Slc4a5 solute carrier family 4 member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc4a5provided by RGD
Official Full Name: solute carrier family 4 member 5provided by RGD
Primary source: RGD:1303009
See related: EnsemblRapid:ENSRNOG00000010378 AllianceGenome:RGD:1303009
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: NBC4
Summary: Predicted to enable sodium:bicarbonate symporter activity. Predicted to be involved in several processes, including bicarbonate transport; regulation of intracellular pH; and renal system process. Predicted to act upstream of or within several processes, including cerebrospinal fluid secretion; mitochondrion distribution; and retina development in camera-type eye. Located in basolateral plasma membrane. Orthologous to human SLC4A5 (solute carrier family 4 member 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Adrenal (RPKM 34.2), Lung (RPKM 15.1) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q34

Exon count:: 31

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (117267803..117368024)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (115710101..115810330)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (114918488..115002290)

Chromosome 4 - NC_086022.1 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?

the cotransporter plays a role in mediating Na(+)-HCO(3)(-) cotransport in hepatocytes and intrahepatic cholangiocytes. the cotransporter may play an important role in protecting the renal parenchyma from alterations in urine pH.
Title: Expression and localization of rat NBC4c in liver and renal uroepithelium.

Submit: New GeneRIF Correction

General gene information

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Markers

Slc4a5 (e-PCR), detects polymorphism
- UniSTS:547122

D4Rat180 (e-PCR), detects polymorphism
- UniSTS:227739

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables monoatomic anion transmembrane transporter activity	IEA Inferred from Electronic Annotation more info
enables sodium:bicarbonate symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables sodium:bicarbonate symporter activity	IEA Inferred from Electronic Annotation more info
enables sodium:bicarbonate symporter activity	ISO Inferred from Sequence Orthology more info
enables sodium:bicarbonate symporter activity	ISS Inferred from Sequence or Structural Similarity more info
enables solute:inorganic anion antiporter activity	IEA Inferred from Electronic Annotation more info
enables solute:inorganic anion antiporter activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in bicarbonate transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in bicarbonate transport	IEA Inferred from Electronic Annotation more info
involved_in cerebrospinal fluid secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebrospinal fluid secretion	ISO Inferred from Sequence Orthology more info
involved_in epithelial cell development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within epithelial cell development	ISO Inferred from Sequence Orthology more info
involved_in inorganic anion transport	IEA Inferred from Electronic Annotation more info
involved_in mitochondrion distribution	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mitochondrion distribution	ISO Inferred from Sequence Orthology more info
involved_in monoatomic anion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in monoatomic anion transport	TAS Traceable Author Statement more info	PubMed
acts_upstream_of_or_within monoatomic ion transport	ISO Inferred from Sequence Orthology more info
involved_in regulation of gene expression	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in regulation of intracellular pH	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of pH	TAS Traceable Author Statement more info	PubMed
involved_in regulation of systemic arterial blood pressure	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of systemic arterial blood pressure	ISO Inferred from Sequence Orthology more info
involved_in renal system process	IBA Inferred from Biological aspect of Ancestor more info
involved_in renal system process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within renal system process	ISO Inferred from Sequence Orthology more info
involved_in retina development in camera-type eye	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within retina development in camera-type eye	ISO Inferred from Sequence Orthology more info
involved_in sodium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	IEA Inferred from Electronic Annotation more info
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in apical plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in basolateral plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basolateral plasma membrane	IEA Inferred from Electronic Annotation more info
located_in lateral plasma membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: electrogenic sodium bicarbonate cotransporter 4

Names: electrogenic sodium bicarbonate cotransporter NBC4c; sodium bicarbonate transporter 4; solute carrier family 4, sodium bicarbonate cotransporter, 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_212512.2 → NP_997677.1 electrogenic sodium bicarbonate cotransporter 4

See identical proteins and their annotated locations for NP_997677.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/Swiss-Prot

Q6RI88

UniProtKB/TrEMBL

A0A8L2Q6Y5

Related

ENSRNOP00000074224.3, ENSRNOT00000082336.3

Conserved Domains (3) summary

TIGR00834
Location:113 → 1067

ae; anion exchange protein

pfam00955
Location:480 → 999

HCO3_cotransp; HCO3- transporter family

pfam07565
Location:140 → 407

Band_3_cyto; Band 3 cytoplasmic 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_086022.1 Reference GRCr8

Range

117267803..117368024

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039107330.2 → XP_038963258.1 electrogenic sodium bicarbonate cotransporter 4 isoform X1

UniProtKB/TrEMBL

A0A8L2Q6Y5

Related

ENSRNOP00000091246.2, ENSRNOT00000112426.2

Conserved Domains (1) summary

cl26877
Location:154 → 1108

Band_3_cyto; Band 3 cytoplasmic domain
XM_063285798.1 → XP_063141868.1 electrogenic sodium bicarbonate cotransporter 4 isoform X2

Related

ENSRNOP00000085872.1, ENSRNOT00000103469.2
XM_039107331.2 → XP_038963259.1 electrogenic sodium bicarbonate cotransporter 4 isoform X2

UniProtKB/TrEMBL

A0A8L2Q6Y5

Related

ENSRNOP00000014249.7, ENSRNOT00000014249.8

Conserved Domains (1) summary

cl26877
Location:154 → 1108

Band_3_cyto; Band 3 cytoplasmic domain
XM_039107333.2 → XP_038963261.1 electrogenic sodium bicarbonate cotransporter 4 isoform X3

UniProtKB/TrEMBL

L0N559

Conserved Domains (1) summary

cl26877
Location:7 → 952

Band_3_cyto; Band 3 cytoplasmic domain
XM_039107332.2 → XP_038963260.1 electrogenic sodium bicarbonate cotransporter 4 isoform X3

UniProtKB/TrEMBL

L0N559

Conserved Domains (1) summary

cl26877
Location:7 → 952

Band_3_cyto; Band 3 cytoplasmic domain