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Aliases for SLC30A3 Gene

Aliases for SLC30A3 Gene

  • Solute Carrier Family 30 Member 3 2 3 4 5
  • Solute Carrier Family 30 (Zinc Transporter), Member 3 2 3
  • ZnT-3 3 4
  • ZNT3 3 4
  • Zinc Transporter ZnT-3 3
  • Zinc Transporter 3 3

External Ids for SLC30A3 Gene

Previous HGNC Symbols for SLC30A3 Gene

  • ZNT3

Previous GeneCards Identifiers for SLC30A3 Gene

  • GC02M027398
  • GC02M027570
  • GC02M027452
  • GC02M027454
  • GC02M027388
  • GC02M027330
  • GC02M027476

Summaries for SLC30A3 Gene

GeneCards Summary for SLC30A3 Gene

SLC30A3 (Solute Carrier Family 30 Member 3) is a Protein Coding gene. Among its related pathways are Metal ion SLC transporters and Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds. Gene Ontology (GO) annotations related to this gene include cation transmembrane transporter activity and zinc-transporting ATPase activity. An important paralog of this gene is SLC30A2.

UniProtKB/Swiss-Prot for SLC30A3 Gene

  • Involved in accumulation of zinc in synaptic vesicles.

Additional gene information for SLC30A3 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLC30A3 Gene

Genomics for SLC30A3 Gene

GeneHancer (GH) Regulatory Elements for SLC30A3 Gene

Promoters and enhancers for SLC30A3 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
GH02J027263 Promoter 1.5 EPDnew Ensembl 650.4 +12.7 12716 0.2 CTCF SUZ12 ZNF335 CCNT2 E2F1 ZFHX2 GLIS2 POLR2A PATZ1 EZH2 SLC30A3 UCN MPV17 CAD ATRAID SLC5A6 GTF3C2-AS1 TCF23 GTF3C2 PRR30
GH02J027275 Promoter 0.5 EPDnew 650.7 +0.4 399 0.1 SLC30A3 DNAJC5G CAD
GH02J027320 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.9 -46.9 -46861 4.2 MLX YBX1 DMAP1 YY1 SLC30A9 E2F8 ZNF143 SP3 NFYC SSRP1 MPV17 PIR47141 ATRAID AGBL5 DNAJC5G SLC30A3 SNX17 ZNF513 PPM1G SLC5A6
GH02J027090 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE dbSUPER 10.2 +181.9 181902 6.6 FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF766 ZNF143 KHK AGBL5 CGREF1 ABHD1 ATRAID SLC5A6 CAD PRR30 TCF23 PREB
GH02J027169 Enhancer 1.2 Ensembl ENCODE 10.5 +104.5 104549 2.9 FOXA2 MLX ARID4B SIN3A DMAP1 YY1 ZNF143 SP5 ZHX2 MXD4 ATRAID GTF3C2 TCF23 PRR30 PREB SLC5A6 ABHD1 CAD SLC30A3 DNAJC5G
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLC30A3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLC30A3 gene promoter:
  • E2F
  • Arnt
  • E2F-1
  • E2F-2
  • E2F-3a
  • E2F-4
  • E2F-5
  • Nkx2-5
  • LCR-F1
  • Bach2

Genomic Locations for SLC30A3 Gene

Genomic Locations for SLC30A3 Gene
22,134 bases
Minus strand
22,134 bases
Minus strand

Genomic View for SLC30A3 Gene

Genes around SLC30A3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLC30A3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLC30A3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC30A3 Gene

Proteins for SLC30A3 Gene

  • Protein details for SLC30A3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc transporter 3
    Protein Accession:
    Secondary Accessions:
    • Q8TC03

    Protein attributes for SLC30A3 Gene

    388 amino acids
    Molecular mass:
    41945 Da
    Quaternary structure:
    No Data Available

neXtProt entry for SLC30A3 Gene

Post-translational modifications for SLC30A3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SLC30A3 Gene

Domains & Families for SLC30A3 Gene

Gene Families for SLC30A3 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins
  • Transporters

Protein Domains for SLC30A3 Gene

Suggested Antigen Peptide Sequences for SLC30A3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family. SLC30A subfamily.
  • Belongs to the cation diffusion facilitator (CDF) transporter (TC 2.A.4) family. SLC30A subfamily.
genes like me logo Genes that share domains with SLC30A3: view

Function for SLC30A3 Gene

Molecular function for SLC30A3 Gene

UniProtKB/Swiss-Prot Function:
Involved in accumulation of zinc in synaptic vesicles.

Phenotypes From GWAS Catalog for SLC30A3 Gene

Gene Ontology (GO) - Molecular Function for SLC30A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005385 zinc ion transmembrane transporter activity IBA --
GO:0005515 protein binding IPI 25416956
GO:0008324 cation transmembrane transporter activity IEA --
GO:0015633 zinc-transporting ATPase activity TAS 8962159
genes like me logo Genes that share ontologies with SLC30A3: view
genes like me logo Genes that share phenotypes with SLC30A3: view

Animal Models for SLC30A3 Gene

MGI Knock Outs for SLC30A3:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLC30A3

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SLC30A3 Gene

Localization for SLC30A3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC30A3 Gene

Cytoplasmic vesicle, secretory vesicle, synaptic vesicle membrane; Multi-pass membrane protein. Cell junction, synapse, synaptosome. Late endosome membrane; Multi-pass membrane protein. Lysosome membrane; Multi-pass membrane protein. Cytoplasmic vesicle, secretory vesicle, synaptic vesicle.

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 SLC30A3 gene
Compartment Confidence
plasma membrane 5
endosome 5
lysosome 4
extracellular 1
peroxisome 1
cytosol 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoli (2)
  • Nucleus (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SLC30A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 17349999
GO:0005764 lysosome IEA --
GO:0005765 lysosomal membrane IEA --
GO:0005768 endosome TAS 8962159
GO:0005770 late endosome IDA 17349999
genes like me logo Genes that share ontologies with SLC30A3: view

Pathways & Interactions for SLC30A3 Gene

genes like me logo Genes that share pathways with SLC30A3: view

Gene Ontology (GO) - Biological Process for SLC30A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006811 ion transport IEA --
GO:0006812 cation transport IEA --
GO:0006829 zinc ion transport IEA --
GO:0010043 response to zinc ion IBA --
GO:0051050 positive regulation of transport IEA --
genes like me logo Genes that share ontologies with SLC30A3: view

No data available for SIGNOR curated interactions for SLC30A3 Gene

Drugs & Compounds for SLC30A3 Gene

(1) Drugs for SLC30A3 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with SLC30A3: view

Transcripts for SLC30A3 Gene

Unigene Clusters for SLC30A3 Gene

Solute carrier family 30 (zinc transporter), member 3:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SLC30A3

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC30A3 Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b ^ 6a · 6b · 6c ^ 7a · 7b ^ 8 ^ 9a · 9b ^ 10
SP1: - - - - -
SP2: - - - - -
SP3: - - - - - - -
SP4: - - -
SP5: -
SP6: -

Relevant External Links for SLC30A3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SLC30A3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLC30A3 Gene

mRNA differential expression in normal tissues according to GTEx for SLC30A3 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (x9.4), Brain - Cortex (x9.1), Testis (x8.1), Brain - Anterior cingulate cortex (BA24) (x6.8), and Brain - Amygdala (x6.6).

Protein differential expression in normal tissues from HIPED for SLC30A3 Gene

This gene is overexpressed in Frontal cortex (24.0), Brain (22.6), and Testis (16.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SLC30A3 Gene

Protein tissue co-expression partners for SLC30A3 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLC30A3 Gene:


SOURCE GeneReport for Unigene cluster for SLC30A3 Gene:


Evidence on tissue expression from TISSUES for SLC30A3 Gene

  • Nervous system(4.7)
genes like me logo Genes that share expression patterns with SLC30A3: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLC30A3 Gene

Orthologs for SLC30A3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SLC30A3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SLC30A3 34 33
  • 99.4 (n)
(Canis familiaris)
Mammalia SLC30A3 34 33
  • 92.01 (n)
(Bos Taurus)
Mammalia SLC30A3 34 33
  • 89.43 (n)
(Mus musculus)
Mammalia Slc30a3 16 34 33
  • 86.43 (n)
(Rattus norvegicus)
Mammalia Slc30a3 33
  • 85.14 (n)
(Ornithorhynchus anatinus)
Mammalia SLC30A3 34
  • 82 (a)
(Anolis carolinensis)
Reptilia SLC30A3 34
  • 59 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100497671 33
  • 66.31 (n)
(Danio rerio)
Actinopterygii slc30a2 34
  • 50 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG31860 34 33
  • 51.02 (n)
BG:DS07295.1 35
  • 33 (a)
ZnT35C 34
  • 31 (a)
(Caenorhabditis elegans)
Secernentea T18D3.3 35
  • 41 (a)
cdf-2 34
  • 39 (a)
Y39E4A.2b 35
  • 38 (a)
Y39E4A.2a 35
  • 38 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes COT1 34
  • 20 (a)
ZRC1 34
  • 20 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons MTPA1 33
  • 47.63 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 25 (a)
Species where no ortholog for SLC30A3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SLC30A3 Gene

Gene Tree for SLC30A3 (if available)
Gene Tree for SLC30A3 (if available)
Evolutionary constrained regions (ECRs) for SLC30A3: view image

Paralogs for SLC30A3 Gene

Paralogs for SLC30A3 Gene

(4) SIMAP similar genes for SLC30A3 Gene using alignment to 8 proteins:

  • C9J1K4_HUMAN
  • C9JM13_HUMAN
  • C9JV68_HUMAN
  • F5H3B7_HUMAN
  • H7BZ83_HUMAN
genes like me logo Genes that share paralogs with SLC30A3: view

Variants for SLC30A3 Gene

Sequence variations from dbSNP and Humsavar for SLC30A3 Gene

SNP ID Clin Chr 02 pos Variation AA Info Type
rs1000082722 -- 27,273,662(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000408464 -- 27,259,710(-) A/T intron_variant
rs1000506186 -- 27,272,680(-) C/T genic_upstream_transcript_variant, intron_variant
rs1000561608 -- 27,272,204(-) C/A genic_upstream_transcript_variant, intron_variant
rs1000637981 -- 27,265,171(-) C/G genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SLC30A3 Gene

Variant ID Type Subtype PubMed ID
nsv833603 CNV loss 17160897

Variation tolerance for SLC30A3 Gene

Residual Variation Intolerance Score: 92.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.97; 20.00% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLC30A3 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 SLC30A3 Gene

Disorders for SLC30A3 Gene

Additional Disease Information for SLC30A3

No disorders were found for SLC30A3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLC30A3 Gene

Publications for SLC30A3 Gene

  1. ZnT-3, a putative transporter of zinc into synaptic vesicles. (PMID: 8962159) Palmiter RD … Findley SD (Proceedings of the National Academy of Sciences of the United States of America 1996) 2 3 4 22 58
  2. Zinc transporter 2 (SLC30A2) can suppress the vesicular zinc defect of adaptor protein 3-depleted fibroblasts by promoting zinc accumulation in lysosomes. (PMID: 17349999) Falcón-Pérez JM … Dell'Angelica EC (Experimental cell research 2007) 3 4 22 58
  3. Loss of synaptic Zn2+ transporter function increases risk of febrile seizures. (PMID: 26647834) Hildebrand MS … Reid CA (Scientific reports 2015) 3 4 58
  4. SLC30A3 (ZnT3) oligomerization by dityrosine bonds regulates its subcellular localization and metal transport capacity. (PMID: 19521526) Salazar G … Faundez V (PloS one 2009) 3 22 58
  5. The zinc transporter ZnT3 interacts with AP-3 and it is preferentially targeted to a distinct synaptic vesicle subpopulation. (PMID: 14657250) Salazar G … Faundez V (Molecular biology of the cell 2004) 3 22 58

Products for SLC30A3 Gene

Sources for SLC30A3 Gene

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