SLC39A9 solute carrier family 39 member 9 [Homo sapiens (human)] - Gene

Summary

Official Symbol: SLC39A9provided by HGNC
Official Full Name: solute carrier family 39 member 9provided by HGNC
Primary source: HGNC:HGNC:20182
See related: Ensembl:ENSG00000029364 MIM:619116; AllianceGenome:HGNC:20182
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: ZIP9; ZIP-9
Summary: Enables G protein-coupled receptor activity; androgen binding activity; and zinc efflux transmembrane transporter activity. Involved in intracellular zinc ion homeostasis; regulation of vascular endothelial cell proliferation; and zinc ion transmembrane transport. Located in several cellular components, including mitochondrial membrane; perinuclear region of cytoplasm; and trans-Golgi network. [provided by Alliance of Genome Resources, Oct 2024]
Expression: Ubiquitous expression in thyroid (RPKM 15.0), kidney (RPKM 14.8) and 25 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 14q24.1

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	14	NC_000014.9 (69398384..69462390)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	14	NC_060938.1 (63611539..63675542)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	14	NC_000014.8 (69865101..69929107)

Chromosome 14 - NC_000014.9 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 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?

Genome-wide CRISPR/Cas9 screen identifies SLC39A9 and PIK3C3 as crucial entry factors for Ebola virus infection.
Title: Genome-wide CRISPR/Cas9 screen identifies SLC39A9 and PIK3C3 as crucial entry factors for Ebola virus infection.
Androgens promote vascular endothelial cell proliferation through activation of a ZIP9-dependent inhibitory G protein/PI3K-Akt/Erk/cyclin D1 pathway.
Title: Androgens promote vascular endothelial cell proliferation through activation of a ZIP9-dependent inhibitory G protein/PI3K-Akt/Erk/cyclin D1 pathway.
ZIP9 Is a Druggable Determinant of Sex Differences in Melanoma.
Title: ZIP9 Is a Druggable Determinant of Sex Differences in Melanoma.
these data illustrate epigenetic regulation of ZIP9 and its critical role in promoting radiation-induced skin fibrosis
Title: Genome-Wide Analysis Reveals Zinc Transporter ZIP9 Regulated by DNA Methylation Promotes Radiation-Induced Skin Fibrosis via the TGF-β Signaling Pathway.
Study found that the androgen dihydrotestosterone (DHT) might function via a novel membrane androgen receptor (mAR-SLC39A9) to increase nuclear androgen receptor (nAR)-negative bladder cancer (BCa) cell migration and invasion. DHT/mAR-SLC39A9 might function by altering Galphai protein-mediated MAPK/MMP9 intracellular signaling to increase nAR-negative BCa cell migration and invasion.
Title: Androgen dihydrotestosterone (DHT) promotes the bladder cancer nuclear AR-negative cell invasion via a newly identified membrane androgen receptor (mAR-SLC39A9)-mediated Gαi protein/MAPK/MMP9 intracellular signaling.
The G protein-coupled receptor family C group 6 member A (GPRC6A) and zinc transporter member 9 (ZIP9) have also been portrayed as mARs, related to the extranuclear action of androgens.
Title: Membrane androgen receptors (OXER1, GPRC6A AND ZIP9) in prostate and breast cancer: A comparative study of their expression.
Study provides evidence that mediates testosterone-induced migratory activity of metastatic prostate cancer cells.
Title: ZIP9 but not the androgen receptor mediates testosterone-induced migratory activity of metastatic prostate cancer cells.
The study connects structural features of ZIP9 to its functions and indicates a possible relevance of ZIP9 as a pharmacological target
Title: Testosterone/bicalutamide antagonism at the predicted extracellular androgen binding site of ZIP9.
ZIP9 role glioblastoma cells migration.ZIP9 expression affects phosphorylation states of p53 and GSK-3beta.
Title: Expression of the zinc importer protein ZIP9/SLC39A9 in glioblastoma cells affects phosphorylation states of p53 and GSK-3β and causes increased cell migration.
The results show ZIP9 is a specific Gi coupled-mAR mediating testosterone-induced MAP kinase and zinc signaling in PC3-ZIP9 cells.
Title: Membrane androgen receptor characteristics of human ZIP9 (SLC39A) zinc transporter in prostate cancer cells: Androgen-specific activation and involvement of an inhibitory G protein in zinc and MAP kinase signaling.

Submit: New GeneRIF Correction See all GeneRIFs (14)

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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Markers

G35877 (e-PCR)
- UniSTS:29188

D14S554 (e-PCR), detects polymorphism
- UniSTS:149258

RH103219 (e-PCR)
- UniSTS:97552

D14S716E (e-PCR)
- UniSTS:151589

G36004 (e-PCR)
- UniSTS:51536

A009Q09 (e-PCR)
- UniSTS:35922

G32766 (e-PCR)
- UniSTS:117347

SHGC-105597 (e-PCR)
- UniSTS:169355

RH70513 (e-PCR)
- UniSTS:42651

SLC39A9_8061 (e-PCR)
- UniSTS:468136

G35547 (e-PCR)
- UniSTS:50856

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables G protein-coupled receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables androgen binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables zinc efflux transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables zinc ion transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables zinc ion transmembrane transporter activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in G protein-coupled receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in bicellular tight junction assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in intracellular zinc ion homeostasis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cellular response to testosterone stimulus	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of vascular endothelial cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in zinc ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in mitochondrial membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in trans-Golgi network	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: zinc transporter ZIP9

Names: ZRT/IRT-like protein 9; solute carrier family 39 (zinc transporter), member 9; zinc transporter 9; zinc transporter SLC39A9; zrt- and Irt-like protein 9

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_001252148.2 → NP_001239077.1 zinc transporter ZIP9 isoform 2

See identical proteins and their annotated locations for NP_001239077.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an exon in the coding region but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.

Source sequence(s)

AL137760, AY358687, AY780789, BX643103, DA112731

Consensus CDS

CCDS58328.1

UniProtKB/Swiss-Prot

Q9NUM3

Related

ENSP00000451833.1, ENST00000557046.1

Conserved Domains (1) summary

cl00437
Location:9 → 278

Zip; ZIP Zinc transporter
NM_001252150.2 → NP_001239079.1 zinc transporter ZIP9 isoform 3

See identical proteins and their annotated locations for NP_001239079.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.

Source sequence(s)

AA884056, AK222547, BC047682, BP269907

Consensus CDS

CCDS58327.1

UniProtKB/Swiss-Prot

Q9NUM3

Related

ENSP00000452385.1, ENST00000556605.5

Conserved Domains (1) summary

cl00437
Location:9 → 220

Zip; ZIP Zinc transporter
NM_001252151.2 → NP_001239080.1 zinc transporter ZIP9 isoform 4

See identical proteins and their annotated locations for NP_001239080.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 5' UTR and uses a downstream, in-frame start codon, compared to variant 1. Variants 4 and 5 both encode isoform (4), which has a shorter N-terminus compared to isoform 1.

Source sequence(s)

AK293222, AL137760, AY358687, BP299863

UniProtKB/TrEMBL

B4DDK0

Conserved Domains (1) summary

cl00437
Location:13 → 183

Zip; ZIP Zinc transporter
NM_001252152.2 → NP_001239081.1 zinc transporter ZIP9 isoform 4

See identical proteins and their annotated locations for NP_001239081.1

Status: VALIDATED

Description

Transcript Variant: This variant (5) differs in the 5' UTR, includes an alternate internal exon and uses a downstream, in-frame start codon, compared to variant 1. Variants 4 and 5 both encode isoform (4), which has a shorter N-terminus compared to isoform 1.

Source sequence(s)

AK316381, AL137760, AY358687, BP299863

UniProtKB/TrEMBL

B4DDK0

Conserved Domains (1) summary

cl00437
Location:13 → 183

Zip; ZIP Zinc transporter
NM_001330185.2 → NP_001317114.1 zinc transporter ZIP9 isoform 5

Status: VALIDATED

Description

Transcript Variant: This variant (6) lacks an exon in the coding region but maintains the reading frame, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.

Source sequence(s)

AL137760, AL157996

Consensus CDS

CCDS81816.1

UniProtKB/TrEMBL

M0QX28

Related

ENSP00000468864.1, ENST00000031146.8

Conserved Domains (1) summary

cl00437
Location:68 → 235

Zip; ZIP Zinc transporter
NM_018375.5 → NP_060845.2 zinc transporter ZIP9 isoform 1

See identical proteins and their annotated locations for NP_060845.2

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AL137760, AY358687, DA112731

Consensus CDS

CCDS9795.1

UniProtKB/Swiss-Prot

G3V5J8, Q53HN3, Q5MJQ0, Q6P2Q1, Q86WY2, Q9NUM3

UniProtKB/TrEMBL

C4N9M8

Related

ENSP00000336887.5, ENST00000336643.10

Conserved Domains (1) summary

pfam02535
Location:9 → 301

Zip; ZIP Zinc transporter

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000014.9 Reference GRCh38.p14 Primary Assembly

Range

69398384..69462390

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_024449648.2 → XP_024305416.1 zinc transporter ZIP9 isoform X1

UniProtKB/TrEMBL

B4DDK0

Conserved Domains (1) summary

cl00437
Location:13 → 183

Zip; ZIP Zinc transporter
XM_047431550.1 → XP_047287506.1 zinc transporter ZIP9 isoform X2

Alternate T2T-CHM13v2.0

Genomic

NC_060938.1 Alternate T2T-CHM13v2.0

Range

63611539..63675542

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_054376327.1 → XP_054232302.1 zinc transporter ZIP9 isoform X1

UniProtKB/TrEMBL

B4DDK0
XM_054376328.1 → XP_054232303.1 zinc transporter ZIP9 isoform X2