Human Gene SCNN1A (ENST00000228916.7_11) from GENCODE V47lift37
  Description: sodium channel epithelial 1 subunit alpha, transcript variant 1 (from RefSeq NM_001038.6)
Gencode Transcript: ENST00000228916.7_11
Gencode Gene: ENSG00000111319.13_18
Transcript (Including UTRs)
   Position: hg19 chr12:6,456,013-6,484,729 Size: 28,717 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr12:6,457,039-6,483,949 Size: 26,911 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:6,456,013-6,484,729)mRNA (may differ from genome)Protein (669 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCHuman Cortex Gene ExpressionMalacardsMGIOMIMPubMed
ReactomeUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SCNNA_HUMAN
DESCRIPTION: RecName: Full=Amiloride-sensitive sodium channel subunit alpha; AltName: Full=Alpha-NaCH; AltName: Full=Epithelial Na(+) channel subunit alpha; Short=Alpha-ENaC; Short=ENaCA; AltName: Full=Nonvoltage-gated sodium channel 1 subunit alpha; AltName: Full=SCNEA;
FUNCTION: Sodium permeable non-voltage-sensitive ion channel inhibited by the diuretic amiloride. Mediates the electrodiffusion of the luminal sodium (and water, which follows osmotically) through the apical membrane of epithelial cells. Controls the reabsorption of sodium in kidney, colon, lung and sweat glands. Also plays a role in taste perception.
ENZYME REGULATION: Activated by WNK1, WNK2, WNK3 and WNK4 (By similarity).
SUBUNIT: Probable heterotrimer containing one alpha, one beta and one gamma subunit. A delta subunit can replace the alpha subunit. Interacts with the WW domains of NEDD4, NEDD4L, WWP1 and WWP2. Interacts with the full length immature form of PCSK9 (pro-PCSK9).
SUBCELLULAR LOCATION: Apical cell membrane; Multi-pass membrane protein. Note=Apical membrane of epithelial cells.
TISSUE SPECIFICITY: Highly expressed in kidney and lung. Detected at intermediate levels in pancreas and liver, and at low levels in heart and placenta. Isoform 1 and isoform 2 predominate in all tissues. Expression of isoform 3, isoform 4 and isoform 5 is very low or not detectable, except in lung and heart.
INDUCTION: By aldosterone.
PTM: Ubiquitinated; this targets individual subunits for endocytosis and proteasome-mediated degradation (By similarity).
PTM: ENaC cleavage by furin, and subsequently by prostasin (PRSS8), leads to a stepwise increase in the open probability of the channel as a result of release of the alpha and gamma subunit inhibitory tracts, respectively.
DISEASE: Defects in SCNN1A are a cause of pseudohypoaldosteronism 1, autosomal recessive (PHA1B) [MIM:264350]. A rare salt wasting disease resulting from target organ unresponsiveness to mineralocorticoids. PHA1B is a severe form involving multiple organ systems, and characterized by an often fulminant presentation in the neonatal period with dehydration, hyponatremia, hyperkalemia, metabolic acidosis, failure to thrive and weight loss. Note=The degree of channel function impairment differentially affects the renin-aldosterone system and urinary Na/K ratios, resulting in distinct genotype-phenotype relationships in PHA1 patients. Loss-of-function mutations are associated with a severe clinical course and age-dependent hyperactivation of the renin-aldosterone system. This feature is not observed in patients with missense mutations that reduce but do not eliminate channel function. Markedly reduced channel activity results in impaired linear growth and delayed puberty (PubMed:18634878).
DISEASE: Defects in SCNN1A are a cause of bronchiectasis with or without elevated sweat chloride type 2 (BESC2) [MIM:613021]; also called cystic fibrosis-like syndrome. BESC2 is a debilitating respiratory disease characterized by chronic abnormal dilatation of the bronchi and other cystic fibrosis-like symptoms in the absence of known causes of bronchiectasis (cystic fibrosis, autoimmune diseases, ciliary dyskinesia, common variable immunodeficiency, foreign body obstruction). Clinical features include subnormal lung function, sinopulmonary infections, chronic productive cough, excessive sputum production, and elevated sweat chloride in some cases.
SIMILARITY: Belongs to the amiloride-sensitive sodium channel (TC 1.A.6) family. SCNN1A subfamily.
SEQUENCE CAUTION: Sequence=AAH06526.2; Type=Erroneous initiation;
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/SCNN1A";

-  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: SCNN1A
Diseases sorted by gene-association score: bronchiectasis with or without elevated sweat chloride 2* (1331), pseudohypoaldosteronism, type i* (1184), idiopathic bronchiectasis* (202), pseudohypoaldosteronism (39), bronchiectasis (26), liddle syndrome (16), pseudohypoaldosteronism type i, autosomal dominant (9), cystic fibrosis (8), brugada syndrome (2)
* = Manually curated disease association

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 86.23 RPKM in Kidney - Cortex
Total median expression: 640.28 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -48.00113-0.425 Picture PostScript Text
3' UTR -341.401026-0.333 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
IPR004724 - EnaC
IPR001873 - Na+channel_ASC
IPR020903 - Na+channel_ASC_CS

Pfam Domains:
PF00858 - Amiloride-sensitive sodium channel

ModBase Predicted Comparative 3D Structure on P37088
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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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005272 sodium channel activity
GO:0005515 protein binding
GO:0015280 ligand-gated sodium channel activity
GO:0050699 WW domain binding

Biological Process:
GO:0006811 ion transport
GO:0006814 sodium ion transport
GO:0035725 sodium ion transmembrane transport
GO:0050891 multicellular organismal water homeostasis
GO:0050896 response to stimulus
GO:0050909 sensory perception of taste
GO:0055078 sodium ion homeostasis

Cellular Component:
GO:0001669 acrosomal vesicle
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0005929 cilium
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0016324 apical plasma membrane
GO:0031410 cytoplasmic vesicle
GO:0031514 motile cilium
GO:0034706 sodium channel complex
GO:0042995 cell projection
GO:0060170 ciliary membrane
GO:0070062 extracellular exosome
GO:0097228 sperm principal piece


-  Descriptions from all associated GenBank mRNAs
  BC006526 - Homo sapiens sodium channel, nonvoltage-gated 1 alpha, mRNA (cDNA clone IMAGE:3936903), partial cds.
AK025536 - Homo sapiens cDNA: FLJ21883 fis, clone HEP02841, highly similar to HSLASNA Homo sapiens mRNA for lung amiloride sensitive Na+ channel protein.
BC037417 - Homo sapiens sodium channel, nonvoltage-gated 1 alpha, mRNA (cDNA clone IMAGE:5112163), containing frame-shift errors.
BC062613 - Homo sapiens sodium channel, nonvoltage-gated 1 alpha, mRNA (cDNA clone MGC:75136 IMAGE:5186683), complete cds.
AK172792 - Homo sapiens cDNA FLJ23953 fis, clone HEP10547, highly similar to Amiloride-sensitive sodium channel alpha-subunit.
X76180 - H.sapiens mRNA for lung amiloride sensitive Na+ channel protein.
JD119791 - Sequence 100815 from Patent EP1572962.
JD149934 - Sequence 130958 from Patent EP1572962.
JD559063 - Sequence 540087 from Patent EP1572962.
JD262324 - Sequence 243348 from Patent EP1572962.
JD158278 - Sequence 139302 from Patent EP1572962.
JD261295 - Sequence 242319 from Patent EP1572962.
JD464436 - Sequence 445460 from Patent EP1572962.
JD494423 - Sequence 475447 from Patent EP1572962.
JD301142 - Sequence 282166 from Patent EP1572962.
JD511054 - Sequence 492078 from Patent EP1572962.
JD123011 - Sequence 104035 from Patent EP1572962.
JD354221 - Sequence 335245 from Patent EP1572962.
JD131955 - Sequence 112979 from Patent EP1572962.
JD254226 - Sequence 235250 from Patent EP1572962.
JD325001 - Sequence 306025 from Patent EP1572962.
JD333449 - Sequence 314473 from Patent EP1572962.
JD060541 - Sequence 41565 from Patent EP1572962.
JD190294 - Sequence 171318 from Patent EP1572962.
JD127659 - Sequence 108683 from Patent EP1572962.
JD274036 - Sequence 255060 from Patent EP1572962.
JD310868 - Sequence 291892 from Patent EP1572962.
AK304379 - Homo sapiens cDNA FLJ56208 complete cds, highly similar to Amiloride-sensitive sodium channel subunit alpha.
JD469379 - Sequence 450403 from Patent EP1572962.
JD414129 - Sequence 395153 from Patent EP1572962.
JD183088 - Sequence 164112 from Patent EP1572962.
JD468984 - Sequence 450008 from Patent EP1572962.
DQ402522 - Homo sapiens nasal epithelial sodium channel alpha subunit mRNA, complete cds.
AB527714 - Synthetic construct DNA, clone: pF1KB6217, Homo sapiens SCNN1A gene for sodium channel, nonvoltage-gated 1 alpha, without stop codon, in Flexi system.
AY365119 - Homo sapiens amiloride-sensitive epithelial sodium channel alpha subunit (SCNN1A) mRNA, partial cds; alternatively spliced.
JD439770 - Sequence 420794 from Patent EP1572962.

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

Protein P37088 (Reactome details) participates in the following event(s):

R-HSA-2682349 RAF1:SGK:TSC22D3:WPP ubiquitinates SCNN channels
R-HSA-2672334 SCNN channels transport extracellular Na+ to cytosol
R-HSA-2672351 Stimuli-sensing channels
R-HSA-983712 Ion channel transport
R-HSA-382551 Transport of small molecules

-  Other Names for This Gene
  Alternate Gene Symbols: A5X2U9, B4E2Q5, C5HTZ0, ENST00000228916.1, ENST00000228916.2, ENST00000228916.3, ENST00000228916.4, ENST00000228916.5, ENST00000228916.6, NM_001038, O43271, P37088, Q6GSQ6, Q9UM64, SCNN1, SCNNA_HUMAN, uc317dpc.1, uc317dpc.2
UCSC ID: ENST00000228916.7_11
RefSeq Accession: NM_001038.6
Protein: P37088 (aka SCNNA_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.