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Aliases for SLC39A1 Gene

Aliases for SLC39A1 Gene

  • Solute Carrier Family 39 Member 1 2 3 4 5
  • Solute Carrier Family 39 (Zinc Transporter), Member 1 2 3
  • Zrt- And Irt-Like Protein 1 3 4
  • ZIRTL 3 4
  • ZIP1 3 4
  • Solute Carrier Family 39 (Zinc Transporter), Member 3 3
  • Zinc/Iron Regulated Transporter-Like 2
  • Zinc-Iron-Regulated Transporter-Like 4
  • Zinc Transporter ZIP1 3
  • ZIP-1 4
  • HZIP1 4
  • IRT1 4

External Ids for SLC39A1 Gene

Previous HGNC Symbols for SLC39A1 Gene

  • ZIRTL

Previous GeneCards Identifiers for SLC39A1 Gene

  • GC01M151748
  • GC01M149662
  • GC01M150706
  • GC01M151148
  • GC01M150744
  • GC01M152198
  • GC01M125294

Summaries for SLC39A1 Gene

Entrez Gene Summary for SLC39A1 Gene

  • This gene encodes a member of the zinc-iron permease family. The encoded protein is localized to the cell membrane and acts as a zinc uptake transporter. This gene has been linked to prostate cancer, breast cancer, and Alzheimer's disease. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2012]

GeneCards Summary for SLC39A1 Gene

SLC39A1 (Solute Carrier Family 39 Member 1) is a Protein Coding gene. Diseases associated with SLC39A1 include Prostate Cancer and Alzheimer Disease. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and Metal ion SLC transporters. Gene Ontology (GO) annotations related to this gene include receptor binding and zinc ion transmembrane transporter activity. An important paralog of this gene is SLC39A2.

UniProtKB/Swiss-Prot for SLC39A1 Gene

  • Mediates zinc uptake. May function as a major endogenous zinc uptake transporter in many cells of the body. Responsible for the rapid uptake and accumulation of physiologically effective zinc in prostate cells.

Gene Wiki entry for SLC39A1 Gene

Additional gene information for SLC39A1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLC39A1 Gene

Genomics for SLC39A1 Gene

GeneHancer (GH) Regulatory Elements for SLC39A1 Gene

Promoters and enhancers for SLC39A1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01I153961 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 550.8 +4.9 4889 4 HDGF PKNOX1 SMAD1 ZFP64 ARID4B NEUROD1 SIN3A DMAP1 ZNF2 ZBTB7B ENSG00000282386 MIR6737 SLC39A1 ILF2 CREB3L4 UBAP2L RAB13 RPS27 RPL34P5 GATAD2B
GH01I153965 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 550.8 +0.9 853 3.5 HDGF PKNOX1 CLOCK SMAD1 FOXA2 ARID4B SIN3A FEZF1 DMAP1 ZNF2 CREB3L4 ENSG00000273026 SLC39A1 UBAP2L ILF2 CRTC2 SLC27A3 INTS3 CHTOP ENSG00000238279
GH01I154935 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 9.7 -969.5 -969467 3.8 CLOCK MLX ZFP64 DMAP1 IRF4 YY1 SLC30A9 E2F8 ZNF143 SP3 ENSG00000270361 PMVK GON4L CLK2 KHDC4 ENSG00000271267 UBAP2L THBS3 RUSC1-AS1 CRTC2
GH01I154960 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 9.7 -994.5 -994456 4.5 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A ZNF2 YY1 POLR2B ZNF213 LOC101928120 PYGO2 SHC1 CLK2 KHDC4 GON4L ENSG00000271267 UBAP2L RUSC1-AS1 CREB3L4
GH01I153989 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10 -23.4 -23407 3.2 ZFP64 DMAP1 IRF4 YY1 ZNF213 E2F8 ZNF143 SP3 SSRP1 ZNF610 RPS27 GC01P153990 GC01P153994 CREB3L4 CRTC2 UBAP2L SLC27A3 CHTOP SHC1 INTS3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around SLC39A1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLC39A1 gene promoter:

Genomic Locations for SLC39A1 Gene

Genomic Locations for SLC39A1 Gene
chr1:153,959,099-153,968,184
(GRCh38/hg38)
Size:
9,086 bases
Orientation:
Minus strand
chr1:153,931,575-153,940,188
(GRCh37/hg19)

Genomic View for SLC39A1 Gene

Genes around SLC39A1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLC39A1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLC39A1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC39A1 Gene

Proteins for SLC39A1 Gene

  • Protein details for SLC39A1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NY26-S39A1_HUMAN
    Recommended name:
    Zinc transporter ZIP1
    Protein Accession:
    Q9NY26
    Secondary Accessions:
    • B4DDY7
    • Q5T4K1
    • Q8N2H7
    • Q9BTV0
    • Q9UBI7
    • Q9Y2Z7
    • Q9Y380

    Protein attributes for SLC39A1 Gene

    Size:
    324 amino acids
    Molecular mass:
    34250 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • Inhibited by Ni(2+) ions. Fe(2+) ions do not inhibit zinc uptake.
    SequenceCaution:
    • Sequence=AAD27717.1; Type=Frameshift; Positions=16, 40; Evidence={ECO:0000305};

    Alternative splice isoforms for SLC39A1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLC39A1 Gene

Post-translational modifications for SLC39A1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for SLC39A1 Gene

Domains & Families for SLC39A1 Gene

Gene Families for SLC39A1 Gene

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

Protein Domains for SLC39A1 Gene

InterPro:
Blocks:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9NY26

UniProtKB/Swiss-Prot:

S39A1_HUMAN :
  • Belongs to the ZIP transporter (TC 2.A.5) family.
Family:
  • Belongs to the ZIP transporter (TC 2.A.5) family.
genes like me logo Genes that share domains with SLC39A1: view

Function for SLC39A1 Gene

Molecular function for SLC39A1 Gene

UniProtKB/Swiss-Prot Function:
Mediates zinc uptake. May function as a major endogenous zinc uptake transporter in many cells of the body. Responsible for the rapid uptake and accumulation of physiologically effective zinc in prostate cells.

Phenotypes From GWAS Catalog for SLC39A1 Gene

Gene Ontology (GO) - Molecular Function for SLC39A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005102 receptor binding IEA --
GO:0005385 zinc ion transmembrane transporter activity TAS --
GO:0022890 inorganic cation transmembrane transporter activity TAS 10610721
GO:0046873 metal ion transmembrane transporter activity IEA --
genes like me logo Genes that share ontologies with SLC39A1: view
genes like me logo Genes that share phenotypes with SLC39A1: view

Animal Models for SLC39A1 Gene

MGI Knock Outs for SLC39A1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SLC39A1 Gene

Localization for SLC39A1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC39A1 Gene

Cell membrane; Multi-pass membrane protein. Endoplasmic reticulum membrane; Multi-pass membrane protein. Note=Shows a vesicular localization corresponding partially to the endoplasmic reticulum in several epithelial cell lines.

Subcellular locations from

COMPARTMENTS
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 SLC39A1 gene
Compartment Confidence
plasma membrane 5
endoplasmic reticulum 3
nucleus 2
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SLC39A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IEA --
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA,TAS 10610721
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SLC39A1: view

Pathways & Interactions for SLC39A1 Gene

genes like me logo Genes that share pathways with SLC39A1: view

Gene Ontology (GO) - Biological Process for SLC39A1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001701 in utero embryonic development IEA --
GO:0006810 transport IEA --
GO:0006811 ion transport IEA --
GO:0006812 cation transport TAS 10610721
GO:0006829 zinc II ion transport IEA --
genes like me logo Genes that share ontologies with SLC39A1: view

No data available for SIGNOR curated interactions for SLC39A1 Gene

Drugs & Compounds for SLC39A1 Gene

(2) Drugs for SLC39A1 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for SLC39A1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SLC39A1: view

Transcripts for SLC39A1 Gene

Unigene Clusters for SLC39A1 Gene

Solute carrier family 39 (zinc transporter), member 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC39A1 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6a · 6b · 6c ^ 7a · 7b ^ 8a · 8b · 8c ^ 9a · 9b · 9c · 9d · 9e · 9f · 9g ·
SP1: - - - - - - - - - -
SP2: - - - - - - - - - - -
SP3: - - - - - - - - - - - - -
SP4: - - - - - - - -
SP5: - - - - - - -
SP6: - - - -
SP7: - - -
SP8: - -
SP9: -
SP10:

ExUns: 9h
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:

Relevant External Links for SLC39A1 Gene

GeneLoc Exon Structure for
SLC39A1
ECgene alternative splicing isoforms for
SLC39A1

Expression for SLC39A1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLC39A1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SLC39A1 Gene

This gene is overexpressed in Bone (58.6) and Adrenal (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SLC39A1 Gene



Protein tissue co-expression partners for SLC39A1 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLC39A1 Gene:

SLC39A1

SOURCE GeneReport for Unigene cluster for SLC39A1 Gene:

Hs.7854

mRNA Expression by UniProt/SwissProt for SLC39A1 Gene:

Q9NY26-S39A1_HUMAN
Tissue specificity: Ubiquitous. Expressed in most adult and fetal tissues including the epidermis.

Evidence on tissue expression from TISSUES for SLC39A1 Gene

  • Lung(4.8)
  • Kidney(4.7)
  • Nervous system(4.5)
  • Muscle(4.3)
  • Thyroid gland(4.3)
  • Intestine(3.6)
  • Skin(2.9)
  • Pancreas(2.4)
  • Blood(2)
  • Liver(2)
genes like me logo Genes that share expression patterns with SLC39A1: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLC39A1 Gene

Orthologs for SLC39A1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SLC39A1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SLC39A1 33 34
  • 99.59 (n)
dog
(Canis familiaris)
Mammalia SLC39A1 33 34
  • 89.92 (n)
cow
(Bos Taurus)
Mammalia SLC39A1 33 34
  • 89.71 (n)
mouse
(Mus musculus)
Mammalia Slc39a1 33 16 34
  • 86.93 (n)
rat
(Rattus norvegicus)
Mammalia Slc39a1 33
  • 86.83 (n)
oppossum
(Monodelphis domestica)
Mammalia SLC39A1 34
  • 85 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SLC39A1 34
  • 46 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia slc39a1 33
  • 61.44 (n)
Str.7666 33
zebrafish
(Danio rerio)
Actinopterygii slc39a3 34
  • 34 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG9430 34
  • 24 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea F31C3.4 34
  • 29 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 21 (a)
ManyToMany
Species where no ortholog for SLC39A1 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • 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 SLC39A1 Gene

ENSEMBL:
Gene Tree for SLC39A1 (if available)
TreeFam:
Gene Tree for SLC39A1 (if available)

Paralogs for SLC39A1 Gene

Paralogs for SLC39A1 Gene

(2) SIMAP similar genes for SLC39A1 Gene using alignment to 7 proteins:

Pseudogenes.org Pseudogenes for SLC39A1 Gene

genes like me logo Genes that share paralogs with SLC39A1: view

Variants for SLC39A1 Gene

Sequence variations from dbSNP and Humsavar for SLC39A1 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000069787 -- 153,967,407(-) G/C 5_prime_UTR_variant, genic_upstream_transcript_variant, intron_variant
rs1000101967 -- 153,967,761(-) G/A genic_upstream_transcript_variant, intron_variant, upstream_transcript_variant
rs1000906345 -- 153,962,801(-) A/C intron_variant
rs1001142587 -- 153,966,841(-) T/C genic_upstream_transcript_variant, intron_variant
rs1001172019 -- 153,967,289(-) C/G genic_upstream_transcript_variant, intron_variant

Variation tolerance for SLC39A1 Gene

Residual Variation Intolerance Score: 38.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.77; 16.21% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLC39A1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SLC39A1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SLC39A1 Gene

Disorders for SLC39A1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for SLC39A1 Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
prostate cancer
  • prostate cancer, susceptibility to
alzheimer disease
  • ad
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for SLC39A1

genes like me logo Genes that share disorders with SLC39A1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SLC39A1 Gene

Publications for SLC39A1 Gene

  1. Isolation and characterization of human and mouse ZIRTL, a member of the IRT1 family of transporters, mapping within the epidermal differentiation complex. (PMID: 10610721) Lioumi M … Ragoussis J (Genomics 1999) 2 3 4 22 58
  2. The human ZIP1 transporter mediates zinc uptake in human K562 erythroleukemia cells. (PMID: 11301334) Gaither LA … Eide DJ (The Journal of biological chemistry 2001) 3 4 22 58
  3. A di-leucine sorting signal in ZIP1 (SLC39A1) mediates endocytosis of the protein. (PMID: 17635580) Huang L … Kirschke CP (The FEBS journal 2007) 3 22 58
  4. Overexpression of the ZIP1 zinc transporter induces an osteogenic phenotype in mesenchymal stem cells. (PMID: 16203195) Tang Z … Gupta A (Bone 2006) 3 22 58
  5. hZIP1 zinc uptake transporter down regulation and zinc depletion in prostate cancer. (PMID: 16153295) Franklin RB … Costello LC (Molecular cancer 2005) 3 22 58

Products for SLC39A1 Gene

Sources for SLC39A1 Gene

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