Slc39a13 solute carrier family 39 (metal ion transporter), member 13 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Slc39a13provided by MGI
Official Full Name: solute carrier family 39 (metal ion transporter), member 13provided by MGI
Primary source: MGI:MGI:1915677
See related: Ensembl:ENSMUSG00000002105 AllianceGenome:MGI:1915677
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: ZIP13; ZIP-13; 1100001L14Rik
Summary: Predicted to enable protein homodimerization activity and zinc ion transmembrane transporter activity. Involved in several processes, including brown fat cell differentiation; intracellular zinc ion homeostasis; and zinc ion transmembrane transport. Located in Golgi apparatus and perinuclear region of cytoplasm. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome and Ehlers-Danlos syndrome spondylodysplastic type 3. Orthologous to human SLC39A13 (solute carrier family 39 member 13). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Ubiquitous expression in limb E14.5 (RPKM 17.2), lung adult (RPKM 14.9) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 2 E1; 2 50.44 cM

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	2	NC_000068.8 (90892136..90900754, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	2	NC_000068.7 (91061781..91070441, complement)

Chromosome 2 - NC_000068.8 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?

Possible involvement of zinc transporter ZIP13 in myogenic differentiation.
Title: Possible involvement of zinc transporter ZIP13 in myogenic differentiation.
Downregulation of the zinc transporter SLC39A13 (ZIP13) is responsible for the activation of CaMKII at reperfusion and leads to myocardial ischemia/reperfusion injury in mouse hearts.
Title: Downregulation of the zinc transporter SLC39A13 (ZIP13) is responsible for the activation of CaMKII at reperfusion and leads to myocardial ischemia/reperfusion injury in mouse hearts.
Loss of the dermis zinc transporter ZIP13 promotes the mildness of fibrosarcoma by inhibiting autophagy.
Title: Loss of the dermis zinc transporter ZIP13 promotes the mildness of fibrosarcoma by inhibiting autophagy.
we have clarified the functional differences between ZIP7 and ZIP13 and show that their different regulation of cellular zinc homeostasis is critical for dermal development and homeostasis.
Title: Different Actions of Intracellular Zinc Transporters ZIP7 and ZIP13 Are Essential for Dermal Development.
Both gain- and loss-of-function studies showed that an accumulation of the CCAAT/enhancer binding protein-beta (C/EBP-beta) protein, which cooperates with dominant transcriptional co-regulator PR domain containing 16 (PRDM16) to determine brown/beige adipocyte lineage, is essential for the enhanced adipocyte browning caused by the loss of ZIP13
Title: Zinc transporter ZIP13 suppresses beige adipocyte biogenesis and energy expenditure by regulating C/EBP-β expression.
This study concluded that skin fragility due to defective ZIP13 protein may be attributable to impaired extracellular matrix synthesis accompanied by abnormal peripheral TGF-beta homeostasis.
Title: Comparative study of dermal components and plasma TGF-β1 levels in Slc39a13/Zip13-KO mice.
The Slc39a13-KO mouse represents a novel animal model linking zinc metabolism, BMP/TGF-beta signaling and connective tissue dysfunction.
Title: The zinc transporter SLC39A13/ZIP13 is required for connective tissue development; its involvement in BMP/TGF-beta signaling pathways.

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Variation

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Alleles

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

Endonuclease-mediated (2)
Gene trapped (1)
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:492182

NoName (e-PCR)
- UniSTS:234449

RH130983 (e-PCR)
- UniSTS:214266

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables protein homodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein homodimerization 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	IC Inferred by Curator more info	PubMed
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 brown fat cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in connective tissue development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in connective tissue development	ISO Inferred from Sequence Orthology more info
involved_in intracellular zinc ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in intracellular zinc ion homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular zinc ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in zinc ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in zinc ion transmembrane transport	IMP Inferred from Mutant Phenotype more info	PubMed
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
involved_in zinc ion transport	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IDA Inferred from Direct Assay more info	PubMed
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: zinc transporter ZIP13

Names: solute carrier family 39 member 13; zrt- and Irt-like protein 13

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_001290765.2 → NP_001277694.1 zinc transporter ZIP13 isoform a precursor

See identical proteins and their annotated locations for NP_001277694.1

Status: VALIDATED

Description

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

Source sequence(s)

AL691439

Consensus CDS

CCDS71095.1

UniProtKB/Swiss-Prot

Q8BZH0

Related

ENSMUSP00000107063.3, ENSMUST00000111436.3

Conserved Domains (1) summary

pfam02535
Location:65 → 369

Zip; ZIP Zinc transporter
NM_026721.4 → NP_080997.1 zinc transporter ZIP13 isoform b precursor

See identical proteins and their annotated locations for NP_080997.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.

Source sequence(s)

AL691439

Consensus CDS

CCDS16424.1

UniProtKB/Swiss-Prot

B7ZCF2, Q497M5, Q8BZH0, Q8VDX1, Q9D1R4

UniProtKB/TrEMBL

B2RQ45

Related

ENSMUSP00000073263.6, ENSMUST00000073575.12

Conserved Domains (1) summary

pfam02535
Location:65 → 356

Zip; ZIP Zinc transporter

RNA

NR_110981.2 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (3) lacks two internal exons and uses an alternate splice site, compared to variant 1. This variant is represented as non-coding becuase the predicted protein does not meet RefSeq quality criteria.

Source sequence(s)

AL691439

Related

ENSMUST00000079976.10

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000068.8 Reference GRCm39 C57BL/6J

Range

90892136..90900754 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006500101.4 → XP_006500164.1 zinc transporter ZIP13 isoform X4

Conserved Domains (1) summary

pfam02535
Location:65 → 322

Zip; ZIP Zinc transporter
XM_030252030.2 → XP_030107890.1 zinc transporter ZIP13 isoform X5

Conserved Domains (1) summary

pfam02535
Location:44 → 189

Zip; ZIP Zinc transporter
XM_030252029.2 → XP_030107889.1 zinc transporter ZIP13 isoform X5

Conserved Domains (1) summary

pfam02535
Location:44 → 189

Zip; ZIP Zinc transporter
XM_006500100.4 → XP_006500163.1 zinc transporter ZIP13 isoform X3

Conserved Domains (1) summary

pfam02535
Location:65 → 335

Zip; ZIP Zinc transporter
XM_017319236.3 → XP_017174725.1 zinc transporter ZIP13 isoform X2

UniProtKB/Swiss-Prot

B7ZCF2, Q497M5, Q8BZH0, Q8VDX1, Q9D1R4

UniProtKB/TrEMBL

B2RQ45

Conserved Domains (1) summary

pfam02535
Location:65 → 356

Zip; ZIP Zinc transporter
XM_006500099.5 → XP_006500162.1 zinc transporter ZIP13 isoform X1

See identical proteins and their annotated locations for XP_006500162.1

UniProtKB/Swiss-Prot

Q8BZH0

Conserved Domains (1) summary

pfam02535
Location:65 → 369

Zip; ZIP Zinc transporter
XM_036162524.1 → XP_036018417.1 zinc transporter ZIP13 isoform X1

Conserved Domains (1) summary

pfam02535
Location:65 → 369

Zip; ZIP Zinc transporter
XM_030252031.2 → XP_030107891.1 zinc transporter ZIP13 isoform X6

Conserved Domains (1) summary

pfam02535
Location:65 → 295

Zip; ZIP Zinc transporter