460091654600956E072-10777
chr55460729754607383E072-4350
chr55460057754600625E073-11108
chr55460091654600956E073-10777
chr55460131854601392E073-10341
chr55460002954600105E074-11628
chr55460131854601392E074-10341
chr55460995754610001E074-1732
chr55461016954610257E074-1476
chr55460131854601392E081-10341
chr55460131854601392E082-10341










Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr55460254154604556E067-7177
chr55460254154604556E068-7177
chr55460254154604556E069-7177
chr55460254154604556E070-7177
chr55460254154604556E071-7177
chr55460254154604556E072-7177
chr55460254154604556E073-7177
chr55460254154604556E074-7177
chr55460254154604556E081-7177
chr55460254154604556E082-7177