Slc12a6 solute carrier family 12, member 6 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc12a6provided by RGD
Official Full Name: solute carrier family 12, member 6provided by RGD
Primary source: RGD:1311335
See related: Ensembl:ENSRNOG00000005196 AllianceGenome:RGD:1311335
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: Kcc3
Summary: Predicted to enable ammonium transmembrane transporter activity; potassium:chloride symporter activity; and protein kinase binding activity. Predicted to be involved in several processes, including cellular hypotonic salinity response; inorganic ion homeostasis; and inorganic ion transmembrane transport. Predicted to be located in axon and basolateral plasma membrane. Human ortholog(s) of this gene implicated in agenesis of the corpus callosum with peripheral neuropathy. Orthologous to human SLC12A6 (solute carrier family 12 member 6). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 168.5), Spleen (RPKM 167.6) and 9 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 3q35

Exon count:: 27

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (119525521..119624655)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (99071577..99170266)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (103752213..103852686)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data are consistent with a role for KCC3 in the proximal tubule glucose reabsorption mechanism.
Title: Molecular evidence for a role for K(+)-Cl(-) cotransporters in the kidney.
Genetic silencing of KCC3 with short hairpin interfering RNA reduced protein expression by 40 - 60%, K(+) influx by ~50%, and cell motility by ~50%.
Title: High-grade glioma motility reduced by genetic knockdown of KCC3.
these results suggest that cholesterol is essential for eliciting up-regulation of Na(+),K(+)-ATPase activity by KCC3a in the KCC3a-alpha1NaK complex.
Title: Role of cholesterol in functional association between K(+)-Cl(-) cotransporter-3a and Na+,K(+)-ATPase.
these results suggest that the NH(2)-terminus of KCC3a is a key region for association with alpha1NaK, and that KCC3a but not KCC3b can regulate the Na(+),K(+)-ATPase activity.
Title: The NH(2)-terminus of K(+)-Cl(-) cotransporter 3a is essential for up-regulation of Na(+),K(+)-ATPase activity.
KCC3a forms a functional complex with alpha1NaK in the basolateral membrane of luminal parietal cells, and it up-regulates alpha1NaK in lipid rafts, whereas KCC3a is absent in basal parietal cells
Title: K+-Cl- Cotransporter-3a Up-regulates Na+,K+-ATPase in Lipid Rafts of Gastric Luminal Parietal Cells.
distribution of KCC1, KCC3a, KCC3b, KCC4, and KCC2 protein and mrna in pancreatic alpha-cells and beta-cells; KCC's make a significant contribution to volume homeostasis only in alpha-cells
Title: Expression of K+-Cl- cotransporters in the alpha-cells of rat endocrine pancreas.
show a more restricted expression of KCC3a in the hippocampus, choroid plexus and piriform cortex.
Title: KCC3 and KCC4 expression in rat adult forebrain.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

RH129702 (e-PCR)
- UniSTS:212998

BE114428 (e-PCR)
- UniSTS:261384

RH127577 (e-PCR)
- UniSTS:210887

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ammonium transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables potassium ion transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables potassium:chloride symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables potassium:chloride symporter activity	ISO Inferred from Sequence Orthology more info
enables protein kinase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in ammonium import across plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in cell volume homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell volume homeostasis	ISO Inferred from Sequence Orthology more info
involved_in cellular hypotonic response	ISO Inferred from Sequence Orthology more info
involved_in cellular hypotonic salinity response	ISO Inferred from Sequence Orthology more info
involved_in cellular response to glucose stimulus	ISO Inferred from Sequence Orthology more info
involved_in chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in chloride transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in monoatomic ion transport	ISO Inferred from Sequence Orthology more info
involved_in potassium ion homeostasis	IBA Inferred from Biological aspect of Ancestor more info
involved_in potassium ion homeostasis	ISO Inferred from Sequence Orthology more info
involved_in potassium ion import across plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
involved_in potassium ion import across plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in potassium ion transmembrane transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
NOT located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in axon	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

Go to the top of the page Help

Preferred Names: solute carrier family 12 member 6

Names: furosemide-sensitive KCl cotransporter 3

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001109630.1 → NP_001103100.1 solute carrier family 12 member 6

See identical proteins and their annotated locations for NP_001103100.1

Status: PROVISIONAL

Source sequence(s)

CH473949

UniProtKB/TrEMBL

A6HP46, G3V6N7

Related

ENSRNOP00000007144.6, ENSRNOT00000007144.7

Conserved Domains (3) summary

TIGR00930
Location:109 → 1150

2a30; K-Cl cotransporter

pfam03522
Location:774 → 1150

SLC12; Solute carrier family 12

cl00456
Location:209 → 360

SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding 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_086021.1 Reference GRCr8

Range

119525521..119624655

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063284594.1 → XP_063140664.1 solute carrier family 12 member 6 isoform X1

UniProtKB/TrEMBL

A6HP46
XM_006234710.5 → XP_006234772.1 solute carrier family 12 member 6 isoform X2

UniProtKB/TrEMBL

A0A8I5ZZ36, G3V6N7

Related

ENSRNOP00000084986.1

Conserved Domains (3) summary

TIGR00930
Location:94 → 1135

2a30; K-Cl cotransporter

pfam03522
Location:759 → 1135

SLC12; Solute carrier family 12

cl00456
Location:194 → 345

SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
XM_006234711.5 → XP_006234773.1 solute carrier family 12 member 6 isoform X3

See identical proteins and their annotated locations for XP_006234773.1

UniProtKB/TrEMBL

A0A8I5Y638, A0A8I6A5L1, A6HP47

Related

ENSRNOP00000077276.1

Conserved Domains (3) summary

TIGR00930
Location:58 → 1099

2a30; K-Cl cotransporter

pfam03522
Location:723 → 1099

SLC12; Solute carrier family 12

cl00456
Location:158 → 309

SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain