Slc13a5 solute carrier family 13 member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc13a5provided by RGD
Official Full Name: solute carrier family 13 member 5provided by RGD
Primary source: RGD:631374
See related: EnsemblRapid:ENSRNOG00000014870 AllianceGenome:RGD:631374
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: Nact
Summary: Enables citrate transmembrane transporter activity; sodium:dicarboxylate symporter activity; and succinate transmembrane transporter activity. Involved in citrate transport and succinate transport. Located in basolateral plasma membrane. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 25. Orthologous to human SLC13A5 (solute carrier family 13 member 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Testes (RPKM 86.7), Adrenal (RPKM 25.6) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 10q24

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (57364806..57389500, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (56866249..56891189, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (58806581..58835549, complement)

Chromosome 10 - NC_086028.1 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 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?

These data suggest that inducible liver-selective reduction of mIndy in rats is able to ameliorate hepatic steatosis and insulin resistance, conditions occurring with high calorie diets and during aging.
Title: Prevention of diet-induced hepatic steatosis and hepatic insulin resistance by second generation antisense oligonucleotides targeted to the longevity gene mIndy (Slc13a5).
This study thus identified the Slc13a5 as an AhR target gene
Title: Arylhydrocarbon receptor-dependent mIndy (Slc13a5) induction as possible contributor to benzo[a]pyrene-induced lipid accumulation in hepatocytes.
suggest that mIndy is a CREB-dependent glucagon target gene that is induced in fasting and in type 2 diabetes
Title: The mammalian INDY homolog is induced by CREB in a rat model of type 2 diabetes.
Expression and function of NaCT in a cell line and in primary hepatocytes from rat liver.
Title: Expression and functional features of NaCT, a sodium-coupled citrate transporter, in human and rat livers and cell lines.
NaCT is expressed in liver, testis and brain in rat and shows preference for citrate over dicarboxylates; it may play a role in cellular utilization of citrate in blood for the synthesis of fatty acids and cholesterol and for the generation of energy
Title: Structure, function, and expression pattern of a novel sodium-coupled citrate transporter (NaCT) cloned from mammalian brain.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables citrate transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables citrate transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables citrate transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables citrate transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables organic acid:sodium symporter activity	IDA Inferred from Direct Assay more info	PubMed
enables organic acid:sodium symporter activity	IEA Inferred from Electronic Annotation more info
enables organic acid:sodium symporter activity	ISO Inferred from Sequence Orthology more info
enables sodium:dicarboxylate symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables sodium:dicarboxylate symporter activity	IDA Inferred from Direct Assay more info	PubMed
enables solute:sodium symporter activity	IEA Inferred from Electronic Annotation more info
enables succinate transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables succinate transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables succinate transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables succinate transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables tricarboxylic acid transmembrane transporter activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in alpha-ketoglutarate transport	IEA Inferred from Electronic Annotation more info
involved_in alpha-ketoglutarate transport	ISO Inferred from Sequence Orthology more info
involved_in alpha-ketoglutarate transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to lithium ion	IEA Inferred from Electronic Annotation more info
involved_in cellular response to lithium ion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to lithium ion	ISS Inferred from Sequence or Structural Similarity more info
involved_in citrate transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in citrate transport	IDA Inferred from Direct Assay more info	PubMed
involved_in citrate transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within citrate transport	ISO Inferred from Sequence Orthology more info
involved_in citrate transport	ISO Inferred from Sequence Orthology more info
involved_in fumarate transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in fumarate transport	IEA Inferred from Electronic Annotation more info
involved_in fumarate transport	ISO Inferred from Sequence Orthology more info
involved_in fumarate transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in oxaloacetate transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in oxaloacetate transport	IEA Inferred from Electronic Annotation more info
involved_in oxaloacetate transport	ISO Inferred from Sequence Orthology more info
involved_in oxaloacetate transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in succinate transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in succinate transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in succinate transport	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within succinate transport	ISO Inferred from Sequence Orthology more info
involved_in succinate transport	ISO Inferred from Sequence Orthology more info
involved_in transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in tricarboxylic acid transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tricarboxylic acid transmembrane transport	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within tricarboxylic acid transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in basolateral plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: Na(+)/citrate cotransporter

Names: sodium-coupled citrate transporter; sodium-dependent citrate transporter; solute carrier family 13 (sodium-dependent citrate transporter), member 5

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_170668.3 → NP_733768.1 Na(+)/citrate cotransporter

See identical proteins and their annotated locations for NP_733768.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/Swiss-Prot

Q8CJ44

UniProtKB/TrEMBL

A0A8I6ACH3, A6HGE4

Related

ENSRNOP00000090194.1, ENSRNOT00000103921.2

Conserved Domains (1) summary

cl21473
Location:34 → 558

ArsB_NhaD_permease; Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices ...

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_086028.1 Reference GRCr8

Range

57364806..57389500 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006246602.5 → XP_006246664.1 Na(+)/citrate cotransporter isoform X1

UniProtKB/TrEMBL

A0A0H2UHM2, A0A8I6ACH3

Related

ENSRNOP00000020043.2, ENSRNOT00000020043.5

Conserved Domains (2) summary

COG0471
Location:71 → 589

CitT; Di- and tricarboxylate transporter [Carbohydrate transport and metabolism]

cl21473
Location:72 → 596

ArsB_NhaD_permease; Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices ...