rs10049135

Homo sapiens
A>G
LOC105377161 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
G=0151 (4540/29934,GnomAD)
G=0164 (4781/29118,TOPMED)
G=0231 (1157/5008,1000G)
G=0122 (472/3854,ALSPAC)
G=0116 (430/3708,TWINSUK)
chr3:72599829 (GRCh38.p7) (3p13)
ND
GWASdb2
1   publication(s)
See rs on genome
44 Enhancers around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.72599829A>G
GRCh37.p13 chr 3NC_000003.11:g.72648980A>G
GRCh38.p7 chr 3 fix patch HG126_PATCHNW_011332691.1:g.274738A>G

Gene: LOC105377161, uncharacterized LOC105377161(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LOC105377161 transcriptXR_940962.2:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322A=0.798G=0.202
1000GenomesAmericanSub694A=0.790G=0.210
1000GenomesEast AsianSub1008A=0.654G=0.346
1000GenomesEuropeSub1006A=0.869G=0.131
1000GenomesGlobalStudy-wide5008A=0.769G=0.231
1000GenomesSouth AsianSub978A=0.730G=0.270
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854A=0.878G=0.122
The Genome Aggregation DatabaseAfricanSub8718A=0.820G=0.180
The Genome Aggregation DatabaseAmericanSub838A=0.760G=0.240
The Genome Aggregation DatabaseEast AsianSub1610A=0.625G=0.375
The Genome Aggregation DatabaseEuropeSub18466A=0.886G=0.113
The Genome Aggregation DatabaseGlobalStudy-wide29934A=0.848G=0.151
The Genome Aggregation DatabaseOtherSub302A=0.760G=0.240
Trans-Omics for Precision MedicineGlobalStudy-wide29118A=0.835G=0.164
UK 10K study - TwinsTWIN COHORTStudy-wide3708A=0.884G=0.116
PMID Title Author Journal
17158188Novel genes identified in a high-density genome wide association study for nicotine dependence.Bierut LJHum Mol Genet

P-Value

SNP ID p-value Traits Study
rs100491354.65E-05nicotine dependence17158188

eQTL of rs10049135 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 rs10049135 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 )
chr37265363072653911E0674650
chr37264677872647281E068-1699
chr37265303472653199E0684054
chr37265349772653579E0684517
chr37265363072653911E0684650
chr37260983072609908E069-39072
chr37261006772610622E069-38358
chr37264677872647281E069-1699
chr37265010572650229E0691125
chr37265032772650569E0691347
chr37265303472653199E0694054
chr37265349772653579E0694517
chr37265363072653911E0694650
chr37265548872655855E0696508
chr37266688372667081E06917903
chr37263990972640210E070-8770
chr37264028472640370E070-8610
chr37264040772640539E070-8441
chr37264056272641093E070-7887
chr37264112972641666E070-7314
chr37264677872647281E070-1699
chr37265010572650229E0701125
chr37265032772650569E0701347
chr37261006772610622E071-38358
chr37265010572650229E0711125
chr37265032772650569E0711347
chr37265548872655855E0716508
chr37264677872647281E072-1699
chr37265010572650229E0721125
chr37265032772650569E0721347
chr37265303472653199E0724054
chr37265548872655855E0726508
chr37264677872647281E074-1699
chr37265010572650229E0741125
chr37265032772650569E0741347
chr37265548872655855E0746508
chr37266652872666825E07417548
chr37264677872647281E081-1699
chr37265010572650229E0811125
chr37265032772650569E0811347
chr37265363072653911E0814650
chr37268776772687830E08138787
chr37264040772640539E082-8441
chr37264056272641093E082-7887