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Aliases for SLC33A1 Gene

Aliases for SLC33A1 Gene

  • Solute Carrier Family 33 Member 1 2 3 4 5
  • Solute Carrier Family 33 (Acetyl-CoA Transporter), Member 1 2 3
  • ACATN 3 4
  • AT-1 3 4
  • AT1 3 4
  • Spastic Paraplegia 42 (Autosomal Dominant) 2
  • Acetyl-Coenzyme A Transporter 1 3
  • Acetyl-Coenzyme A Transporter 2
  • Acetyl-CoA Transporter 1 4
  • CCHLND 3
  • SPG42 3

External Ids for SLC33A1 Gene

Previous HGNC Symbols for SLC33A1 Gene

  • SPG42

Previous GeneCards Identifiers for SLC33A1 Gene

  • GC03M156390
  • GC03M156825
  • GC03M156865
  • GC03M156866
  • GC03M157027
  • GC03M155544
  • GC03M152938

Summaries for SLC33A1 Gene

Entrez Gene Summary for SLC33A1 Gene

  • The protein encoded by this gene is required for the formation of O-acetylated (Ac) gangliosides. The encoded protein is predicted to contain 6 to 10 transmembrane domains, and a leucine zipper motif in transmembrane domain III. Defects in this gene have been reported to cause spastic paraplegia autosomal dominant type 42 (SPG42) in one Chinese family, but not in similar patients of European descent. Two transcript variants encoding the same protein have been found for this gene. [provided by RefSeq, Jul 2010]

GeneCards Summary for SLC33A1 Gene

SLC33A1 (Solute Carrier Family 33 Member 1) is a Protein Coding gene. Diseases associated with SLC33A1 include Spastic Paraplegia 42, Autosomal Dominant and Congenital Cataracts, Hearing Loss, And Neurodegeneration. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and Glycosphingolipid biosynthesis - ganglio series. Gene Ontology (GO) annotations related to this gene include solute:proton symporter activity and acetyl-CoA transmembrane transporter activity. An important paralog of this gene is ENSG00000284952.

UniProtKB/Swiss-Prot for SLC33A1 Gene

  • Probable acetyl-CoA transporter necessary for O-acetylation of gangliosides (PubMed:9096318). Negatively regulates BMP signaling (PubMed:25402622).

Additional gene information for SLC33A1 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLC33A1 Gene

Genomics for SLC33A1 Gene

GeneHancer (GH) Regulatory Elements for SLC33A1 Gene

Promoters and enhancers for SLC33A1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J155851 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 664.7 +0.9 850 4 CLOCK MLX ZFP64 FEZF1 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 GMPS SLC33A1 ENSG00000284952 LOC105374174 C3orf33
GH03J155824 Promoter 0.5 EPDnew 650.3 +29.9 29946 0.1 SLC33A1 GMPS PLCH1 ENSG00000214919 C3orf33 ENSG00000284952
GH03J155743 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE 6 +109.0 109004 3.6 PKNOX1 FOXA2 ARID4B SIN3A ZNF48 ETS1 GLIS2 MXD4 REST SREBF1 ENSG00000214919 PLCH1 C3orf33 SLC33A1 RPL7AP24
GH03J155888 Enhancer 1.1 Ensembl ENCODE 12.1 -35.7 -35701 2.7 PKNOX1 ATF1 FOXA2 ARNT NCOA2 TCF12 ZNF766 GATA2 FOS ATF7 SLC33A1 ENSG00000214919 PLCH1 GMPS C3orf33 SETP14
GH03J155862 Enhancer 1.1 Ensembl ENCODE 10.9 -8.3 -8293 1.3 HDGF HDAC1 PKNOX1 TAF9B ZBTB40 POLR2B ZNF766 EGR1 SCRT2 FOS GMPS SLC33A1 PLCH1 LOC105374174
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLC33A1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLC33A1 gene promoter:
  • C/EBPalpha
  • p53
  • E2F
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5

Genomic Locations for SLC33A1 Gene

Genomic Locations for SLC33A1 Gene
33,436 bases
Minus strand
33,436 bases
Minus strand

Genomic View for SLC33A1 Gene

Genes around SLC33A1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLC33A1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLC33A1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC33A1 Gene

Proteins for SLC33A1 Gene

  • Protein details for SLC33A1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Acetyl-coenzyme A transporter 1
    Protein Accession:
    Secondary Accessions:
    • B2R5Q2
    • D3DNK4

    Protein attributes for SLC33A1 Gene

    549 amino acids
    Molecular mass:
    60909 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SLC33A1 Gene

Post-translational modifications for SLC33A1 Gene

  • Glycosylation at posLast=103103
  • Ubiquitination at posLast=135135
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SLC33A1 Gene

Domains & Families for SLC33A1 Gene

Gene Families for SLC33A1 Gene

Human Protein Atlas (HPA):
  • Disease related genes
  • Potential drug targets
  • Predicted membrane proteins
  • Transporters

Protein Domains for SLC33A1 Gene

Suggested Antigen Peptide Sequences for SLC33A1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the SLC33A transporter family.
  • Belongs to the SLC33A transporter family.
genes like me logo Genes that share domains with SLC33A1: view

Function for SLC33A1 Gene

Molecular function for SLC33A1 Gene

UniProtKB/Swiss-Prot Function:
Probable acetyl-CoA transporter necessary for O-acetylation of gangliosides (PubMed:9096318). Negatively regulates BMP signaling (PubMed:25402622).

Phenotypes From GWAS Catalog for SLC33A1 Gene

Gene Ontology (GO) - Molecular Function for SLC33A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008521 acetyl-CoA transmembrane transporter activity TAS,IEA --
GO:0015295 solute:proton symporter activity IBA --
genes like me logo Genes that share ontologies with SLC33A1: view
genes like me logo Genes that share phenotypes with SLC33A1: view

Human Phenotype Ontology for SLC33A1 Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for SLC33A1 Gene

MGI Knock Outs for SLC33A1:

Animal Model Products

miRNA for SLC33A1 Gene

miRTarBase miRNAs that target SLC33A1

Clone Products

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targets and HOMER Transcription for SLC33A1 Gene

Localization for SLC33A1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC33A1 Gene

Endoplasmic reticulum membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SLC33A1 gene
Compartment Confidence
plasma membrane 5
endoplasmic reticulum 5
golgi apparatus 5
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SLC33A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane TAS,IEA --
GO:0005887 integral component of plasma membrane TAS 9096318
GO:0016020 membrane IEA,HDA 19946888
genes like me logo Genes that share ontologies with SLC33A1: view

Pathways & Interactions for SLC33A1 Gene

genes like me logo Genes that share pathways with SLC33A1: view

Gene Ontology (GO) - Biological Process for SLC33A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0015876 acetyl-CoA transport IEA --
GO:0030509 BMP signaling pathway IDA 25402622
GO:0055085 transmembrane transport TAS --
GO:0060395 SMAD protein signal transduction IDA 25402622
GO:1902600 proton transmembrane transport IEA --
genes like me logo Genes that share ontologies with SLC33A1: view

No data available for SIGNOR curated interactions for SLC33A1 Gene

Drugs & Compounds for SLC33A1 Gene

(1) Drugs for SLC33A1 Gene - From: DGIdb and IUPHAR

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
[<sup>14</sup>C]acetylCoA Pharma 0

(1) Additional Compounds for SLC33A1 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • AcCoA
  • Acetyl coenzyme A
  • S-Acetyl-CoA
  • S-Acetyl-coenzyme A
  • Ac-CoA
genes like me logo Genes that share compounds with SLC33A1: view

Transcripts for SLC33A1 Gene

mRNA/cDNA for SLC33A1 Gene

Unigene Clusters for SLC33A1 Gene

Solute carrier family 33 (acetyl-CoA transporter), member 1:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC33A1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d ^ 8
SP1: -
SP3: -
SP4: - -
SP5: - -

Relevant External Links for SLC33A1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SLC33A1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLC33A1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SLC33A1 Gene

This gene is overexpressed in Nasal epithelium (45.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SLC33A1 Gene

Protein tissue co-expression partners for SLC33A1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SLC33A1 Gene:


SOURCE GeneReport for Unigene cluster for SLC33A1 Gene:


mRNA Expression by UniProt/SwissProt for SLC33A1 Gene:

Tissue specificity: Ubiquitous. Detected in heart, brain, placenta, lung, liver, skeletal muscle, kidney and pancreas. With strongest signals in pancreas.

Evidence on tissue expression from TISSUES for SLC33A1 Gene

  • Kidney(4.2)
  • Nervous system(4.1)

Phenotype-based relationships between genes and organs from Gene ORGANizer for SLC33A1 Gene

Germ Layers:
  • ectoderm
  • mesoderm
  • nervous
  • skeletal muscle
  • skeleton
Head and neck:
  • brain
  • cerebellum
  • ear
  • eye
  • head
  • foot
  • lower limb
  • peripheral nerve
  • peripheral nervous system
  • spinal cord
genes like me logo Genes that share expression patterns with SLC33A1: view

No data available for mRNA differential expression in normal tissues for SLC33A1 Gene

Orthologs for SLC33A1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SLC33A1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SLC33A1 34 33
  • 99.64 (n)
(Bos Taurus)
Mammalia SLC33A1 34 33
  • 91.38 (n)
(Ornithorhynchus anatinus)
Mammalia SLC33A1 34
  • 91 (a)
(Rattus norvegicus)
Mammalia Slc33a1 33
  • 87.92 (n)
(Mus musculus)
Mammalia Slc33a1 16 34 33
  • 87.8 (n)
(Monodelphis domestica)
Mammalia SLC33A1 34
  • 87 (a)
(Canis familiaris)
Mammalia SLC33A1 34 33
  • 85.79 (n)
(Gallus gallus)
Aves SLC33A1 34 33
  • 73.88 (n)
(Anolis carolinensis)
Reptilia SLC33A1 34
  • 80 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia slc33a1 33
  • 69.49 (n)
Str.8705 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.30949 33
(Danio rerio)
Actinopterygii slc33a1 34 33
  • 66.67 (n)
zgc63693 33
fruit fly
(Drosophila melanogaster)
Insecta CG9706 34 33
  • 54.31 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006943 33
  • 54.09 (n)
(Caenorhabditis elegans)
Secernentea T26C5.3 34 33
  • 55.77 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F09581g 33
  • 47.49 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes YBR220C 33
  • 45.05 (n)
-- 34
  • 31 (a)
-- 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.771 34
  • 55 (a)
Cin.4830 33
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPBC21B10.09 33
  • 46.26 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU09101 33
  • 46.12 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4830 33
Species where no ortholog for SLC33A1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SLC33A1 Gene

Gene Tree for SLC33A1 (if available)
Gene Tree for SLC33A1 (if available)
Evolutionary constrained regions (ECRs) for SLC33A1: view image

Paralogs for SLC33A1 Gene

Paralogs for SLC33A1 Gene Pseudogenes for SLC33A1 Gene

genes like me logo Genes that share paralogs with SLC33A1: view

Variants for SLC33A1 Gene

Sequence variations from dbSNP and Humsavar for SLC33A1 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1011163387 uncertain-significance, Spastic Paraplegia, Dominant 155,842,491(-) A/G coding_sequence_variant, intron_variant, missense_variant, non_coding_transcript_variant
rs10513483 benign, Spastic Paraplegia, Dominant 155,826,591(-) T/C/G 3_prime_UTR_variant, non_coding_transcript_variant
rs1131925 benign, Spastic Paraplegia, Dominant 155,854,340(-) C/T 5_prime_UTR_variant, non_coding_transcript_variant
rs121909484 pathogenic, Spastic paraplegia 42, autosomal dominant, Spastic paraplegia 42, autosomal dominant (SPG42) [MIM:612539] 155,853,659(-) A/C 5_prime_UTR_variant, coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs139894444 likely-benign, Spastic Paraplegia, Dominant 155,828,041(-) T/ 3_prime_UTR_variant, intron_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SLC33A1 Gene

Variant ID Type Subtype PubMed ID
esv3598283 CNV loss 21293372
nsv979891 CNV duplication 23825009

Variation tolerance for SLC33A1 Gene

Residual Variation Intolerance Score: 28.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.52; 77.70% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLC33A1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLC33A1 Gene

Disorders for SLC33A1 Gene

MalaCards: The human disease database

(8) MalaCards diseases for SLC33A1 Gene - From: HGMD, OMIM, ClinVar, GTR, Orphanet, Swiss-Prot, DISEASES, Novoseek, and GeneCards

- elite association - COSMIC cancer census association via MalaCards


  • Spastic paraplegia 42, autosomal dominant (SPG42) [MIM:612539]: A form of spastic paraplegia, a neurodegenerative disorder characterized by a slow, gradual, progressive weakness and spasticity of the lower limbs. Rate of progression and the severity of symptoms are quite variable. Initial symptoms may include difficulty with balance, weakness and stiffness in the legs, muscle spasms, and dragging the toes when walking. In some forms of the disorder, bladder symptoms (such as incontinence) may appear, or the weakness and stiffness may spread to other parts of the body. {ECO:0000269 PubMed:19061983, ECO:0000269 PubMed:25402622}. Note=The disease is caused by mutations affecting the gene represented in this entry.
  • Congenital cataracts, hearing loss, and neurodegeneration (CCHLND) [MIM:614482]: An autosomal recessive disorder characterized by congenital cataracts, severe psychomotor retardation, and hearing loss associated with decreased serum ceruloplasmin and copper. Brain MRI shows cerebral and cerebellar atrophy and hypomyelination. {ECO:0000269 PubMed:22243965}. Note=The disease is caused by mutations affecting the gene represented in this entry.

Additional Disease Information for SLC33A1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with SLC33A1: view

No data available for Genatlas for SLC33A1 Gene

Publications for SLC33A1 Gene

  1. A missense mutation in SLC33A1, which encodes the acetyl-CoA transporter, causes autosomal-dominant spastic paraplegia (SPG42). (PMID: 19061983) Lin P … Gong Y (American journal of human genetics 2008) 2 3 4 22 58
  2. Expression cloning and characterization of a cDNA encoding a novel membrane protein required for the formation of O-acetylated ganglioside: a putative acetyl-CoA transporter. (PMID: 9096318) Kanamori A … Hirabayashi Y (Proceedings of the National Academy of Sciences of the United States of America 1997) 2 3 4 22 58
  3. Identification and functional analysis of a SLC33A1: c.339T>G (p.Ser113Arg) variant in the original SPG42 family. (PMID: 25402622) Mao F … Gong Y (Human mutation 2015) 3 4 58
  4. Mutations in SLC33A1 cause a lethal autosomal-recessive disorder with congenital cataracts, hearing loss, and low serum copper and ceruloplasmin. (PMID: 22243965) Huppke P … Gärtner J (American journal of human genetics 2012) 3 4 58
  5. A total of 220 patients with autosomal dominant spastic paraplegia do not display mutations in the SLC33A1 gene (SPG42). (PMID: 20461110) Schlipf NA … Schöls L (European journal of human genetics : EJHG 2010) 3 44 58

Products for SLC33A1 Gene

Sources for SLC33A1 Gene

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