Slc8a3 solute carrier family 8 member A3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc8a3provided by RGD
Official Full Name: solute carrier family 8 member A3provided by RGD
Primary source: RGD:620197
See related: EnsemblRapid:ENSRNOG00000029871 AllianceGenome:RGD:620197
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
Also known as: Ncx3
Summary: Enables calcium:monoatomic cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration and calcium:sodium antiporter activity. Involved in cellular response to cAMP; metal ion transport; and telencephalon development. Acts upstream of or within intracellular calcium ion homeostasis. Located in several cellular components, including dendritic spine; neuronal cell body; and sarcolemma. Is active in postsynaptic membrane. Biomarker of brain ischemia and status epilepticus. Orthologous to human SLC8A3 (solute carrier family 8 member A3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Muscle (RPKM 85.2), Brain (RPKM 77.9) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q24

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (106605611..106739208, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (100874359..101007989, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (104889500..105099408, complement)

Chromosome 6 - NC_086024.1 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: 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?

This cardioprotective effect was potentially achieved via up-regulating p-AKT and SLC8A3.
Title: Protective effects of echinacoside against anoxia/reperfusion injury in H9c2 cells via up-regulating p-AKT and SLC8A3.
Data show a general mechanism for regulatory coupling associated with Ca2+ interactions with regulatory CBD domains of NCX1, NCX2, and NCX3 isoforms and their splice variants, where the dynamic effects of alternative splicing on conformational dynamics of the two-domain regulatory tandem (CBD12) control the contribution of a given isoform/splice variant to dynamic handling of cytosolic Ca2+ oscillations in many cell type.
Title: Structure-based dynamic arrays in regulatory domains of sodium-calcium exchanger (NCX) isoforms.
analyze the equilibrium and kinetic properties of Ca(2+) binding to purified preparations of CBD1, CBD2, and CBD12 from NCX2 and from NCX3 splice variants
Title: Kinetic and equilibrium properties of regulatory Ca(2+)-binding domains in sodium-calcium exchangers 2 and 3.
There is a significant reduction in NCX3 expression in rats with febrile convulsions.
Title: Na (+) /Ca (2+) Exchanger 3 is Downregulated in the Hippocampus and Cerebrocortex of Rats with Hyperthermia-induced Convulsion.
Ischemic preconditioning induced neuroprotection may occur through the modulation of calcium homeostasis in the endoplasmic reticulum and mitochondria through NO/PI3K/Akt-mediated NCX1 and NCX3 upregulation.
Title: Endoplasmic reticulum refilling and mitochondrial calcium extrusion promoted in neurons by NCX1 and NCX3 in ischemic preconditioning are determinant for neuroprotection.
This study demonstrated that the change in NCX3 in the cell body was associated with a decrease in NCX3 protein in the ganglia, an increase in the peripheral nerve (sciatic) yet no change in the central root.
Title: Trafficking of Na+/Ca2+ exchanger to the site of persistent inflammation in nociceptive afferents.
Ayloid beta mediates calpain cleavage of NCX3 in Alzheimer's disease brain.
Title: Calpain cleavage and inactivation of the sodium calcium exchanger-3 occur downstream of Aβ in Alzheimer's disease.
This study showed that normobaric hyperoxia changes the patterns of NCXs expression in the brain; up-regulates the expression of NCX3 in the in the spinal cord cord, penumbra and subcortex.
Title: Effects of preconditioning with normobaric hyperoxia on Na⁺/Ca²⁺ exchanger in the rat brain.
NCX3 in reverse mode was found to be another influx route for increasing [Ca2+]i, which might be involved in interstitial cells of Cajal-like cell excitability.
Title: Reverse mode of the sodium/calcium exchanger subtype 3 in interstitial cells of Cajal from rat bladder.
NCX isoforms (NCX1, NCX2, and NCX3) were expressed in primary cultured rat trigeminal ganglion neurons.
Title: Sodium-calcium exchangers in rat trigeminal ganglion neurons.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AU046738 (e-PCR)
- UniSTS:111178

AW742262 (e-PCR)
- UniSTS:208833

BE110255 (e-PCR)
- UniSTS:245220

BF413600 (e-PCR)
- UniSTS:248574

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium:monoatomic cation antiporter activity	ISO Inferred from Sequence Orthology more info
enables calcium:monoatomic cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration	IDA Inferred from Direct Assay more info	PubMed
enables calcium:monoatomic cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration	IMP Inferred from Mutant Phenotype more info	PubMed
enables calcium:monoatomic cation antiporter activity involved in regulation of postsynaptic cytosolic calcium ion concentration	NAS Non-traceable Author Statement more info	PubMed
enables calcium:sodium antiporter activity	EXP Inferred from Experiment more info	PubMed
enables calcium:sodium antiporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium:sodium antiporter activity	IDA Inferred from Direct Assay more info	PubMed
enables calcium:sodium antiporter activity	IEA Inferred from Electronic Annotation more info
enables calcium:sodium antiporter activity	ISO Inferred from Sequence Orthology more info
enables calmodulin binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in calcium ion export across plasma membrane	IDA Inferred from Direct Assay more info	PubMed
involved_in calcium ion homeostasis	IEA Inferred from Electronic Annotation more info
involved_in calcium ion import across plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium ion import across plasma membrane	IDA Inferred from Direct Assay more info	PubMed
involved_in calcium ion transmembrane transport	IGI Inferred from Genetic Interaction more info	PubMed
involved_in calcium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in calcium ion transport	IEA Inferred from Electronic Annotation more info
involved_in calcium ion transport into cytosol	IDA Inferred from Direct Assay more info	PubMed
involved_in cell communication	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cAMP	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to hypoxia	IEA Inferred from Electronic Annotation more info
involved_in cellular response to hypoxia	ISO Inferred from Sequence Orthology more info
involved_in cellular response to hypoxia	ISS Inferred from Sequence or Structural Similarity more info
involved_in hematopoietic progenitor cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intracellular calcium ion homeostasis	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within intracellular calcium ion homeostasis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within intracellular calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in intracellular calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in learning	IEA Inferred from Electronic Annotation more info
involved_in learning	ISO Inferred from Sequence Orthology more info
involved_in learning	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within learning or memory	ISO Inferred from Sequence Orthology more info
involved_in long-term synaptic potentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in long-term synaptic potentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in memory	IEA Inferred from Electronic Annotation more info
involved_in memory	ISO Inferred from Sequence Orthology more info
involved_in memory	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within metal ion transport	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial calcium ion homeostasis	IEA Inferred from Electronic Annotation more info
involved_in mitochondrial calcium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial calcium ion homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in mitochondrial calcium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in mitochondrial calcium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in mitochondrial calcium ion transmembrane transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in modulation of excitatory postsynaptic potential	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within modulation of excitatory postsynaptic potential	ISO Inferred from Sequence Orthology more info
involved_in myelination	IEA Inferred from Electronic Annotation more info
involved_in myelination	ISO Inferred from Sequence Orthology more info
involved_in myelination	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within negative regulation of protein serine/threonine kinase activity	ISO Inferred from Sequence Orthology more info
involved_in oligodendrocyte differentiation	IEA Inferred from Electronic Annotation more info
involved_in oligodendrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in oligodendrocyte differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of postsynaptic cytosolic calcium ion concentration	IEA Inferred from Electronic Annotation more info
involved_in regulation of skeletal muscle contraction	IEA Inferred from Electronic Annotation more info
involved_in regulation of skeletal muscle contraction	ISO Inferred from Sequence Orthology more info
involved_in regulation of skeletal muscle contraction	ISS Inferred from Sequence or Structural Similarity more info
involved_in sodium ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in sodium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transport	IDA Inferred from Direct Assay more info	PubMed
involved_in synapse organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within synapse organization	ISO Inferred from Sequence Orthology more info
involved_in telencephalon development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in anchoring junction	IEA Inferred from Electronic Annotation more info
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon	IEA Inferred from Electronic Annotation more info
located_in axon terminus	IEA Inferred from Electronic Annotation more info
located_in axon terminus	ISO Inferred from Sequence Orthology more info
located_in cell projection	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in dendritic spine	IDA Inferred from Direct Assay more info	PubMed
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 endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in microtubule	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial outer membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrial outer membrane	ISO Inferred from Sequence Orthology more info
located_in mitochondrial outer membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in mitochondrial outer membrane	TAS Traceable Author Statement more info
located_in neuromuscular junction	IEA Inferred from Electronic Annotation more info
located_in neuromuscular junction	ISO Inferred from Sequence Orthology more info
located_in neuromuscular junction	ISS Inferred from Sequence or Structural Similarity more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in perikaryon	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	IEA Inferred from Electronic Annotation more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in plasma membrane	IEA Inferred from Electronic Annotation 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
is_active_in postsynapse	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynapse	IEA Inferred from Electronic Annotation more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in sarcolemma	IBA Inferred from Biological aspect of Ancestor more info
located_in sarcolemma	IDA Inferred from Direct Assay more info	PubMed
located_in sarcolemma	IEA Inferred from Electronic Annotation more info
located_in sarcolemma	ISO Inferred from Sequence Orthology more info
located_in sarcoplasm	IEA Inferred from Electronic Annotation more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sodium/calcium exchanger 3

Names: Na(+)/Ca(2+)-exchange protein 3; solute carrier family 8 (sodium/calcium exchanger), member 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_078620.2 → NP_511175.1 sodium/calcium exchanger 3 precursor

See identical proteins and their annotated locations for NP_511175.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/Swiss-Prot

P70549

UniProtKB/TrEMBL

A6JDL8

Conserved Domains (4) summary

TIGR00845
Location:1 → 927

caca; sodium/calcium exchanger 1

pfam01699
Location:753 → 918

Na_Ca_ex; Sodium/calcium exchanger protein

pfam03160
Location:395 → 485

Calx-beta; Calx-beta domain

pfam16494
Location:253 → 374

Na_Ca_ex_C; C-terminal extension of sodium/calcium exchanger domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086024.1 Reference GRCr8

Range

106605611..106739208 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039111701.2 → XP_038967629.1 sodium/calcium exchanger 3 isoform X1

UniProtKB/TrEMBL

A0A8I6A8U6, A6JDL9

Related

ENSRNOP00000093954.2, ENSRNOT00000102013.2

Conserved Domains (1) summary

TIGR00845
Location:1 → 928

caca; sodium/calcium exchanger 1
XM_063261489.1 → XP_063117559.1 sodium/calcium exchanger 3 isoform X2

UniProtKB/Swiss-Prot

P70549

UniProtKB/TrEMBL

A6JDL8

Related

ENSRNOP00000041987.5, ENSRNOT00000048606.5
XM_063261491.1 → XP_063117561.1 sodium/calcium exchanger 3 isoform X5

UniProtKB/TrEMBL

A0A8L2QN54
XM_063261492.1 → XP_063117562.1 sodium/calcium exchanger 3 isoform X6
XM_063261490.1 → XP_063117560.1 sodium/calcium exchanger 3 isoform X5

UniProtKB/TrEMBL

A0A8L2QN54
XM_017593995.3 → XP_017449484.2 sodium/calcium exchanger 3 isoform X1

UniProtKB/TrEMBL

A0A8I6A8U6, A6JDL9

Conserved Domains (1) summary

TIGR00845
Location:1 → 928

caca; sodium/calcium exchanger 1
XM_017593993.3 → XP_017449482.1 sodium/calcium exchanger 3 isoform X5

UniProtKB/TrEMBL

A0A8L2QN54
XM_017593987.3 → XP_017449476.1 sodium/calcium exchanger 3 isoform X2

UniProtKB/Swiss-Prot

P70549

UniProtKB/TrEMBL

A6JDL8

Conserved Domains (4) summary

TIGR00845
Location:1 → 927

caca; sodium/calcium exchanger 1

pfam01699
Location:753 → 918

Na_Ca_ex; Sodium/calcium exchanger protein

pfam03160
Location:395 → 485

Calx-beta; Calx-beta domain

pfam16494
Location:253 → 374

Na_Ca_ex_C; C-terminal extension of sodium/calcium exchanger domain
XM_039111703.2 → XP_038967631.1 sodium/calcium exchanger 3 isoform X4

Conserved Domains (1) summary

TIGR00845
Location:1 → 922

caca; sodium/calcium exchanger 1
XM_039111702.2 → XP_038967630.1 sodium/calcium exchanger 3 isoform X3

Conserved Domains (1) summary

TIGR00845
Location:1 → 927

caca; sodium/calcium exchanger 1
XM_039111700.2 → XP_038967628.1 sodium/calcium exchanger 3 isoform X1

UniProtKB/TrEMBL

A0A8I6A8U6, A6JDL9

Conserved Domains (1) summary

TIGR00845
Location:1 → 928

caca; sodium/calcium exchanger 1