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slc12a2 solute carrier family 12 member 2 [ Danio rerio (zebrafish) ]

Gene ID: 415170, updated on 7-Apr-2025

Summary

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Official Symbol
slc12a2provided by ZNC
Official Full Name
solute carrier family 12 member 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-040625-53
See related
Ensembl:ENSDARG00000104573 AllianceGenome:ZFIN:ZDB-GENE-040625-53
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
BSC2; NKCC1; slc12a4; zgc:85961
Summary
Enables chloride:monoatomic cation symporter activity and identical protein binding activity. Acts upstream of or within inner ear morphogenesis and swim bladder inflation. Located in basolateral plasma membrane. Is expressed in several structures, including mesoderm; nervous system; notochord; otic vesicle; and pharyngeal arch. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 78 and middle cerebral artery infarction. Orthologous to human SLC12A2 (solute carrier family 12 member 2). [provided by Alliance of Genome Resources, Apr 2025]
Orthologs
human mouse all
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Genomic context

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See slc12a2 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (16225530..16309782)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (16347694..16385677, complement)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene proline-rich coiled-coil 1 Neighboring gene cortexin 3 Neighboring gene fibrillin 2a Neighboring gene uncharacterized LOC137496573 Neighboring gene long-chain fatty acid transport protein 6

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Role of Monovalent Ions in the NKCC1 Inhibition Mechanism Revealed through Molecular Simulations. Janoš P, et al. Int J Mol Sci, 2022 Dec 6. PMID 36499764, Free PMC Article
  2. Cryo-EM structures of DrNKCC1 and hKCC1: a new milestone in the physiology of cation-chloride cotransporters. Delpire E, et al. Am J Physiol Cell Physiol, 2020 Feb 1. PMID 31747317, Free PMC Article
  3. Structure and mechanism of the cation-chloride cotransporter NKCC1. Chew TA, et al. Nature, 2019 Aug. PMID 31367042, Free PMC Article
  4. Neurogenic role of the depolarizing chloride gradient revealed by global overexpression of KCC2 from the onset of development. Reynolds A, et al. J Neurosci, 2008 Feb 13. PMID 18272680, Free PMC Article
  5. Glycine is able to induce both a motility speed in- and decrease during zebrafish neuronal migration. Theisen U, et al. Commun Integr Biol, 2018. PMID 30214676, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. cryo-electron microscopy structure of the Na-K-Cl cotransporter NKCC1, an extensively studied member of the CCC family, from Danio rerio
    Title: Structure and mechanism of the cation-chloride cotransporter NKCC1.
  2. Results show that zebrafish little ears (lte) mutations correspond to lesions in Nkcc1.
    Title: Nkcc1 (Slc12a2) is required for the regulation of endolymph volume in the otic vesicle and swim bladder volume in the zebrafish larva.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables ammonium channel activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chloride:monoatomic cation symporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables chloride:monoatomic cation symporter activity IEA
Inferred from Electronic Annotation
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables sodium:potassium:chloride symporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables symporter activity IEA
Inferred from Electronic Annotation
more info
  
enables transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in ammonium transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cell volume homeostasis 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 transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within ear development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within inner ear morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within monoatomic ion transport IEA
Inferred from Electronic Annotation
more info
  
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
  
acts_upstream_of_or_within potassium ion transport IEA
Inferred from Electronic Annotation
more info
  
involved_in sodium ion homeostasis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in sodium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within sodium ion transport IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within swim bladder inflation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in apical plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in basolateral plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
solute carrier family 12 member 2
Names
Na-K-Cl cotransporter 1
bumetanide-sensitive sodium-(potassium)-chloride cotransporter 2
little ears
lte
solute carrier family 12 (potassium/chloride transporters), member 2
solute carrier family 12 (potassium/chloride transporters), member 4
solute carrier family 12 (sodium/potassium/chloride transporter), member 2
zfnkcc1
zmp:0000000537

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)

  1. NM_001002080.1 → NP_001002080.1  solute carrier family 12 member 2 isoform 1

    See identical proteins and their annotated locations for NP_001002080.1

    Status: PROVISIONAL

    Source sequence(s)
    BC071283
    UniProtKB/Swiss-Prot
    A0A0G2KGS0, A0A0G2KTI4, C7EA90, Q6IQW8
    Related
    ENSDARP00000135730.3, ENSDART00000169885.3
    Conserved Domains (4) summary
    TIGR00930
    Location:138 → 1136
    2a30; K-Cl cotransporter
    pfam03522
    Location:726 → 1136
    SLC12; Solute carrier family 12
    pfam08403
    Location:124 → 185
    AA_permease_N; Amino acid permease N-terminal
    cl02331
    Location:573 → 677
    Intg_mem_TP0381; Integral membrane protein (intg_mem_TP0381)

  2. NM_001163654.1 → NP_001157126.1  solute carrier family 12 member 2 isoform 2

    See identical proteins and their annotated locations for NP_001157126.1

    Status: PROVISIONAL

    Source sequence(s)
    GQ259737
    UniProtKB/Swiss-Prot
    A0A0G2KGS0, A0A0G2KTI4, C7EA90, Q6IQW8
    Related
    ENSDARP00000131505.2, ENSDART00000164647.2
    Conserved Domains (4) summary
    TIGR00930
    Location:138 → 1120
    2a30; K-Cl cotransporter
    pfam03522
    Location:726 → 1120
    SLC12; Solute carrier family 12
    pfam08403
    Location:124 → 185
    AA_permease_N; Amino acid permease N-terminal
    cl02331
    Location:573 → 677
    Intg_mem_TP0381; Integral membrane protein (intg_mem_TP0381)

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    16225530..16309782
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021479152.2 → XP_021334827.1  solute carrier family 12 member 2 isoform X1

    UniProtKB/Swiss-Prot
    A0A0G2KGS0, A0A0G2KTI4, C7EA90, Q6IQW8
    UniProtKB/TrEMBL
    A0A8M9PTH8
    Conserved Domains (1) summary
    TIGR00930
    Location:138 → 1134
    2a30; K-Cl cotransporter
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A0G2KTI4.3 GenPept UniProtKB/Swiss-Prot:A0A0G2KTI4

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.