Human Gene SLC5A3 (ENST00000381151.5_5) from GENCODE V47lift37
  Description: solute carrier family 5 member 3 (from RefSeq NM_006933.7)
Gencode Transcript: ENST00000381151.5_5
Gencode Gene: ENSG00000198743.7_10
Transcript (Including UTRs)
   Position: hg19 chr21:35,445,878-35,478,559 Size: 32,682 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr21:35,467,498-35,469,654 Size: 2,157 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr21:35,445,878-35,478,559)mRNA (may differ from genome)Protein (718 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SC5A3_HUMAN
DESCRIPTION: RecName: Full=Sodium/myo-inositol cotransporter; Short=Na(+)/myo-inositol cotransporter; AltName: Full=Sodium/myo-inositol transporter 1; Short=SMIT1; AltName: Full=Solute carrier family 5 member 3;
FUNCTION: Prevents intracellular accumulation of high concentrations of myo-inositol (an osmolyte) that result in impairment of cellular function.
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein.
SIMILARITY: Belongs to the sodium:solute symporter (SSF) (TC 2.A.21) family.

-  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           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -153.30504-0.304 Picture PostScript Text
3' UTR -2273.308905-0.255 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
IPR001734 - Na/solute_symporter
IPR018212 - Na/solute_symporter_CS
IPR019900 - Na/solute_symporter_subgr

Pfam Domains:
PF00474 - Sodium:solute symporter family

ModBase Predicted Comparative 3D Structure on P53794
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005367 myo-inositol:sodium symporter activity
GO:0015293 symporter activity
GO:0022857 transmembrane transporter activity

Biological Process:
GO:0006020 inositol metabolic process
GO:0006811 ion transport
GO:0006814 sodium ion transport
GO:0007422 peripheral nervous system development
GO:0015798 myo-inositol transport
GO:0043576 regulation of respiratory gaseous exchange
GO:0055085 transmembrane transport

Cellular Component:
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AY061855 - Homo sapiens mitochondrial ribosomal protein S6 (C21orf101) mRNA, complete cds; nuclear gene for mitochondrial product.
AX750578 - Sequence 4 from Patent WO0221134.
AK312084 - Homo sapiens cDNA, FLJ92365, Homo sapiens mitochondrial ribosomal protein S6 (MRPS6), nuclear gene encoding mitochondrial protein, mRNA.
AB049942 - Homo sapiens MRPS6 mRNA for mitochondrial ribosomal protein S6, partial cds.
BC010076 - Homo sapiens mitochondrial ribosomal protein S6, mRNA (cDNA clone MGC:19576 IMAGE:4304420), complete cds.
BC004976 - Homo sapiens mitochondrial ribosomal protein S6, mRNA (cDNA clone MGC:3825 IMAGE:2958115), complete cds.
BC000547 - Homo sapiens mitochondrial ribosomal protein S6, mRNA (cDNA clone MGC:2037 IMAGE:3162515), complete cds.
JD459250 - Sequence 440274 from Patent EP1572962.
JD242332 - Sequence 223356 from Patent EP1572962.
BC051302 - Homo sapiens mitochondrial ribosomal protein S6, mRNA (cDNA clone MGC:59918 IMAGE:4855355), complete cds.
JD118744 - Sequence 99768 from Patent EP1572962.
HQ448691 - Synthetic construct Homo sapiens clone IMAGE:100072135; CCSB006972_02 mitochondrial ribosomal protein S6 (MRPS6) gene, encodes complete protein.
KJ899489 - Synthetic construct Homo sapiens clone ccsbBroadEn_08883 MRPS6 gene, encodes complete protein.
AK055913 - Homo sapiens cDNA FLJ31351 fis, clone MESAN2000167.
AB527215 - Synthetic construct DNA, clone: pF1KE0349, Homo sapiens SLC5A3 gene for solute carrier family 5 (sodium/myo-inositol cotransporter), member 3, without stop codon, in Flexi system.
BC140349 - Synthetic construct Homo sapiens clone IMAGE:100014394, MGC:173243 solute carrier family 5 (sodium/myo-inositol cotransporter), member 3 (SLC5A3) mRNA, encodes complete protein.
BC146536 - Synthetic construct Homo sapiens clone IMAGE:100014885, MGC:180153 solute carrier family 5 (sodium/myo-inositol cotransporter), member 3 (SLC5A3) mRNA, encodes complete protein.
AX750579 - Sequence 5 from Patent WO0221134.
AL833562 - Homo sapiens mRNA; cDNA DKFZp686J1244 (from clone DKFZp686J1244).
X83558 - Homo sapiens G21VN02 mRNA.
AK092248 - Homo sapiens cDNA FLJ34929 fis, clone NT2RP7004728.
FW340093 - Screening.
AB074183 - Homo sapiens primary neuroblastoma cDNA, clone:Nbla10457, full insert sequence.
AK024896 - Homo sapiens cDNA: FLJ21243 fis, clone COL01164.
AK026169 - Homo sapiens cDNA: FLJ22516 fis, clone HRC12162.

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

Protein P53794 (Reactome details) participates in the following event(s):

R-HSA-429663 SLC5A3 (SMIT1) transports myo-inositol (Ins) with Na+ from extracellular region to cytosol
R-HSA-429593 Inositol transporters
R-HSA-425366 Transport of bile salts and organic acids, metal ions and amine compounds
R-HSA-425407 SLC-mediated transmembrane transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000381151.1, ENST00000381151.2, ENST00000381151.3, ENST00000381151.4, NM_006933, O43489, P53794, SC5A3_HUMAN, SLC5A3 , uc318qbp.1, uc318qbp.2
UCSC ID: ENST00000381151.5_5
RefSeq Accession: NM_006933.7
Protein: P53794 (aka SC5A3_HUMAN or SL53_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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