Slc8b1 solute carrier family 8 member B1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc8b1provided by RGD
Official Full Name: solute carrier family 8 member B1provided by RGD
Primary source: RGD:1565818
See related: Ensembl:ENSRNOG00000001383 AllianceGenome:RGD:1565818
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Slc24a6
Summary: Enables protein homodimerization activity. Predicted to be involved in several processes, including cellular calcium ion homeostasis; regulation of insulin secretion; and regulation of store-operated calcium entry. Predicted to act upstream of or within calcium ion transmembrane transport and sodium ion transmembrane transport. Located in mitochondrial crista and sarcolemma. Orthologous to human SLC8B1 (solute carrier family 8 member B1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Spleen (RPKM 118.5), Kidney (RPKM 69.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (41690333..41713657, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (36029759..36053087, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (41566980..41590294, complement)

Chromosome 12 - NC_086030.1 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?

neurons display reduced levels of the mitochondrial calcium transporter NCLX that can be restored by calcium-chelating agents and by external addition of frataxin fused to TAT peptide
Title: Mitochondrial pore opening and loss of Ca(2+) exchanger NCLX levels occur after frataxin depletion.
The results of this study indicated that SLC24A6 presents specific and remarkable alterations in both mRNA and protein levels after experimental intracerebral hemorrhage.
Title: Alteration of intracellular calcium and its modulator SLC24A6 after experimental intracerebral hemorrhage.

Submit: New GeneRIF Correction

General gene information

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Markers

RH130280 (e-PCR)
- UniSTS:213567

RH131571 (e-PCR)
- UniSTS:214854

Slc24a6 (e-PCR), detects polymorphism
- UniSTS:547031

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium:sodium antiporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium:sodium antiporter activity	ISO Inferred from Sequence Orthology more info
enables calcium:sodium antiporter activity	ISS Inferred from Sequence or Structural Similarity more info	PubMed
enables calcium:sodium antiporter activity involved in regulation of cardiac muscle cell membrane potential	ISO Inferred from Sequence Orthology more info
enables calcium:sodium antiporter activity involved in regulation of cardiac muscle cell membrane potential	ISS Inferred from Sequence or Structural Similarity more info
enables identical protein binding	IDA Inferred from Direct Assay more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in calcium export from the mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in calcium export from the mitochondrion	ISO Inferred from Sequence Orthology more info
involved_in calcium export from the mitochondrion	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within calcium ion transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in glucose homeostasis	ISO Inferred from Sequence Orthology more info
involved_in glucose homeostasis	ISS Inferred from Sequence or Structural Similarity more info
involved_in intracellular calcium ion homeostasis	IBA Inferred from Biological aspect of Ancestor 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	PubMed
acts_upstream_of_or_within mitochondrial calcium ion transmembrane transport	ISO Inferred from Sequence Orthology 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 regulation of cardiac muscle cell membrane potential	IEA Inferred from Electronic Annotation more info
involved_in regulation of cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
involved_in regulation of cytosolic calcium ion concentration	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in regulation of insulin secretion	ISO Inferred from Sequence Orthology more info
involved_in regulation of insulin secretion	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of lymphocyte chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in regulation of lymphocyte chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of store-operated calcium entry	ISO Inferred from Sequence Orthology more info
involved_in regulation of store-operated calcium entry	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within sodium ion transmembrane transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrial crista	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial crista	ISO Inferred from Sequence Orthology more info
located_in mitochondrial inner membrane	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial membrane	ISO Inferred from Sequence Orthology more info
located_in mitochondrial membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in mitochondrion	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in sarcolemma	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: mitochondrial sodium/calcium exchanger protein

Names: Na(+)/K(+)/Ca(2+)-exchange protein 6; sodium/calcium exchanger protein, mitochondrial; sodium/potassium/calcium exchanger 6, mitochondrial; solute carrier family 24 (sodium/lithium/calcium exchanger), member 6; solute carrier family 24 (sodium/potassium/calcium exchanger), member 6; solute carrier family 24 member 6; solute carrier family 8 (sodium/lithium/calcium exchanger), member B1

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_001017488.1 → NP_001017488.1 mitochondrial sodium/calcium exchanger protein precursor

See identical proteins and their annotated locations for NP_001017488.1

Status: PROVISIONAL

Source sequence(s)

BC079350

UniProtKB/Swiss-Prot

Q6AXS0

UniProtKB/TrEMBL

A0A8I6A2Y3, A6J1J0

Related

ENSRNOP00000034026.4, ENSRNOT00000038736.5

Conserved Domains (1) summary

PLN03151
Location:63 → 584

PLN03151; cation/calcium exchanger; Provisional

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_086030.1 Reference GRCr8

Range

41690333..41713657 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063271594.1 → XP_063127664.1 mitochondrial sodium/calcium exchanger protein isoform X2
XM_063271592.1 → XP_063127662.1 mitochondrial sodium/calcium exchanger protein isoform X1

UniProtKB/Swiss-Prot

Q6AXS0

UniProtKB/TrEMBL

A6J1J0