Slc30a9 solute carrier family 30 (zinc transporter), member 9 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Slc30a9provided by MGI
Official Full Name: solute carrier family 30 (zinc transporter), member 9provided by MGI
Primary source: MGI:MGI:1923690
See related: Ensembl:ENSMUSG00000029221 AllianceGenome:MGI:1923690
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: HUEL; GAC63; znT-9; 2310024J23Rik
Summary: Enables chromatin binding activity; nuclear receptor binding activity; and nuclear receptor coactivator activity. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Predicted to be located in cytoplasmic vesicle; cytoskeleton; and endoplasmic reticulum. Predicted to be active in nucleus. Is expressed in cranial ganglion and urethra. Orthologous to human SLC30A9 (solute carrier family 30 member 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in cerebellum adult (RPKM 23.5), frontal lobe adult (RPKM 21.7) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 5; 5 C3.1

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
109	current	GRCm39 (GCF_000001635.27)	5	NC_000071.7 (67464298..67513485)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	5	NC_000071.6 (67306955..67356142)

Chromosome 5 - NC_000071.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

GAC63 is a physiologically relevant part of the p160 coactivator signaling pathway that mediates transcriptional activation by nuclear receptors.
Title: GAC63, a GRIP1-dependent nuclear receptor coactivator.
GAC63 has a role in transcriptional activation mediated by the aryl hydrocarbon receptor
Title: Role of GAC63 in transcriptional activation mediated by the aryl hydrocarbon receptor.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (1)
Endonuclease-mediated (3)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Slc30a9 (e-PCR), detects polymorphism
- UniSTS:547080

RH125514 (e-PCR)
- UniSTS:162331

NoName (e-PCR)
- UniSTS:235194

Homology

Homologs of the Slc30a9 gene: The Slc30a9 gene is conserved in human, chimpanzee, Rhesus monkey, dog, cow, rat, chicken, zebrafish, fruit fly, mosquito, C.elegans, and A.thaliana.
Orthologs from Annotation Pipeline: 494 organisms have orthologs with human gene Slc30a9
Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables monoatomic cation transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables nuclear receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables nuclear receptor coactivator activity	IGI Inferred from Genetic Interaction more info	PubMed
enables zinc ion transmembrane transporter activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
involved_in intracellular zinc ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in intracellular zinc ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in monoatomic cation transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within monoatomic ion transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of DNA-templated transcription	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of mitochondrion organization	ISO Inferred from Sequence Orthology more info
involved_in transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in zinc ion transport	IBA Inferred from Biological aspect of Ancestor more info	PubMed
involved_in zinc ion transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info	PubMed
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in cytoskeleton	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info	PubMed
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrial membrane	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info	PubMed

General protein information

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Preferred Names: proton-coupled zinc antiporter SLC30A9, mitochondrial

Names: GRIP1-associated coactivator 1; GRIP1-associated coactivator 63; zinc transporter 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_001310629.1 → NP_001297558.1 proton-coupled zinc antiporter SLC30A9, mitochondrial isoform 2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The encoded isoform (2) is shorter than isoform 1.

Source sequence(s)

AK038559, AK082853, BY237302, CX568220

Consensus CDS

CCDS80294.1

UniProtKB/Swiss-Prot

Q5IRJ6

UniProtKB/TrEMBL

F8WHL1

Related

ENSMUSP00000109306.3, ENSMUST00000113676.6

Conserved Domains (3) summary

TIGR00598
Location:103 → 188

rad14; DNA repair protein

pfam01545
Location:230 → 429

Cation_efflux; Cation efflux family

pfam12137
Location:489 → 547

RapA_C; RNA polymerase recycling family C-terminal
NM_178651.4 → NP_848766.2 proton-coupled zinc antiporter SLC30A9, mitochondrial isoform 1

See identical proteins and their annotated locations for NP_848766.2

Status: VALIDATED

Description

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

Source sequence(s)

AK035541, AK082853, BY237302

Consensus CDS

CCDS39103.1

UniProtKB/Swiss-Prot

Q5IRJ6, Q9JK46

Related

ENSMUSP00000124047.2, ENSMUST00000162372.8

Conserved Domains (3) summary

TIGR00598
Location:123 → 208

rad14; DNA repair protein

pfam01545
Location:250 → 449

Cation_efflux; Cation efflux family

pfam12137
Location:509 → 567

RapA_C; RNA polymerase recycling family C-terminal