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Aliases for SLC9A6 Gene

Aliases for SLC9A6 Gene

  • Solute Carrier Family 9, Subfamily A (NHE6, Cation Proton Antiporter 6), Member 6 2 3
  • NHE6 3 4 6
  • Solute Carrier Family 9 (Sodium/Hydrogen Exchanger), Member 6 2 3
  • Na(+)/H(+) Exchanger 6 3 4
  • Solute Carrier Family 9 (Sodium/Hydrogen Exchanger), Isoform 6 2
  • Solute Carrier Family 9 Member 6 4
  • Sodium/Hydrogen Exchanger 6 3
  • KIAA0267 4
  • NHE-6 4
  • MRSA 3

External Ids for SLC9A6 Gene

Previous GeneCards Identifiers for SLC9A6 Gene

  • GC0XM129708
  • GC0XP131913
  • GC0XP133012
  • GC0XP133773
  • GC0XP134793
  • GC0XP134895
  • GC0XP135068
  • GC0XP124341

Summaries for SLC9A6 Gene

Entrez Gene Summary for SLC9A6 Gene

  • This gene encodes a sodium-hydrogen exchanger that is amember of the solute carrier family 9. The encoded protein localizes to early and recycling endosomes and may be involved in regulating endosomal pH and volume. Defects in this gene are associated with X-linked syndromic mental retardation, Christianson type. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Apr 2010]

GeneCards Summary for SLC9A6 Gene

SLC9A6 (Solute Carrier Family 9, Subfamily A (NHE6, Cation Proton Antiporter 6), Member 6) is a Protein Coding gene. Diseases associated with SLC9A6 include mental retardation, x-linked syndromic, christianson type and christianson syndrome. Among its related pathways are CREB Pathway and TCR Signaling (Qiagen). GO annotations related to this gene include sodium:proton antiporter activity. An important paralog of this gene is SLC9A4.

UniProtKB/Swiss-Prot for SLC9A6 Gene

  • Electroneutral exchange of protons for Na(+) and K(+) across the early and recycling endosome membranes. Contributes to calcium homeostasis

Gene Wiki entry for SLC9A6 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLC9A6 Gene

Genomics for SLC9A6 Gene

Regulatory Elements for SLC9A6 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SLC9A6 Gene

135,985,424 bp from pter
136,047,269 bp from pter
61,846 bases
Plus strand

Genomic View for SLC9A6 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SLC9A6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC9A6 Gene

Proteins for SLC9A6 Gene

  • Protein details for SLC9A6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Sodium/hydrogen exchanger 6
    Protein Accession:
    Secondary Accessions:
    • A6NIQ9
    • A8K160
    • B4DU30
    • B7ZAE0
    • Q3ZCW7
    • Q5JPP8
    • Q5JPP9
    • Q86VS0

    Protein attributes for SLC9A6 Gene

    669 amino acids
    Molecular mass:
    74162 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for SLC9A6 Gene


neXtProt entry for SLC9A6 Gene

Proteomics data for SLC9A6 Gene at MOPED

Post-translational modifications for SLC9A6 Gene

Other Protein References for SLC9A6 Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for SLC9A6 Gene

Domains for SLC9A6 Gene

Gene Families for SLC9A6 Gene

Graphical View of Domain Structure for InterPro Entry



  • Q92581
  • Belongs to the monovalent cation:proton antiporter 1 (CPA1) transporter (TC 2.A.36) family.
genes like me logo Genes that share domains with SLC9A6: view

Function for SLC9A6 Gene

Molecular function for SLC9A6 Gene

GENATLAS Biochemistry: solute carrier protein family 9 (sodium/hydrogen exchange),member 6,ubiquitously expressed but most abundant in brain,skeletal muscle,heart,located in the mitochondrial inner membrane
UniProtKB/Swiss-Prot Function: Electroneutral exchange of protons for Na(+) and K(+) across the early and recycling endosome membranes. Contributes to calcium homeostasis

Gene Ontology (GO) - Molecular Function for SLC9A6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0015299 solute:proton antiporter activity --
GO:0015385 sodium:proton antiporter activity IEA --
genes like me logo Genes that share ontologies with SLC9A6: view

Phenotypes for SLC9A6 Gene

genes like me logo Genes that share phenotypes with SLC9A6: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SLC9A6

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SLC9A6 Gene

Localization for SLC9A6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC9A6 Gene

Endosome membrane; Multi-pass membrane protein. Note=Is present in the recycling compartments including early and recycling endosomes, and only appears transiently on the plasma membrane.

Subcellular locations from

Jensen Localization Image for SLC9A6 Gene COMPARTMENTS Subcellular localization image for SLC9A6 gene
Compartment Confidence
endoplasmic reticulum 5
endosome 5
plasma membrane 5
mitochondrion 1

Gene Ontology (GO) - Cellular Components for SLC9A6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 NOT mitochondrion IDA 11940519
GO:0005768 endosome --
GO:0005769 early endosome --
GO:0005770 late endosome IEA --
GO:0005789 endoplasmic reticulum membrane IDA 11641397
genes like me logo Genes that share ontologies with SLC9A6: view

Pathways for SLC9A6 Gene

genes like me logo Genes that share pathways with SLC9A6: view

Gene Ontology (GO) - Biological Process for SLC9A6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006810 transport TAS 9507001
GO:0006811 ion transport TAS --
GO:0006812 cation transport --
GO:0006814 sodium ion transport --
GO:0006885 regulation of pH IEA --
genes like me logo Genes that share ontologies with SLC9A6: view

Compounds for SLC9A6 Gene

(1) HMDB Compounds for SLC9A6 Gene

Compound Synonyms Cas Number PubMed IDs
  • Ca
genes like me logo Genes that share compounds with SLC9A6: view

Transcripts for SLC9A6 Gene

Unigene Clusters for SLC9A6 Gene

Solute carrier family 9, subfamily A (NHE6, cation proton antiporter 6), member 6:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SLC9A6

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for SLC9A6

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC9A6 Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11
SP1: -
SP2: -
SP3: -
SP4: -

Relevant External Links for SLC9A6 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SLC9A6 Gene

mRNA expression in normal human tissues for SLC9A6 Gene

mRNA differential expression in normal tissues according to GTEx for SLC9A6 Gene

This gene is overexpressed in Brain - Frontal Cortex (BA9) (4.3) and Brain - Anterior cingulate cortex (BA24) (4.0).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SLC9A6 Gene

SOURCE GeneReport for Unigene cluster for SLC9A6 Gene Hs.62185

mRNA Expression by UniProt/SwissProt for SLC9A6 Gene

Tissue specificity: Ubiquitous; but is most abundant in mitochondrion-rich tissues such as brain, skeletal muscle and heart
genes like me logo Genes that share expressions with SLC9A6: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for SLC9A6 Gene

Orthologs for SLC9A6 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SLC9A6 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SLC9A6 35
  • 99.87 (n)
  • 100 (a)
SLC9A6 36
  • 100 (a)
(Bos Taurus)
Mammalia SLC9A6 35
  • 93.2 (n)
  • 97.72 (a)
SLC9A6 36
  • 98 (a)
(Canis familiaris)
Mammalia SLC9A6 35
  • 92.34 (n)
  • 96.72 (a)
SLC9A6 36
  • 97 (a)
(Mus musculus)
Mammalia Slc9a6 35
  • 90.94 (n)
  • 96.57 (a)
Slc9a6 16
Slc9a6 36
  • 96 (a)
(Monodelphis domestica)
Mammalia SLC9A6 36
  • 87 (a)
(Ornithorhynchus anatinus)
Mammalia SLC9A6 36
  • 83 (a)
(Rattus norvegicus)
Mammalia Slc9a6 35
  • 89.57 (n)
  • 96.14 (a)
(Gallus gallus)
Aves SLC9A6 35
  • 79.76 (n)
  • 93.09 (a)
SLC9A6 36
  • 90 (a)
(Anolis carolinensis)
Reptilia SLC9A6 36
  • 79 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.31047 35
tropical clawed frog
(Silurana tropicalis)
Amphibia slc9a6 35
  • 77.22 (n)
  • 85.8 (a)
(Danio rerio)
Actinopterygii slc9a6a 35
  • 71.29 (n)
  • 79.17 (a)
slc9a6a 36
  • 76 (a)
slc9a6b 36
  • 71 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008718 35
  • 55.15 (n)
  • 54.28 (a)
fruit fly
(Drosophila melanogaster)
Insecta Nhe3 35
  • 56.85 (n)
  • 55.99 (a)
Nhe3 36
  • 45 (a)
Nhe3 37
  • 48 (a)
(Caenorhabditis elegans)
Secernentea nhx-5 35
  • 51.06 (n)
  • 44.54 (a)
nhx-5 36
  • 40 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes NHX1 36
  • 29 (a)
NHX1 38
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 57 (a)
Species with no ortholog for SLC9A6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SLC9A6 Gene

Gene Tree for SLC9A6 (if available)
Gene Tree for SLC9A6 (if available)

Paralogs for SLC9A6 Gene

Paralogs for SLC9A6 Gene

Selected SIMAP similar genes for SLC9A6 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SLC9A6: view

Variants for SLC9A6 Gene

Sequence variations from dbSNP and Humsavar for SLC9A6 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type MAF
rs10493 -- 136,046,851(+) GTCTG(A/T)GTTAC utr-variant-3-prime
rs952306 -- 135,992,154(+) GAATG(C/T)CCTTG intron-variant
rs952307 -- 135,992,232(+) CTTTC(A/G)TCTCC intron-variant
rs952308 -- 135,992,292(+) TTCTC(C/G)CCTCC intron-variant
rs978789 -- 136,032,626(-) TAGGC(A/G)TCTTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SLC9A6 Gene

Variant ID Type Subtype PubMed ID
esv785 CNV CNV 17122850
essv24688 CNV CNV 17122850

Relevant External Links for SLC9A6 Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)
Locus Specific Mutation Databases (LSDB)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLC9A6 Gene

Disorders for SLC9A6 Gene

(1) OMIM Diseases for SLC9A6 Gene (300231)


  • Mental retardation, X-linked, syndromic, Christianson type (MRXSCH) [MIM:300243]: A syndrome characterized by profound mental retardation, epilepsy, ataxia, and microcephaly. It shows phenotypic overlap with Angelman syndrome. {ECO:0000269 PubMed:18342287, ECO:0000269 PubMed:24123876}. Note=The disease is caused by mutations affecting the gene represented in this entry.

(1) University of Copenhagen DISEASES for SLC9A6 Gene

Relevant External Links for SLC9A6

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with SLC9A6: view

Publications for SLC9A6 Gene

  1. Identification of a mitochondrial Na+/H+ exchanger. (PMID: 9507001) Numata M. … Orlowski J. (J. Biol. Chem. 1998) 2 3 4
  2. Human Na(+)/H(+) exchanger isoform 6 is found in recycling endosomes of cells, not in mitochondria. (PMID: 11940519) Brett C.L. … Rao R. (Am. J. Physiol. 2002) 3 4 23
  3. SLC9A6 mutations cause X-linked mental retardation, microcephaly, epilepsy, and ataxia, a phenotype mimicking Angelman syndrome. (PMID: 18342287) Gilfillan G.D. … Stromme P. (Am. J. Hum. Genet. 2008) 3 4 23
  4. Prediction of the coding sequences of unidentified human genes. VI. The coding sequences of 80 new genes (KIAA0201-KIAA0280) deduced by analysis of cDNA clones from cell line KG-1 and brain. (PMID: 9039502) Nagase T. … Nomura N. (DNA Res. 1996) 3 4
  5. Tryptic digestion of ubiquitin standards reveals an improved strategy for identifying ubiquitinated proteins by mass spectrometry. (PMID: 17370265) Denis N.J. … Figeys D. (Proteomics 2007) 3 4

Products for SLC9A6 Gene

Sources for SLC9A6 Gene

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