Slc39a4 solute carrier family 39 member 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc39a4provided by RGD
Official Full Name: solute carrier family 39 member 4provided by RGD
Primary source: RGD:1306701
See related: Ensembl:ENSRNOG00000014314 AllianceGenome:RGD:1306701
Gene type: protein coding
RefSeq status: VALIDATED
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 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 zinc ion transport. Predicted to be located in apical plasma membrane and endosome. Predicted to be integral component of plasma membrane. Human ortholog(s) of this gene implicated in acrodermatitis enteropathica. Orthologous to human SLC39A4 (solute carrier family 39 member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 139.3), Liver (RPKM 68.3) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q34

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (110214017..110218202, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (108333368..108337553, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (117675718..117682586, complement)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The rapid upregulation of Zip4 expression in the small intestine during zinc deficient conditions corroborates the important role of Zip4 in the systemic control of zinc homeostasis.
Title: Properties of Zip4 accumulation during zinc deficiency and its usefulness to evaluate zinc status: a study of the effects of zinc deficiency during lactation.
Chronic alcohol exposure decreases Kruppel-like factor (KLF)4 and ZIP4 expression and consequently decreases zinc transport into cells which, in turn, impairs their function.
Title: Chronic alcohol ingestion in rats decreases Krüppel-like factor 4 expression and intracellular zinc in the lung.
The localization of zip1 and zip4 was examined in the brains of adult rats
Title: Localization of zip1 and zip4 mRNA in the adult rat brain.

Submit: New GeneRIF Correction

General gene information

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Markers

RH131800 (e-PCR)
- UniSTS:215083

AU041686 (e-PCR)
- UniSTS:160468

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	ISO Inferred from Sequence Orthology more info
enables monoatomic cation:bicarbonate symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	ISO Inferred from Sequence Orthology more info
enables zinc ion sensor activity	IEA Inferred from Electronic Annotation more info
enables zinc ion sensor activity	ISO Inferred from Sequence Orthology more info
enables zinc ion sensor activity	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion sequestering activity	IEA Inferred from Electronic Annotation more info
enables zinc ion sequestering activity	ISO Inferred from Sequence Orthology more info
enables zinc ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables zinc ion transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables zinc ion transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in bicarbonate transport	IEA Inferred from Electronic Annotation more info
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to zinc ion starvation	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 intracellular monoatomic cation homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular zinc ion homeostasis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within intracellular zinc ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in intracellular zinc ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in intracellular zinc ion homeostasis	ISS Inferred from Sequence or Structural Similarity 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 transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within zinc ion transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	IEA Inferred from Electronic Annotation more info
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	ISS Inferred from Sequence or Structural Similarity more info
located_in endosome	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in recycling endosome membrane	IEA Inferred from Electronic Annotation more info
located_in recycling endosome membrane	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: zinc transporter ZIP4

Names: ZIP-4; solute carrier family 39 (zinc transporter), member 4; zrt- and Irt-like protein 4

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)

NM_001077669.2 → NP_001071137.2 zinc transporter ZIP4 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

A0JPN2

UniProtKB/TrEMBL

A0A0H2UHY4, A6HSB3, M0RAL0

Related

ENSRNOP00000047376.4, ENSRNOT00000040422.6

Conserved Domains (2) summary

pfam02535
Location:336 → 648

Zip; ZIP Zinc transporter

pfam18292
Location:46 → 197

ZIP4_domain; Zinc transporter ZIP4 domain