SLC39A3 solute carrier family 39 member 3 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SLC39A3provided by HGNC
Official Full Name: solute carrier family 39 member 3provided by HGNC
Primary source: HGNC:HGNC:17128
See related: Ensembl:ENSG00000141873 MIM:612168; AllianceGenome:HGNC:17128
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: ZIP3; ZIP-3
Summary: Predicted to enable zinc ion transmembrane transporter activity. Predicted to be involved in zinc ion transmembrane transport. Predicted to act upstream of or within several processes, including T cell homeostasis; chordate embryonic development; and zinc ion transport. Predicted to be located in hippocampal mossy fiber to CA3 synapse. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in testis (RPKM 7.9), brain (RPKM 4.5) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 19p13.3

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (2732524..2740076, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (2707810..2715362, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (2732522..2740074, complement)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

These results support a concept that downregulation of RREB-1 causes downregulation of ZIP3, which results in decreased zinc in pancreatic premalignant and carcinoma cells
Title: Evidence for changes in RREB-1, ZIP3, and Zinc in the early development of pancreatic adenocarcinoma.
The metallothionein gene had a higher expression in the blood, when compared to zinc transporters ZnT-1, Zip-1, and Zip-3 (p=0.01 in obese patients.
Title: Expression of the zinc transporters genes and metallothionein in obese women.
Data show that the combination of concurrent zinc, ZIP3, and RREB-1 changes represent early events in the development of adenocarcinoma.
Title: Decreased zinc and downregulation of ZIP3 zinc uptake transporter in the development of pancreatic adenocarcinoma.
Observational study of gene-disease association. (HuGE Navigator)
Title: Findings from bipolar disorder genome-wide association studies replicate in a Finnish bipolar family-cohort.
Gene expression regulation of ZIPs after zinc supplementation.
Title: Zinc supplementation in the elderly reduces spontaneous inflammatory cytokine release and restores T cell functions.
ZIP1, ZIP2 and ZIP3 may play cell-specific roles in zinc homeostasis rather than primary roles in the acquisition of dietary zinc
Title: Structure, function, and regulation of a subfamily of mouse zinc transporter genes.
ZiP2 and Zip3 are down regulated in malignant cells
Title: hZip2 and hZip3 zinc transporters are down regulated in human prostate adenocarcinomatous glands.

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Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables zinc ion transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables zinc ion transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion transmembrane transporter activity	TAS Traceable Author Statement more info

Process	Evidence Code	Pubs
involved_in T cell homeostasis	IEA Inferred from Electronic Annotation more info
involved_in cell morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in embryonic cranial skeleton morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in in utero embryonic development	IEA Inferred from Electronic Annotation more info
involved_in limb development	IEA Inferred from Electronic Annotation more info
involved_in zinc ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in zinc ion transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in zinc ion transmembrane transport	TAS Traceable Author Statement more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	IEA Inferred from Electronic Annotation more info
located_in hippocampal mossy fiber to CA3 synapse	ISS Inferred from Sequence or Structural Similarity more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: zinc transporter ZIP3

Names: ZRT/IRT-like protein 3; solute carrier family 39 (zinc transporter), member 3; zinc transporter 3; zrt- and Irt-like protein 3

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_144564.5 → NP_653165.2 zinc transporter ZIP3 isoform a

See identical proteins and their annotated locations for NP_653165.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (a).

Source sequence(s)

BC005869, BQ898834

Consensus CDS

CCDS12093.1

UniProtKB/Swiss-Prot

B3KMJ3, Q8WUG1, Q9BRY0

UniProtKB/TrEMBL

F5H385

Related

ENSP00000269740.3, ENST00000269740.9

Conserved Domains (1) summary

pfam02535
Location:5 → 309

Zip; ZIP Zinc transporter
NM_213568.2 → NP_998733.1 zinc transporter ZIP3 isoform b

See identical proteins and their annotated locations for NP_998733.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) skips an alternate splice site compared to variant 1. The resulting isoform (b) is shorter and has a distinct C-terminus compared to isoform a.

Source sequence(s)

AC006538

Consensus CDS

CCDS45909.1

UniProtKB/Swiss-Prot

Q9BRY0

Related

ENSP00000393715.1, ENST00000455372.2

Conserved Domains (1) summary

cl00437
Location:5 → 69

Zip; ZIP Zinc transporter