rs9849299

Homo sapiens
G>A / G>T
LINC01324 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0138 (4156/29930,GnomAD)
A=0178 (5183/29118,TOPMED)
A=0150 (752/5008,1000G)
A=0104 (400/3854,ALSPAC)
A=0107 (395/3708,TWINSUK)
chr3:164828470 (GRCh38.p7) (3q26.1)
AD
GWASdb2
1   publication(s)
See rs on genome
0 Enhancer around
0 Promoter around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 3NC_000003.12:g.164828470G>A
GRCh38.p7 chr 3NC_000003.12:g.164828470G>T
GRCh37.p13 chr 3NC_000003.11:g.164546258G>A
GRCh37.p13 chr 3NC_000003.11:g.164546258G>T

Gene: LINC01324, long intergenic non-protein coding RNA 1324(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LINC01324 transcriptNR_126405.1:n.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.715A=0.285
1000GenomesAmericanSub694G=0.920A=0.080
1000GenomesEast AsianSub1008G=0.905A=0.095
1000GenomesEuropeSub1006G=0.907A=0.093
1000GenomesGlobalStudy-wide5008G=0.850A=0.150
1000GenomesSouth AsianSub978G=0.870A=0.130
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.896A=0.104
The Genome Aggregation DatabaseAfricanSub8708G=0.737A=0.262
The Genome Aggregation DatabaseAmericanSub838G=0.940A=0.06,
The Genome Aggregation DatabaseEast AsianSub1616G=0.897A=0.103
The Genome Aggregation DatabaseEuropeSub18466G=0.911A=0.088
The Genome Aggregation DatabaseGlobalStudy-wide29930G=0.860A=0.138
The Genome Aggregation DatabaseOtherSub302G=0.910A=0.09,
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.822A=0.178
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.893A=0.107
PMID Title Author Journal
24962325Genome-wide survival analysis of age at onset of alcohol dependence in extended high-risk COGA families.Kapoor MDrug Alcohol Depend

P-Value

SNP ID p-value Traits Study
rs98492996.06E-08alcohol dependence (age at onset)24962325

eQTL of rs9849299 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 rs9849299 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.