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Slc39a5 solute carrier family 39 member 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362812, updated on 11-Apr-2024

Summary

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Official Symbol
Slc39a5provided by RGD
Official Full Name
solute carrier family 39 member 5provided by RGD
Primary source
RGD:1310322
See related
Ensembl:ENSRNOG00000033361 AllianceGenome:RGD:1310322
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable zinc ion transmembrane transporter activity. Predicted to be involved in several processes, including BMP signaling pathway; cellular zinc ion homeostasis; and zinc ion import across plasma membrane. Predicted to act upstream of or within cellular response to zinc ion starvation and positive regulation of mRNA splicing, via spliceosome. Predicted to be located in basolateral plasma membrane. Predicted to be integral component of plasma membrane. Human ortholog(s) of this gene implicated in myopia. Orthologous to human SLC39A5 (solute carrier family 39 member 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Kidney (RPKM 146.8), Liver (RPKM 52.2) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Slc39a5 in Genome Data Viewer
Location:
7q11
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (1409360..1415407, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (822873..830865, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (2813875..2819917, complement)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene citrate synthase Neighboring gene coenzyme Q10A Neighboring gene ankyrin repeat domain 52 Neighboring gene small nucleolar RNA SNORA79 Neighboring gene nucleic acid binding protein 2 Neighboring gene ring finger protein 41

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. SLC39A5 mutations interfering with the BMP/TGF-β pathway in non-syndromic high myopia. Guo H, et al. J Med Genet, 2014 Aug. PMID 24891338, Free PMC Article
  2. The adaptive response to dietary zinc in mice involves the differential cellular localization and zinc regulation of the zinc transporters ZIP4 and ZIP5. Dufner-Beattie J, et al. J Biol Chem, 2004 Nov 19. PMID 15358787
  3. A broadly applicable high-throughput screening strategy identifies new regulators of Dlg4 (Psd-95) alternative splicing. Zheng S, et al. Genome Res, 2013 Jun. PMID 23636947, Free PMC Article
  4. Large-scale proteomics and phosphoproteomics of urinary exosomes. Gonzales PA, et al. J Am Soc Nephrol, 2009 Feb. PMID 19056867, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables monoatomic cation:bicarbonate symporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables zinc ion transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in BMP signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in bicarbonate transport IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within cellular response to zinc ion starvation ISO
Inferred from Sequence Orthology
more info
  
involved_in eye development ISO
Inferred from Sequence Orthology
more info
  
involved_in intracellular monoatomic cation homeostasis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within positive regulation of mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
  
involved_in zinc ion import across plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in zinc ion transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in zinc ion transport ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in basolateral plasma membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
zinc transporter ZIP5
Names
solute carrier family 39 (metal ion transporter), member 5
solute carrier family 39 (zinc transporter), member 5

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001108728.1 → NP_001102198.1  zinc transporter ZIP5 precursor

    See identical proteins and their annotated locations for NP_001102198.1

    Status: PROVISIONAL

    Source sequence(s)
    CH474104
    UniProtKB/TrEMBL
    A6KSC9, D3ZSF7
    Related
    ENSRNOP00000042922.4, ENSRNOT00000045547.5
    Conserved Domains (1) summary
    pfam02535
    Location:208 → 489
    Zip; ZIP Zinc transporter

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086025.1 Reference GRCr8

    Range
    1409360..1415407 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039079368.2 → XP_038935296.1  zinc transporter ZIP5 isoform X1

    UniProtKB/TrEMBL
    A6KSC9, D3ZSF7
    Conserved Domains (1) summary
    pfam02535
    Location:208 → 489
    Zip; ZIP Zinc transporter

  2. XM_063263700.1 → XP_063119770.1  zinc transporter ZIP5 isoform X1

    UniProtKB/TrEMBL
    A6KSC9, D3ZSF7

  3. XM_039079370.2 → XP_038935298.1  zinc transporter ZIP5 isoform X3

    Conserved Domains (1) summary
    pfam02535
    Location:100 → 381
    Zip; ZIP Zinc transporter

  4. XM_063263701.1 → XP_063119771.1  zinc transporter ZIP5 isoform X4

  5. XM_039079369.2 → XP_038935297.1  zinc transporter ZIP5 isoform X2

    Conserved Domains (1) summary
    pfam02535
    Location:208 → 423
    Zip; ZIP Zinc transporter

RNA

  1. XR_005486653.2 RNA Sequence

  2. XR_005486654.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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