Human Gene SLC9A5 (ENST00000299798.16) from GENCODE V44
  Description: Homo sapiens solute carrier family 9 member A5 (SLC9A5), transcript variant 10, non-coding RNA. (from RefSeq NR_136667)
Gencode Transcript: ENST00000299798.16
Gencode Gene: ENSG00000135740.17
Transcript (Including UTRs)
   Position: hg38 chr16:67,248,979-67,272,191 Size: 23,213 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg38 chr16:67,249,015-67,271,210 Size: 22,196 Coding Exon Count: 16 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:67,248,979-67,272,191)mRNA (may differ from genome)Protein (896 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIneXtProtOMIM
PubMedReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SL9A5_HUMAN
DESCRIPTION: RecName: Full=Sodium/hydrogen exchanger 5; AltName: Full=Na(+)/H(+) exchanger 5; Short=NHE-5; AltName: Full=Solute carrier family 9 member 5;
FUNCTION: Involved in pH regulation to eliminate acids generated by active metabolism or to counter adverse environmental conditions. Major proton extruding system driven by the inward sodium ion chemical gradient. Plays an important role in signal transduction (By similarity).
SUBUNIT: Interacts with CHP1 and CHP2 (By similarity). Interacts with ARRB2.
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Expressed in brain, testis, spleen, and skeletal muscle.
PTM: Phosphorylated (Possible).
SIMILARITY: Belongs to the monovalent cation:proton antiporter 1 (CPA1) transporter (TC 2.A.36) family.
CAUTION: The number, localization and denomination of hydrophobic domains in the Na(+)/H(+) exchangers vary among authors.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SLC9A5
Diseases sorted by gene-association score: familial paroxysmal kinesigenic dyskinesia (6), episodic kinesigenic dyskinesia 1 (6), episodic kinesigenic dyskinesia 2 (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 21.28 RPKM in Spleen
Total median expression: 143.90 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -12.6036-0.350 Picture PostScript Text
3' UTR -428.50981-0.437 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR006153 - Cation/H_exchanger
IPR018422 - Cation/H_exchanger_CPA1
IPR018410 - Na/H_exchanger_3/5
IPR004709 - NaH_exchanger

Pfam Domains:
PF00999 - Sodium/hydrogen exchanger family

ModBase Predicted Comparative 3D Structure on Q14940
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0015297 antiporter activity
GO:0015299 solute:proton antiporter activity
GO:0015385 sodium:proton antiporter activity
GO:0015386 potassium:proton antiporter activity

Biological Process:
GO:0006811 ion transport
GO:0006812 cation transport
GO:0006814 sodium ion transport
GO:0006885 regulation of pH
GO:0051453 regulation of intracellular pH
GO:0055085 transmembrane transport
GO:0071805 potassium ion transmembrane transport
GO:0098719 sodium ion import across plasma membrane
GO:1902600 hydrogen ion transmembrane transport

Cellular Component:
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AB209203 - Homo sapiens mRNA for solute carrier family 9 (sodium/hydrogen exchanger), isoform 5 variant protein.
LF212230 - JP 2014500723-A/19733: Polycomb-Associated Non-Coding RNAs.
MA447807 - JP 2018138019-A/19733: Polycomb-Associated Non-Coding RNAs.
LF208273 - JP 2014500723-A/15776: Polycomb-Associated Non-Coding RNAs.
MA443850 - JP 2018138019-A/15776: Polycomb-Associated Non-Coding RNAs.
BC144131 - Homo sapiens cDNA clone IMAGE:9052651.
AF111173 - Homo sapiens sodium/hydrogen exchanger isoform 5 (SLC9A5) mRNA, complete cds.
BC150207 - Homo sapiens cDNA clone IMAGE:40148878.
BC142671 - Homo sapiens solute carrier family 9 (sodium/hydrogen exchanger), member 5, mRNA (cDNA clone MGC:164936 IMAGE:40148180), complete cds.
JD217659 - Sequence 198683 from Patent EP1572962.
JD462448 - Sequence 443472 from Patent EP1572962.
KJ892153 - Synthetic construct Homo sapiens clone ccsbBroadEn_01547 SLC9A5 gene, encodes complete protein.
LF374057 - JP 2014500723-A/181560: Polycomb-Associated Non-Coding RNAs.
MA609634 - JP 2018138019-A/181560: Polycomb-Associated Non-Coding RNAs.
AL137689 - Homo sapiens mRNA; cDNA DKFZp434N222 (from clone DKFZp434N222).
LF374067 - JP 2014500723-A/181570: Polycomb-Associated Non-Coding RNAs.
MA609644 - JP 2018138019-A/181570: Polycomb-Associated Non-Coding RNAs.
JD539300 - Sequence 520324 from Patent EP1572962.
JD336185 - Sequence 317209 from Patent EP1572962.
JD487014 - Sequence 468038 from Patent EP1572962.
JD427030 - Sequence 408054 from Patent EP1572962.
JD131431 - Sequence 112455 from Patent EP1572962.
JD412979 - Sequence 394003 from Patent EP1572962.
JD108997 - Sequence 90021 from Patent EP1572962.
JD528228 - Sequence 509252 from Patent EP1572962.
JD237314 - Sequence 218338 from Patent EP1572962.
JD408576 - Sequence 389600 from Patent EP1572962.
JD175113 - Sequence 156137 from Patent EP1572962.
JD244799 - Sequence 225823 from Patent EP1572962.
JD528675 - Sequence 509699 from Patent EP1572962.
JD299537 - Sequence 280561 from Patent EP1572962.
JD419435 - Sequence 400459 from Patent EP1572962.
JD092789 - Sequence 73813 from Patent EP1572962.
JD491163 - Sequence 472187 from Patent EP1572962.
JD065973 - Sequence 46997 from Patent EP1572962.
JD425652 - Sequence 406676 from Patent EP1572962.
JD277996 - Sequence 259020 from Patent EP1572962.
JD109490 - Sequence 90514 from Patent EP1572962.
JD249254 - Sequence 230278 from Patent EP1572962.
JD515362 - Sequence 496386 from Patent EP1572962.
JD149979 - Sequence 131003 from Patent EP1572962.
JD113845 - Sequence 94869 from Patent EP1572962.
JD555864 - Sequence 536888 from Patent EP1572962.
JD410670 - Sequence 391694 from Patent EP1572962.
JD068765 - Sequence 49789 from Patent EP1572962.
JD242110 - Sequence 223134 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q14940 (Reactome details) participates in the following event(s):

R-HSA-425994 Na+/H+ exchanger transport (at cell membrane)
R-HSA-425986 Sodium/Proton exchangers
R-HSA-425393 Metabolism of nitrogenous molecules
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: A5PKY7, ENST00000299798.1, ENST00000299798.10, ENST00000299798.11, ENST00000299798.12, ENST00000299798.13, ENST00000299798.14, ENST00000299798.15, ENST00000299798.2, ENST00000299798.3, ENST00000299798.4, ENST00000299798.5, ENST00000299798.6, ENST00000299798.7, ENST00000299798.8, ENST00000299798.9, NHE5, NR_136667, Q14940, Q9Y626, SL9A5_HUMAN, uc002esm.1, uc002esm.2, uc002esm.3, uc002esm.4, uc002esm.5
UCSC ID: ENST00000299798.16
RefSeq Accession: NM_004594
Protein: Q14940 (aka SL9A5_HUMAN)
CCDS: CCDS42178.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.