Gene
SLC9A6
solute carrier family 9 member A6
- HGNC 11079(opens in a new tab)
- Ensembl gene ENSG00000198689(opens in a new tab)
- NCBI Gene 10479(opens in a new tab)
Summary
- Cytogenetic location
- Xq26.3
- Coordinates
- Chromosome X: 135,985,435–136,047,269 (GRCh38)
- Exons
- 18 exons across 61.8 kb
- Protein
- 679 amino acids
- Also known as
- NHE6, KIAA0267, NHE-6
- MANE Select transcript
- ENST00000630721.3NM_001379110.1
- Locus type
- gene with protein product
- Very high
- Confident
- Low
- Very low
Reference genomeGRCh38hg38
Positions on gene and variant pages follow this choice, in this browser.
Read SLC9A6, and the rest of your genome, with one test.
From $449Free shipping · Results in 6–8 weeks
Get my Genome TestCurated reports relevant to this gene
No Genome Test report reads SLC9A6 yet. The test sequences your whole genome, so your data includes it all the same.
How SLC9A6 is laid out
- Coding sequence
- Untranslated region
- Intron
- Direction of transcription
- Known disease-causing sites
- Stretches short reads find hard
Exons of the gene's MANE Select transcript (release v1.5), from NCBI and EMBL-EBI, on the GRCh38 reference genome.
Chromosome bands from UCSC's GRCh38 ideogram (2022-10-29).
Nearby genes from Ensembl release 116, on GRCh38.
Exons make up 4.7 kb of the gene's 61.8 kb; 2,040 of those bases code for the protein.
How a genome test reads SLC9A6
39
positions in SLC9A6 where ClinVar classes a change as pathogenic or likely pathogenic
None of them falls in a region short reads find hard.
A whole genome covers all 61.8 kb of SLC9A6, introns included, not only the 4.7 kb of exons.
Traits linked to SLC9A6
The Human Phenotype Ontology lists these as features of the rare conditions SLC9A6 can cause. Each trait's page lists the other genes linked to it.
Abnormality of the nervous system
- Absent speech development
- Ataxia
- Degeneration of cerebrum
- Difficulty performing quick and alternating movements
- Epilepsy
- Interictal epileptiform activity
- Parkinsonism
- Poor fine motor coordination
Show 34 more traits
- Profound global developmental delay
- Generalized-onset seizure
- Instability or lack of coordination of central trunk muscles
- IQ less than 20
- Loss of brain cells
- Loss of developmental milestones
- Severe global developmental delay
- Abnormal gait
- Aplasia/Hypoplasia of the corpus callosum
- Autism
- Conspicuously happy disposition
- Decrease in size of the outer layer of the brain due to loss of brain cells
- Degeneration of cerebellum
- Delayed motor skills
- EEG abnormality
- Glabellar reflex
- Hyperactive movements
- Inability to coordinate movements when walking
- Inability to speak
- Inappropriate laughter
- Increased reflexes
- Mental deterioration
- Postural tremor
- Repetitive movements
- Resting tremor
- Slow movements
- Ventriculomegaly
- Difficulty sleeping
- Epileptic encephalopathy
- Happy demeanor
- Intellectual disability
- Intellectual disability, severe
- Loss of ability to walk in first decade
- Photosensitive tonic-clonic seizure
Abnormality of head or neck
- Abnormally small head
- Drooling
- Long face
- Narrow face
- Open mouth
- Thick eyebrow
- Development of small head that was not present at birth
- Big lower jaw
Show 1 more trait
External links
Gene records
Transcript
Protein
Where this comes from
- HGNC: the gene's symbol, name, other symbols and location.
- MANE Select v1.5, from NCBI and EMBL-EBI: the transcript, its exons and coding sequence.
- ClinVar and the GIAB stratifications: known disease-causing sites, and the regions short reads find hard.
- The Human Phenotype Ontology, release 2026-09-01: the traits linked to the gene. Find out more at hpo.jax.org.
- Data release 2026.10.16-c6eea6bf.
Cite this page
Dante Labs. (n.d.). SLC9A6 gene: solute carrier family 9 member A6. Retrieved 17 October 2026, from https://dantelabs.com/genes/slc9a6
Dante Labs. SLC9A6 gene: solute carrier family 9 member A6 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/slc9a6
One test. A lifetime of answers.
From $449Free shipping · Results in 6–8 weeks