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GAL3ST4 - ENSG00000197093

galactose-3-O-sulfotransferase 4

Also known as: FLJ12116

Location: chr7:99,756,867-99,766,373 reverse strand

Gene Type: protein coding

More information
NCBI Gene
79690
HUGO
HGNC:24145
Ensembl
ENSG00000197093
VEGA
OTTHUMG00000154885
OMIM
608235
UniProtKB
Q96RP7

Genomic Context

The genome browser snapshot is fully interactive. Mouse over track elements for more information. Click and drag to move tracks. Click and drag on top positional guide to zoom to a sub-region.

To add tracks, use the provided link to switch to the full genome browser view.

Gene-based Trait Associations

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ADSP WES: Alzheimer's Disease ADSP

Results from gene-level rare and functional variant aggregation tests for association to AD supported by significane of p < 0.5 / #genes.

Individual score test statistics for rare, predicted functional, and loss of function variants colocated with the gene were aggregated to compute gene level p-values.

See NIAGADS Accession NG00065 for more information.

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Accession Population N SNPs p-value Sign. Level rho CMAF CMAC Covariates Variant Filter Caveats
NG00065 Meta 80 0.124 N/A 0 0.017 364.3 PCs and sequencing center VEP MOD-HIGH N/A
NG00065 European 76 0.142 N/A 0 0.015 303.0 PCs and sequencing center VEP MOD-HIGH N/A
NG00065 Caribbean Hispanic 1 0.295 N/A 0 0.010 8.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP HIGH
NG00065 Caribbean Hispanic 1 0.295 N/A 0 0.010 8.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) LOF
NG00065 Caribbean Hispanic 1 0.316 N/A 0 0.010 8.0 PCs and sequencing center VEP HIGH
NG00065 Caribbean Hispanic 1 0.316 N/A 0 0.010 8.0 PCs and sequencing center LOF
NG00065 Caribbean Hispanic 1 0.322 N/A 0 0.010 8.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP HIGH
NG00065 Caribbean Hispanic 1 0.322 N/A 0 0.010 8.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes LOF
NG00065 Meta 80 0.365 N/A 1 0.017 364.3 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 Caribbean Hispanic 12 0.403 N/A 1 0.078 61.3 PCs and sequencing center VEP MOD-HIGH N/A
NG00065 Caribbean Hispanic 12 0.463 N/A 1 0.078 61.3 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 European 4 0.464 N/A 0 2.9e-04 6.0 PCs and sequencing center LOF
NG00065 Meta 80 0.465 N/A 1 0.017 364.3 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 Caribbean Hispanic 12 0.471 N/A 1 0.078 61.3 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 Meta 8 0.526 N/A 0 8.0e-04 17.2 PCs and sequencing center VEP HIGH N/A
NG00065 European 7 0.531 N/A 0 4.4e-04 9.2 PCs and sequencing center VEP HIGH
NG00065 European 76 0.537 N/A 1 0.015 303.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP MOD-HIGH N/A
NG00065 Meta 8 0.579 N/A 0 8.0e-04 17.2 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP HIGH N/A
NG00065 European 76 0.656 N/A 1 0.015 303.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP MOD-HIGH N/A
NG00065 European 7 0.672 N/A 1 4.4e-04 9.2 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) VEP HIGH
NG00065 European 4 0.706 N/A 0 2.9e-04 6.0 PCs, sequencing center, sex, and age at AD onset or last-known dementia-free age (for controls) LOF
NG00065 Meta 8 0.709 N/A 0 8.0e-04 17.2 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP HIGH N/A
NG00065 European 7 0.771 N/A 1 4.4e-04 9.2 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes VEP HIGH
NG00065 European 4 0.906 N/A 0 2.9e-04 6.0 PCs, sequencing center, sex, age at AD onset or last-known dementia-free age (for controls), and APOE E2 and E4 genotypes LOF

Genetic Variation and Variant-based Trait Associations (GWAS)

Variants contained within the GAL3ST4 gene.

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The GAL3ST4 gene contains 809 variants records (corresponding to 751 unique genomic positions).

The following variants, contained within ±100kb of GAL3ST4, have been found to be associated with Alzheimer's disease in a GWAS study:

NIAGADS GWAS: Alzheimer's Disease

Variants contained within ±100kb of GAL3ST4 that have genome-wide significance in a NIAGADS Alzheimer's Disease GWAS summary statistics dataset; supported by a p-value < 5 x 10-8. For exome array studies, a cutoff of p-value < 1 x 10-3 was used.

Click on accession numbers to view a detailed report about the dataset or to request access to the data.

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Relative Position Variant ADSP? Allele p-Value Track Accession
in gene N/A 9.0e-81 ADSP Single-Variant Risk Association: meta analysis (Model 1) NG00065
in gene N/A 9.0e-81 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 1) NG00065
in gene N/A 9.0e-81 ADSP Single-Variant Risk Association: European (Model 1) NG00065
in gene N/A 1.1e-63 ADSP Single-Variant Risk Association: European (Model 2) NG00065
in gene N/A 1.1e-63 ADSP Single-Variant Risk Association: meta analysis (Model 2) NG00065
in gene N/A 1.1e-63 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 2) NG00065
upstream N/A 1.3e-38 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 1) NG00065
upstream N/A 1.3e-38 ADSP Single-Variant Risk Association: European (Model 1) NG00065
upstream N/A 1.3e-38 ADSP Single-Variant Risk Association: meta analysis (Model 1) NG00065
upstream N/A 2.2e-19 ADSP Single-Variant Risk Association: meta analysis (Model 2) NG00065
upstream N/A 2.2e-19 ADSP Single-Variant Risk Association: European (Model 2) NG00065
upstream N/A 2.2e-19 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 2) NG00065
upstream N/A 6.4e-15 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 1) NG00065
upstream N/A 6.4e-15 ADSP Single-Variant Risk Association: meta analysis (Model 1) NG00065
upstream N/A 6.4e-15 ADSP Single-Variant Risk Association: European (Model 1) NG00065
upstream N/A 5.8e-13 ADSP Single-Variant Risk Association: meta analysis (Model 2) NG00065
upstream N/A 5.8e-13 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 2) NG00065
upstream N/A 5.8e-13 ADSP Single-Variant Risk Association: European (Model 2) NG00065
in gene N/A 2.0e-10 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 1) NG00065
in gene N/A 2.0e-10 ADSP Single-Variant Risk Association: European (Model 1) NG00065
in gene N/A 2.0e-10 ADSP Single-Variant Risk Association: meta analysis (Model 1) NG00065
in gene N/A 5.1e-9 ADSP Single-Variant Risk Association: European (Model 2) NG00065
in gene N/A 5.1e-9 ADSP Single-Variant Risk Association: meta analysis (Model 2) NG00065
in gene N/A 5.1e-9 ADSP Single-Variant Risk Association: Caribbean Hispanic (Model 2) NG00065

NHGRI GWAS: Alzheimer's Disease

Variants contained within ±100kb of GAL3ST4 that are associated with Alzheimer's disease in the NHGRI GWAS Catalog.

The following variants, contained within ±100kb of GAL3ST4, have been associated with AD-relevant neuropathologies in a GWAS study:

NIAGADS GWAS: AD biomarkers and related neuropathologies

Variants contained within ±100kb of GAL3ST4 that have genome-wide significance in a NIAGADS GWAS summary statistics dataset; supported by a p-value < 5 x 10-8. For exome array studies, a cutoff of p-value < 1 x 10-3 was used.

Click on accession numbers to view a detailed report about the dataset or to request access to the data.

NHGRI GWAS: Other Traits (incl. related neuropathologies and AD biomarkers)

Variants contained within ±100kb of GAL3ST4 that are associated with a trait in the NHGRI GWAS Catalog.

Functional Genomics

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Explore all functional genomics annotations within the region of the GAL3ST4 gene (chr7:99756867-99766373)

Transcription Factor Binding Site Overlap in Gene Promoter Region (ENCODE ChIP-SEQ)

ChIP-Seq sites for transcription factor binding (from selected brain-relevant ENCODE tracks) within the promoter region of this gene. See methods for more information.

Functional Annotation

Gene Ontology

Functional annotations were obtained from UniProt-GOA gene association files.

Click on a term accession number to view term details at the Gene Ontology Consortium.

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Ontology GO Accession Term Evidence Code
BP GO:0007267 cell-cell signaling NAS
BP GO:0009247 glycolipid biosynthetic process IEA
BP GO:0009100 glycoprotein metabolic process NAS
BP GO:0009311 oligosaccharide metabolic process NAS
BP GO:0030166 proteoglycan biosynthetic process NAS
BP GO:0006790 sulfur compound metabolic process NAS
CC GO:0070062 extracellular exosome IDA
CC GO:0005794 Golgi apparatus IEA
CC GO:0032580 Golgi cisterna membrane IEA
CC GO:0016021 integral component of membrane NAS,IEA
CC GO:0016020 membrane IEA,IDA
MF GO:0050656 3'-phosphoadenosine 5'-phosphosulfate binding NAS
MF GO:0050694 galactose 3-O-sulfotransferase activity IDA
MF GO:0001733 galactosylceramide sulfotransferase activity IEA
MF GO:0050698 proteoglycan sulfotransferase activity NAS
MF GO:0016740 transferase activity IEA

KEGG Pathways

Click on a pathway accession number to view term details at KEGG.

Click on the number in the Find Similar column to get a list of genes annotated by the associated pathway.