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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. 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. 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

Regulatory Elements for SLC39A1 Gene

Enhancers for SLC39A1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H154351 1.6 Ensembl ENCODE dbSUPER 11.2 -385.0 -385000 3 HDGF PKNOX1 FOXA2 ARNT ZFP64 ARID4B DMAP1 YY1 ZNF766 FOS CLK2 UBAP2L CHTOP CRTC2 RUSC1-AS1 SLC27A3 ILF2 FLAD1 CREB3L4 THBS3
GH01H154935 1.8 FANTOM5 ENCODE dbSUPER 9.7 -969.5 -969468 3 MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC MEF2D SSRP1 GON4L KIAA0907 UBAP2L CLK2 ENSG00000271267 RUSC1-AS1 CREB3L4 THBS3 KRTCAP2 SHC1
GH01H154960 1.4 ENCODE dbSUPER 9.7 -994.5 -994456 4 HDGF PKNOX1 ARNT ARID4B SIN3A ZNF2 YY1 ZNF143 ZNF207 PAF1 KIAA0907 GON4L UBAP2L SHC1 ENSG00000271267 CLK2 MSTO2P ASH1L-AS1 RUSC1-AS1 LOC101928120
GH01H153880 1.2 Ensembl ENCODE 10.9 +86.6 86631 2 PKNOX1 FEZF1 ZNF2 GLIS2 SP3 TSHZ1 REST ZNF662 ZNF491 ZNF610 UBAP2L CREB3L4 INTS3 ATP8B2 ENSG00000272654 GATAD2B CRTC2 SLC39A1 JTB CHTOP
GH01H153989 1.2 ENCODE 10 -23.4 -23408 3 HDGF FOXA2 PKNOX1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 ZBTB7B CREB3L4 CRTC2 UBAP2L SLC27A3 RPS27 SHC1 CHTOP ILF2 INTS3 SLC39A1
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SLC39A1 on UCSC Golden Path with GeneCards custom track

Promoters for SLC39A1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000013865 684 1801 HDGF PKNOX1 FOXA2 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for SLC39A1 Gene

Chromosome:
1
Start:
153,959,099 bp from pter
End:
153,968,184 bp from pter
Size:
9,086 bases
Orientation:
Minus strand

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

  • Applied Biological Materials Clones for SLC39A1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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 TAS,IEA 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

  • Applied Biological Materials Clones for SLC39A1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

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

Primer Products

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 Sequence Context AA Info Type
rs1000069787 -- 153,967,407(+) TCCCG(C/G)AGCTT intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1000101967 -- 153,967,761(+) TGAGA(A/G)GGTAG intron-variant, upstream-variant-2KB, utr-variant-5-prime
rs1000906345 -- 153,962,801(+) GGGGC(A/C)AGGAA intron-variant, upstream-variant-2KB
rs1001142587 -- 153,966,841(+) ACCTG(C/T)ATCAG intron-variant, upstream-variant-2KB
rs1001172019 -- 153,967,289(+) CCTGC(C/G)GAGCG intron-variant, upstream-variant-2KB

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)

Relevant External Links 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

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

Disorder Aliases PubMed IDs
prostate cancer
  • prostate cancer, hereditary, 5
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SLC39A1

Genetic Association Database (GAD)
SLC39A1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 60
  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 60
  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 60
  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 60
  5. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. (PMID: 16303743) Otsuki T … Isogai T (DNA research : an international journal for rapid publication of reports on genes and genomes 2005) 3 4 60

Products for SLC39A1 Gene

Sources for SLC39A1 Gene

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