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Slc9a6 Gene Detail
Summary
  • Symbol
    Slc9a6
  • Name
    solute carrier family 9 (sodium/hydrogen exchanger), member 6
  • Synonyms
    6430520C02Rik, mKIAA0267, NHE6
  • Feature Type
    protein coding gene
  • IDs
    MGI:2443511
    NCBI Gene: 236794
  • Alliance
    genome feature page
  • Transcription Start Sites
    2 TSS
Location &
Maps
more
  • Sequence Map
    ChrX:55655117-55709590 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome X, 30.06 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    999 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_2443511
 protein coding gene ChrX:55654921-55709590 (+)
129S1/SvImJ ENSMUSG00200037532
 protein coding gene ChrX:37980814-38035271 (+)
A/J ENSMUSG00195015207
 protein coding gene ChrX:41415171-41469640 (+)
AKR/J ENSMUSG00220036195
 protein coding gene ChrX:37306752-37361213 (+)
BALB/cJ ENSMUSG00180033856
 protein coding gene ChrX:38047413-38101884 (+)
C3H/HeJ ENSMUSG00175038243
 protein coding gene ChrX:41573183-41627653 (+)
C57BL/6NJ ENSMUSG00215046175
 protein coding gene ChrX:38239376-38293833 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0033089
 protein coding gene ChrX:51541652-51596420 (+)
CAST/EiJ ENSTCUG00005036294
 protein coding gene ChrX:39890036-39945176 (+)
CBA/J ENSMUSG00210036568
 protein coding gene ChrX:38410091-38464546 (+)
DBA/2J ENSMUSG00185034619
 protein coding gene ChrX:50727551-50782012 (+)
FVB/NJ ENSMUSG00205019561
 protein coding gene ChrX:38073587-38128058 (+)
JF1/MsJ ENSUMUG00000019630
 protein coding gene ChrX:71617434-71675192 (+)
LP/J ENSMUSG00230027768
 protein coding gene ChrX:57257759-57312212 (+)
NOD/ShiLtJ ENSMUSG00190028362
 protein coding gene ChrX:37740249-37794706 (+)
NZO/HlLtJ ENSMUSG00225032131
 protein coding gene ChrX:62498756-62553213 (+)
PWK/PhJ ENSLUMG00010039001
 protein coding gene ChrX:37572748-37630553 (+)
SPRET/EiJ ENSMSPG00010021649
 protein coding gene ChrX:40100892-40155230 (+)
WSB/EiJ ENSIUOG00005044147
 protein coding gene ChrX:38691612-38746101 (+)



Homology
more
  • Human Ortholog
    SLC9A6, solute carrier family 9 member A6
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SLC9A6, solute carrier family 9 member A6
  • Synonyms
    MRSA, MRXSCH, NDPACX, NHE6
  • Links
    NCBI Gene ID: 10479
    UniProt: Q92581

  • Chr Location
    Xq26.3; chrX:135973837-136047269 (+)  GRCh38
Human Diseases
more
  • Diseases
    1 with Slc9a6 mouse models; 1 with human SLC9A6 associations

Human Disease Mouse Models
      
IDs
 View 3 models
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    1 with disease annotations
  • References
    3 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    31 phenotypes from 2 alleles in 3 genetic backgrounds
    19 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Male mice hemizygous for a targeted mutation display hyperactivity and susceptibility to pharmacologically induced seizures.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    72
  • GO References
    12
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    852
  • Tissues
    115
  • cDNA Data
    8
  • Literature Summary
    4
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000060681 Ensembl Gene Model | MGI Sequence Detail 54474 C57BL/6J ±  kb
    transcript ENSMUST00000077741 Ensembl | MGI Sequence Detail 4976 Not Applicable  
    polypeptide ENSMUSP00000076922 Ensembl | MGI Sequence Detail 702 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 10
      cDNA 8
      Primer pair 2

      Microarray probesets 4
    References
    more
    • Summaries
      All 50
      Developmental Gene Expression 4
      Diseases 3
      Gene Ontology 12
      Phenotypes 19
    • Earliest
      J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
    • Latest
      J:367974 Gao AYL, et al., Impaired hippocampal plasticity associated with loss of recycling endosomal SLC9A6/NHE6 is ameliorated by the TrkB agonist 7,8-dihydroxyflavone. Biochim Biophys Acta Mol Basis Dis. 2024 Sep 27;1871(1):167529
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/08/2026
    MGI 6.24     		The Jackson Laboratory