Human Gene SLC8A2 (ENST00000236877.11) from GENCODE V44
  Description: Homo sapiens solute carrier family 8 member A2 (SLC8A2), mRNA. (from RefSeq NM_015063)
Gencode Transcript: ENST00000236877.11
Gencode Gene: ENSG00000118160.14
Transcript (Including UTRs)
   Position: hg38 chr19:47,428,017-47,471,893 Size: 43,877 Total Exon Count: 10 Strand: -
Coding Region
   Position: hg38 chr19:47,430,089-47,466,403 Size: 36,315 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:47,428,017-47,471,893)mRNA (may differ from genome)Protein (921 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGIneXtProt
OMIMPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NAC2_HUMAN
DESCRIPTION: RecName: Full=Sodium/calcium exchanger 2; AltName: Full=Na(+)/Ca(2+)-exchange protein 2; Flags: Precursor;
FUNCTION: Rapidly transports Ca(2+) during excitation-contraction coupling. Ca(2+) is extruded from the cell during relaxation so as to prevent overloading of intracellular stores (By similarity).
ENZYME REGULATION: By ATP (By similarity).
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein.
SIMILARITY: Belongs to the sodium/potassium/calcium exchanger family. SLC8 subfamily.
SIMILARITY: Contains 2 Calx-beta domains.
SEQUENCE CAUTION: Sequence=BAA83039.1; Type=Erroneous initiation;

-  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


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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 86.46 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 329.24 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 -37.70121-0.312 Picture PostScript Text
3' UTR -775.502072-0.374 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
IPR003644 - Calx_beta
IPR004836 - Na_Ca_Ex
IPR004837 - NaCa_Exmemb

Pfam Domains:
PF03160 - Calx-beta domain
PF01699 - Sodium/calcium exchanger protein

ModBase Predicted Comparative 3D Structure on Q9UPR5
FrontTopSide
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:0005432 calcium:sodium antiporter activity
GO:0005516 calmodulin binding
GO:0015297 antiporter activity
GO:0046872 metal ion binding

Biological Process:
GO:0006811 ion transport
GO:0006814 sodium ion transport
GO:0006816 calcium ion transport
GO:0006874 cellular calcium ion homeostasis
GO:0007154 cell communication
GO:0007612 learning
GO:0007613 memory
GO:0035725 sodium ion transmembrane transport
GO:0048172 regulation of short-term neuronal synaptic plasticity
GO:0055085 transmembrane transport
GO:0060291 long-term synaptic potentiation
GO:0070588 calcium ion transmembrane transport
GO:1903779 regulation of cardiac conduction

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016323 basolateral plasma membrane
GO:0030425 dendrite
GO:0042995 cell projection
GO:0043197 dendritic spine
GO:0043204 perikaryon


-  Descriptions from all associated GenBank mRNAs
  AB029010 - Homo sapiens KIAA1087 mRNA for KIAA1087 protein.
AL512764 - Homo sapiens mRNA; cDNA DKFZp761D171 (from clone DKFZp761D171).
AK302552 - Homo sapiens cDNA FLJ54485 complete cds, highly similar to Sodium/calcium exchanger 2 precursor.
AK293457 - Homo sapiens cDNA FLJ58522 complete cds, highly similar to Sodium/calcium exchanger 2 precursor.
AK293836 - Homo sapiens cDNA FLJ58525 complete cds, highly similar to Sodium/calcium exchanger 2 precursor.
AK293860 - Homo sapiens cDNA FLJ58526 complete cds, highly similar to Sodium/calcium exchanger 2 precursor.
BC167838 - Synthetic construct Homo sapiens clone IMAGE:100068228, MGC:195845 solute carrier family 8 (sodium/calcium exchanger), member 2 (SLC8A2) mRNA, encodes complete protein.
AB384106 - Synthetic construct DNA, clone: pF1KSDA1087, Homo sapiens SLC8A2 gene for solute carrier family 8, member 2, complete cds, without stop codon, in Flexi system.
JD277863 - Sequence 258887 from Patent EP1572962.
JD216224 - Sequence 197248 from Patent EP1572962.
JD565073 - Sequence 546097 from Patent EP1572962.
JD174176 - Sequence 155200 from Patent EP1572962.
JD186780 - Sequence 167804 from Patent EP1572962.
JD437960 - Sequence 418984 from Patent EP1572962.
JD213970 - Sequence 194994 from Patent EP1572962.
JD260276 - Sequence 241300 from Patent EP1572962.
JD445059 - Sequence 426083 from Patent EP1572962.
JD480918 - Sequence 461942 from Patent EP1572962.
JD077110 - Sequence 58134 from Patent EP1572962.
JD191303 - Sequence 172327 from Patent EP1572962.
JD044480 - Sequence 25504 from Patent EP1572962.
JD398124 - Sequence 379148 from Patent EP1572962.
JD459852 - Sequence 440876 from Patent EP1572962.
JD287322 - Sequence 268346 from Patent EP1572962.
JD393996 - Sequence 375020 from Patent EP1572962.
JD123032 - Sequence 104056 from Patent EP1572962.
JD398154 - Sequence 379178 from Patent EP1572962.
JD386947 - Sequence 367971 from Patent EP1572962.
JD124505 - Sequence 105529 from Patent EP1572962.
JD212083 - Sequence 193107 from Patent EP1572962.
JD423569 - Sequence 404593 from Patent EP1572962.
JD121520 - Sequence 102544 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04020 - Calcium signaling pathway

Reactome (by CSHL, EBI, and GO)

Protein Q9UPR5 (Reactome details) participates in the following event(s):

R-HSA-425661 SLC8A1,2,3 exchange 3Na+ for Ca2+
R-HSA-418359 Reduction of cytosolic Ca++ levels
R-HSA-425561 Sodium/Calcium exchangers
R-HSA-5578775 Ion homeostasis
R-HSA-418360 Platelet calcium homeostasis
R-HSA-425393 Metabolism of nitrogenous molecules
R-HSA-5576891 Cardiac conduction
R-HSA-418346 Platelet homeostasis
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-397014 Muscle contraction
R-HSA-109582 Hemostasis
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: B4DYQ9, ENST00000236877.1, ENST00000236877.10, ENST00000236877.2, ENST00000236877.3, ENST00000236877.4, ENST00000236877.5, ENST00000236877.6, ENST00000236877.7, ENST00000236877.8, ENST00000236877.9, KIAA1087, NAC2_HUMAN, NCX2, NM_015063, Q9UPR5, uc002pgx.1, uc002pgx.2, uc002pgx.3, uc002pgx.4, uc002pgx.5
UCSC ID: ENST00000236877.11
RefSeq Accession: NM_015063
Protein: Q9UPR5 (aka NAC2_HUMAN)
CCDS: CCDS33065.1

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