rs7654446

Homo sapiens
G>A / G>C
CRMP1 : Intron Variant
Check p-value
SNV (Single Nucleotide Variation)
A=0407 (12189/29908,GnomAD)
A=0443 (12910/29118,TOPMED)
A=0462 (2312/5008,1000G)
A=0308 (1188/3854,ALSPAC)
A=0312 (1156/3708,TWINSUK)
chr4:5837110 (GRCh38.p7) (4p16.2)
AD
GWASdb2
1   publication(s)
See rs on genome
4 Enhancers around
8 Promoters around

Genomic Coordinates

Sequence Name Change(s)
GRCh38.p7 chr 4NC_000004.12:g.5837110G>A
GRCh38.p7 chr 4NC_000004.12:g.5837110G>C
GRCh37.p13 chr 4NC_000004.11:g.5838837G>A
GRCh37.p13 chr 4NC_000004.11:g.5838837G>C

Gene: CRMP1, collapsin response mediator protein 1(minus strand)

Molecule type Change Amino acid[Codon] SO Term
CRMP1 transcript variant 1NM_001014809.2:c.N/AIntron Variant
CRMP1 transcript variant 3NM_001288661.1:c.N/AIntron Variant
CRMP1 transcript variant 4NM_001288662.1:c.N/AIntron Variant
CRMP1 transcript variant 2NM_001313.4:c.N/AIntron Variant

Population Frequency

Study Population Group Sample # Ref Allele Alt Allele
1000GenomesAfricanSub1322G=0.368A=0.632
1000GenomesAmericanSub694G=0.690A=0.310
1000GenomesEast AsianSub1008G=0.425A=0.575
1000GenomesEuropeSub1006G=0.710A=0.290
1000GenomesGlobalStudy-wide5008G=0.538A=0.462
1000GenomesSouth AsianSub978G=0.600A=0.400
The Avon Longitudinal Study of Parents and ChildrenPARENT AND CHILD COHORTStudy-wide3854G=0.692A=0.308
The Genome Aggregation DatabaseAfricanSub8700G=0.441C=0.000
The Genome Aggregation DatabaseAmericanSub838G=0.690C=0.00,
The Genome Aggregation DatabaseEast AsianSub1618G=0.483C=0.000
The Genome Aggregation DatabaseEuropeSub18452G=0.667C=0.000
The Genome Aggregation DatabaseGlobalStudy-wide29908G=0.592C=0.000
The Genome Aggregation DatabaseOtherSub300G=0.680C=0.00,
Trans-Omics for Precision MedicineGlobalStudy-wide29118G=0.556A=0.443
UK 10K study - TwinsTWIN COHORTStudy-wide3708G=0.688A=0.312
PMID Title Author Journal
21314694Genomewide association analysis of symptoms of alcohol dependence in the molecular genetics of schizophrenia (MGS2) control sample.Kendler KSAlcohol Clin Exp Res

P-Value

SNP ID p-value Traits Study
rs76544460.000489alcohol dependence21314694

eQTL of rs7654446 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 rs7654446 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 )
chr4102706233102706358E07213629
chr4102706586102706646E07213982
chr4102706233102706358E07413629
chr4102706586102706646E07413982


Promoter Annotation (GRCh37.p13)

Chromosome Start End Region Distance(-/+:Up/Downstream)
chr4102711600102712646E06718996
chr4102711600102712646E06818996
chr4102711600102712646E06918996
chr4102711600102712646E07018996
chr4102711600102712646E07218996
chr4102711600102712646E07318996
chr4102711600102712646E07418996
chr4102711600102712646E08218996