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Gene

SLC9A9

solute carrier family 9 member A9

Summary

Cytogenetic location
3q24
Coordinates
Chromosome 3: 143,265,222–143,848,468 (GRCh38)
Exons
16 exons across 583.2 kb
Protein
645 amino acids
Also known as
FLJ35613, NHE9
MANE Select transcript
ENST00000316549.11NM_173653.4
Locus type
gene with protein product
  • Very high
  • Confident
  • Low
  • Very low

Reference genomeGRCh38

Positions on gene and variant pages follow this choice, in this browser.

Curated reports relevant to this gene

No Genome Test report reads SLC9A9 yet. The test sequences your whole genome, so your data includes it all the same.

How SLC9A9 is laid out

  • Coding sequence
  • Untranslated region
  • Intron
  • Direction of transcription
  • Known disease-causing sites
  • Stretches short reads find hard
Chromosome 3, with a bracket where SLC9A9 sits. SLC9A9 and 7 genes near it on chromosome 3, from 142,681,975 to 144,431,715.Chromosome 33q24p26.3p26.2p26.1p25.3p25.2p25.1p24.3p24.2p24.1p23p22.3p22.2p22.1p21.33p21.32p21.31p21.2p21.1p14.3p14.2p14.1p13p12.3p12.2p12.1p11.2p11.1q11.1q11.2q12.1q12.2q12.3q13.11q13.12q13.13q13.2q13.31q13.32q13.33q21.1q21.2q21.3q22.1q22.2q22.3q23q24q25.1q25.2q25.31q25.32q25.33q26.1q26.2q26.31q26.32q26.33q27.1q27.2q27.3q28q29143 Mb143.5 Mb144 MbPLS1: 142,595,644–142,713,869, forward strandPLS1TRPC1: 142,724,000–142,807,888, forward strandTRPC1PCOLCE2: 142,815,922–142,889,211, reverse strandPCOLCE2PAQR9: 142,949,164–142,964,022, reverse strandPAQR9U2SURP: 142,964,497–143,061,401, forward strandU2SURPCHST2: 143,119,722–143,124,014, forward strandCHST2SLC9A9: 143,265,222–143,848,468, reverse strandSLC9A9DIPK2A: 143,971,816–144,048,719, forward strandDIPK2ADiagram of SLC9A9: 16 exons on the reverse strand of chromosome 3Exon 16: 1 known disease-causing siteExon 16: 143,265,222–143,266,929, 1,708 basesExon 15: 143,268,875–143,268,980, 106 basesExon 14: 143,363,484–143,363,563, 80 basesExon 13: 143,382,060–143,382,114, 55 basesExon 12: 143,467,037–143,467,190, 154 basesExon 11: 143,493,653–143,493,764, 112 basesExon 10: 143,495,335–143,495,448, 114 basesExon 9: 143,552,362–143,552,450, 89 basesExon 8: 143,574,088–143,574,193, 106 basesExon 7: 143,578,585–143,578,723, 139 basesExon 6: 143,652,255–143,652,360, 106 basesExon 5: 143,693,192–143,693,307, 116 basesExon 4: 143,795,001–143,795,077, 77 basesExon 3: 143,796,826–143,796,903, 78 basesExon 2: 143,832,019–143,832,221, 203 basesExon 1: 143,848,148–143,848,468, 321 bases16141210864215′3′

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 3.6 kb of the gene's 583.2 kb; 1,938 of those bases code for the protein.

How a genome test reads SLC9A9

1

position in SLC9A9 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 583.2 kb of SLC9A9, introns included, not only the 3.6 kb of exons.

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.
  • Data release 2026.10.16-c6eea6bf.

Cite this page

APA

Dante Labs. (n.d.). SLC9A9 gene: solute carrier family 9 member A9. Retrieved 17 October 2026, from https://dantelabs.com/genes/slc9a9

Vancouver

Dante Labs. SLC9A9 gene: solute carrier family 9 member A9 [Internet]. [cited 17 October 2026]. Available from: https://dantelabs.com/genes/slc9a9

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