Slc12a5 solute carrier family 12 member 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc12a5provided by RGD
Official Full Name: solute carrier family 12 member 5provided by RGD
Primary source: RGD:620811
See related: EnsemblRapid:ENSRNOG00000018111 AllianceGenome:RGD:620811
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: Kcc2
Summary: Enables ammonium channel activity and potassium:chloride symporter activity. Involved in several processes, including inorganic cation transmembrane transport; postsynaptic neurotransmitter receptor diffusion trapping; and regulation of postsynapse assembly. Located in dendrite membrane and perikaryon. Is active in glutamatergic synapse. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 34 and idiopathic generalized epilepsy 14. Orthologous to human SLC12A5 (solute carrier family 12 member 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 187.7) and Adrenal (RPKM 17.7) See more
Orthologs: human mouse all
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Genomic context

Location:: 3q42

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (174115833..174155112)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (153696517..153735801)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (161433303..161465078)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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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?

Regulation of Neuronal Chloride Homeostasis by Pro- and Mature Brain-Derived Neurotrophic Factor (BDNF) via KCC2 Cation-Chloride Cotransporters in Rat Cortical Neurons.
Title: Regulation of Neuronal Chloride Homeostasis by Pro- and Mature Brain-Derived Neurotrophic Factor (BDNF) via KCC2 Cation-Chloride Cotransporters in Rat Cortical Neurons.
Suppression of HCN channels in the spinal dorsal horn restores KCC2 expression and attenuates diabetic neuropathic pain.
Title: Suppression of HCN channels in the spinal dorsal horn restores KCC2 expression and attenuates diabetic neuropathic pain.
NKCC1 and KCC2 Chloride Transporters Have Different Membrane Dynamics on the Surface of Hippocampal Neurons.
Title: NKCC1 and KCC2 Chloride Transporters Have Different Membrane Dynamics on the Surface of Hippocampal Neurons.
Preservation of KCC2 expression in axotomized abducens motoneurons and its enhancement by VEGF.
Title: Preservation of KCC2 expression in axotomized abducens motoneurons and its enhancement by VEGF.
Habenula as a Possible Target for Treatment-Resistant Depression Phenotype in Wistar Kyoto Rats.
Title: Habenula as a Possible Target for Treatment-Resistant Depression Phenotype in Wistar Kyoto Rats.
The effects of postnatal erythropoietin and nano-erythropoietin on behavioral alterations by mediating K-Cl co-transporter 2 in the valproic acid-induced rat model of autism.
Title: The effects of postnatal erythropoietin and nano-erythropoietin on behavioral alterations by mediating K-Cl co-transporter 2 in the valproic acid-induced rat model of autism.
Trifluoro-icaritin ameliorates spared nerve injury-induced neuropathic pain by inhibiting microglial activation through alpha7nAChR-mediated blockade of BDNF/TrkB/KCC2 signaling in the spinal cord of rats.
Title: Trifluoro-icaritin ameliorates spared nerve injury-induced neuropathic pain by inhibiting microglial activation through α7nAChR-mediated blockade of BDNF/TrkB/KCC2 signaling in the spinal cord of rats.
Severe inflammation in new-borns induces long-term cognitive impairment by activation of IL-1beta/KCC2 signaling during early development.
Title: Severe inflammation in new-borns induces long-term cognitive impairment by activation of IL-1β/KCC2 signaling during early development.
Partial ablation of frontal cortical subplate leads to developmental abnormalities in KCC2 in the prefrontal cortex.
Title: Partial ablation of frontal cortical subplate leads to developmental abnormalities in KCC2 in the prefrontal cortex.
Hippocampal chloride transporter KCC2 contributes to excitatory GABA dysregulation in the developmental rat model of schizophrenia.
Title: Hippocampal chloride transporter KCC2 contributes to excitatory GABA dysregulation in the developmental rat model of schizophrenia.

Submit: New GeneRIF Correction See all GeneRIFs (81)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BF403106 (e-PCR)
- UniSTS:246307

RH132314 (e-PCR)
- UniSTS:215597

RH131897 (e-PCR)
- UniSTS:215180

Slc12a5 (e-PCR), detects polymorphism
- UniSTS:496554

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ammonium channel activity	IDA Inferred from Direct Assay more info	PubMed
enables chloride transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables potassium:chloride symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables potassium:chloride symporter activity	IDA Inferred from Direct Assay more info	PubMed
enables potassium:chloride symporter activity	IEA Inferred from Electronic Annotation more info
enables potassium:chloride symporter activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ammonium transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
involved_in cell volume homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in chemical synaptic transmission	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in chloride ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in chloride transport	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within chloride transport	ISO Inferred from Sequence Orthology more info
involved_in dendritic spine development	IDA Inferred from Direct Assay more info	PubMed
involved_in dendritic spine development	IEA Inferred from Electronic Annotation more info
involved_in dendritic spine development	ISO Inferred from Sequence Orthology more info
involved_in hypotonic response	IEA Inferred from Electronic Annotation more info
involved_in hypotonic response	ISO Inferred from Sequence Orthology more info
involved_in hypotonic response	ISS Inferred from Sequence or Structural Similarity more info
involved_in intracellular chloride ion homeostasis	IEA Inferred from Electronic Annotation more info
involved_in intracellular chloride ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in intracellular pH reduction	IDA Inferred from Direct Assay more info	PubMed
involved_in learning	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within learning	ISO Inferred from Sequence Orthology more info
involved_in monoatomic ion transport	ISO Inferred from Sequence Orthology more info
involved_in multicellular organism growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic neurotransmitter receptor diffusion trapping	IDA Inferred from Direct Assay more info	PubMed
involved_in postsynaptic neurotransmitter receptor diffusion trapping	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in potassium ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in potassium ion import across plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in potassium ion transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
involved_in potassium ion transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in potassium ion transport	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of postsynapse assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of postsynapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to xenobiotic stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to xenobiotic stimulus	ISO Inferred from Sequence Orthology more info
involved_in thermosensory behavior	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within thermosensory behavior	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell periphery	ISO Inferred from Sequence Orthology more info
located_in dendrite membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IEA Inferred from Electronic Annotation more info
located_in neuronal cell body	ISO Inferred from Sequence Orthology more info
located_in perikaryon	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic specialization membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic specialization membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: solute carrier family 12 member 5

Names: K-Cl cotransporter 2; electroneutral potassium-chloride cotransporter 2; furosemide-sensitive K-Cl cotransporter; neuronal K-Cl cotransporter; neuronal-specific K-Cl cotransporter; solute carrier family 12 (potassium-chloride 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_001393675.1 → NP_001380604.1 solute carrier family 12 member 5 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

A7Y821, Q63633

UniProtKB/TrEMBL

F1LNP4

Related

ENSRNOP00000093106.2, ENSRNOT00000114972.2

Conserved Domains (1) summary

TIGR00930
Location:44 → 1139

2a30; K-Cl cotransporter
NM_134363.2 → NP_599190.1 solute carrier family 12 member 5 isoform 2

See identical proteins and their annotated locations for NP_599190.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6JXD2

Related

ENSRNOP00000024657.8, ENSRNOT00000024657.9

Conserved Domains (1) summary

TIGR00930
Location:21 → 1116

2a30; K-Cl cotransporter

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_086021.1 Reference GRCr8

Range

174115833..174155112

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039104204.2 → XP_038960132.1 solute carrier family 12 member 5 isoform X1

UniProtKB/TrEMBL

F1LNP4

Conserved Domains (1) summary

TIGR00930
Location:44 → 1134

2a30; K-Cl cotransporter
XM_039104209.2 → XP_038960137.1 solute carrier family 12 member 5 isoform X5

UniProtKB/TrEMBL

A6JXD2

Conserved Domains (1) summary

TIGR00930
Location:1 → 1072

2a30; K-Cl cotransporter
XM_039104206.2 → XP_038960134.1 solute carrier family 12 member 5 isoform X3

UniProtKB/TrEMBL

A6JXD2

Conserved Domains (1) summary

TIGR00930
Location:9 → 1104

2a30; K-Cl cotransporter
XM_039104205.2 → XP_038960133.1 solute carrier family 12 member 5 isoform X2

UniProtKB/TrEMBL

A6JXD2

Conserved Domains (1) summary

TIGR00930
Location:11 → 1106

2a30; K-Cl cotransporter
XM_039104208.2 → XP_038960136.1 solute carrier family 12 member 5 isoform X4

UniProtKB/TrEMBL

A6JXD2

Conserved Domains (1) summary

TIGR00930
Location:8 → 1103

2a30; K-Cl cotransporter