Seroatlas · Human Serome Atlas

SLC52A3

Solute carrier family 52, riboflavin transporter, member 3

Also known as: bA371L19.1, C20orf54, hRFT2, RFVT3, S52A3_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
Q9NQ40
Gene
SLC52A3
Ensembl
ENSG00000101276
Chromosome
20
Canonical length
469 aa
Protein class
Disease related genes, Human disease related genes, Metabolic proteins, Plasma proteins, Potential drug targets, Predicted membrane proteins, Transporters

OverviewNCBI Gene

This gene encodes a riboflavin transporter protein that is strongly expressed in the intestine and likely plays a role in intestinal absorption of riboflavin. The protein is predicted to have eleven transmembrane domains and a cell surface localization signal in the C-terminus. Mutations at this locus have been associated with Brown-Vialetto-Van Laere syndrome and Fazio-Londe disease. [provided by RefSeq, Mar 2012]

Canonical amino-acid sequenceUniProt

469 residues, UniProt reviewed canonical sequence.

>Q9NQ40|SLC52A3
     1  MAFLMHLLVC VFGMGSWVTI NGLWVELPLL VMELPEGWYL PSYLTVVIQL ANIGPLLVTL
    61  LHHFRPSCLS EVPIIFTLLG VGTVTCIIFA FLWNMTSWVL DGHHSIAFLV LTFFLALVDC
   121  TSSVTFLPFM SRLPTYYLTT FFVGEGLSGL LPALVALAQG SGLTTCVNVT EISDSVPSPV
   181  PTRETDIAQG VPRALVSALP GMEAPLSHLE SRYLPAHFSP LVFFLLLSIM MACCLVAFFV
   241  LQRQPRCWEA SVEDLLNDQV TLHSIRPREE NDLGPAGTVD SSQGQGYLEE KAAPCCPAHL
   301  AFIYTLVAFV NALTNGMLPS VQTYSCLSYG PVAYHLAATL SIVANPLASL VSMFLPNRSL
   361  LFLGVLSVLG TCFGGYNMAM AVMSPCPLLQ GHWGGEVLIV ASWVLFSGCL SYVKVMLGVV
   421  LRDLSRSALL WCGAAVQLGS LLGALLMFPL VNVLRLFSSA DFCNLHCPA

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against SLC52A3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Cell surface
Secreted
No
Transmembrane segments
11
Mean surface accessibility (rSASA)
0.31
Highest tissue expression
47 nTPM

Expression across tissuesHPA

Tissue

  • testis: 47 nTPM
  • small intestine: 18 nTPM
  • duodenum: 14 nTPM
  • kidney: 12 nTPM
  • colon: 11 nTPM
  • prostate: 8.6 nTPM

Single-cell type

  • enterocytes: 142 nCPM
  • syncytiotrophoblasts: 80 nCPM
  • cytotrophoblasts: 49 nCPM
  • sertoli cells: 43 nCPM
  • endometrial luminal cells: 41 nCPM
  • urothelial cells: 35 nCPM

Immune cell

  • basophil: 2 nTPM
  • neutrophil: 0.7 nTPM
  • NK-cell: 0.5 nTPM
  • naive B-cell: 0.4 nTPM
  • eosinophil: 0.3 nTPM
  • classical monocyte: 0.2 nTPM

Brain region

  • thalamus: 17 nTPM
  • pons: 16 nTPM
  • medulla oblongata: 16 nTPM
  • hypothalamus: 14 nTPM
  • amygdala: 14 nTPM
  • midbrain: 11 nTPM

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about SLC52A3.

Disease | AllUniProt

Conditions SLC52A3 is implicated in, by any mechanism.

Disease | GeneticClinVar

32 pathogenic / likely-pathogenic of 496 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
0.8
gnomAD pLI
0.02
gnomAD missense Z
1.25
DepMap mean gene effect
0.13
DepMap dependency class
none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Molecular functions

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads SLC52A3 as an antibody target. Whether an autoantibody or antibody against SLC52A3 could matter depends on whether native SLC52A3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

SLC52A3 is annotated at the cell surface, where native SLC52A3 is exposed to circulating antibodies and is a prime autoantibody target that could block, deplete, or overstimulate it.

Annotation status

The present source text does not explicitly label SLC52A3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/SLC52A3. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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