rs9567638

Homo sapiens
T>C
LCP1 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
C=0067 (1957/29116,TOPMED)
C=0022 (86/3854,ALSPAC)
C=0022 (82/3708,TWINSUK)
chr13:46180599 (GRCh38.p7) (13q14.13)
AD
GWASdb2
2   publication(s)
See rs on genome
47 Enhancers around
12 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 13NC_000013.11:g.46180599T>C
GRCh37.p13 chr 13NC_000013.10:g.46754734T>C

Gene: LCP1, lymphocyte cytosolic protein 1(minus strand)

Molecule type Change Amino acid[Codon] SO Term
LCP1 transcriptNM_002298.4:c.N/AIntron Variant
LCP1 transcript variant X1XM_005266374.1:c.N/AGenic Upstream Transcript Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854T=0.978C=0.022
Trans-Omics for Precision MedicineGlobalStudy-wide29116T=0.932C=0.067
UK 10K study - TwinsTWIN COHORTStudy-wide3708T=0.978C=0.022
PMID Title Author Journal
20201924Genome-wide association study of alcohol dependence implicates a region on chromosome 11.Edenberg HJAlcohol Clin Exp Res
26264041Association of SNPs in LCP1 and CTIF with hearing in 11 year old children: findings from the Avon Longitudinal Study of Parents and Children (ALSPAC) birth cohort and the G-EAR consortium.Harrison SBMC Med Genomics

P-Value

SNP ID p-value Traits Study
rs95676380.000193alcohol dependence20201924

eQTL of rs9567638 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 rs9567638 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 )
chr134678736046787427E06732626
chr134678749446787803E06732760
chr134671680346717336E068-37398
chr134671738046717536E068-37198
chr134671765846717819E068-36915
chr134671738046717536E069-37198
chr134673063046730684E069-24050
chr134673073446730914E069-23820
chr134671629346716423E070-38311
chr134671664846716698E070-38036
chr134671680346717336E070-37398
chr134671884546718931E070-35803
chr134671920446719254E070-35480
chr134671938346719437E070-35297
chr134676365546763727E0708921
chr134676411746764227E0709383
chr134676447346764523E0709739
chr134676458546764635E0709851
chr134676476446764804E07010030
chr134671738046717536E071-37198
chr134671765846717819E071-36915
chr134678198146782242E07127247
chr134678244946782489E07127715
chr134678249846782561E07127764
chr134671664846716698E072-38036
chr134671680346717336E072-37398
chr134671738046717536E072-37198
chr134671765846717819E072-36915
chr134671680346717336E074-37398
chr134671738046717536E074-37198
chr134671765846717819E074-36915
chr134672111946721352E074-33382
chr134672998246730046E074-24688
chr134678162146781805E07426887
chr134678187746781972E07427143
chr134678198146782242E07427247
chr134678244946782489E07427715
chr134678249846782561E07427764
chr134678261346782716E07427879
chr134671629346716423E081-38311
chr134671664846716698E081-38036
chr134671680346717336E081-37398
chr134671738046717536E081-37198
chr134671765846717819E081-36915
chr134671738046717536E082-37198
chr134671920446719254E082-35480
chr134671938346719437E082-35297









Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr134678518246786567E06730448
chr134675187246752314E068-2420
chr134678518246786567E06830448
chr134678518246786567E06930448
chr134678518246786567E07030448
chr134675426246755796E0710
chr134678518246786567E07130448
chr134678518246786567E07230448
chr134678518246786567E07330448
chr134678518246786567E07430448
chr134678518246786567E08130448
chr134678518246786567E08230448