Human Gene EDN3 (ENST00000337938.7_5) from GENCODE V47lift37
  Description: endothelin 3, transcript variant 4 (from RefSeq NM_207034.3)
Gencode Transcript: ENST00000337938.7_5
Gencode Gene: ENSG00000124205.18_17
Transcript (Including UTRs)
   Position: hg19 chr20:57,875,666-57,901,047 Size: 25,382 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr20:57,875,868-57,899,514 Size: 23,647 Coding Exon Count: 5 

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 (chr20:57,875,666-57,901,047)mRNA (may differ from genome)Protein (238 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: EDN3_HUMAN
DESCRIPTION: RecName: Full=Endothelin-3; Short=ET-3; AltName: Full=Preproendothelin-3; Short=PPET3; Flags: Precursor;
FUNCTION: Endothelins are endothelium-derived vasoconstrictor peptides.
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Expressed in trophoblasts and placental stem villi vessels, but not in cultured placental smooth muscle cells.
DISEASE: Defects in EDN3 are the cause of Hirschsprung disease type 4 (HSCR4) [MIM:613712]; also known as aganglionic megacolon (MGC). A genetic disorder of neural crest development characterized by the absence of intramural ganglion cells in the hindgut; often resulting in intestinal obstruction.
DISEASE: Defects in EDN3 are a cause of congenital central hypoventilation syndrome (CCHS) [MIM:209880]; also known as congenital failure of autonomic control or Ondine curse. CCHS is a rare disorder characterized by abnormal control of respiration in the absence of neuromuscular or lung disease, or an identifiable brain stem lesion. A deficiency in autonomic control of respiration results in inadequate or negligible ventilatory and arousal responses to hypercapnia and hypoxemia.
DISEASE: Defects in EDN3 are a cause of Waardenburg syndrome type 4 (WS4B) [MIM:613265]; also known as Waardenburg-Shah syndrome. WS4B is characterized by the association of Waardenburg features (depigmentation and deafness) and the absence of enteric ganglia in the distal part of the intestine (Hirschsprung disease).
SIMILARITY: Belongs to the endothelin/sarafotoxin family.
SEQUENCE CAUTION: Sequence=AAR16083.1; Type=Erroneous gene model prediction;
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/EDN3";
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/edn3/";

-  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: EDN3
Diseases sorted by gene-association score: waardenburg syndrome, type 4b* (1300), hirschsprung disease 4* (903), central hypoventilation syndrome, congenital* (469), edn3-related hirschsprung disease* (100), hirschsprung disease 1* (31), waardenburg's syndrome (29), megacolon (13), waardenburg syndrome type 4 (13), waardenburg syndrome, type 1 (13), waardenburg syndrome, type 4a (12), intestinal obstruction (12), acute laryngitis (11), cochlear disease (11), mandibulofacial dysostosis with alopecia (9), colonic disease (8), tietz albinism-deafness syndrome (6), shprintzen-goldberg syndrome (4), dyschromatosis symmetrica hereditaria (4)
* = 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: 49.93 RPKM in Vagina
Total median expression: 154.77 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 -93.70202-0.464 Picture PostScript Text
3' UTR -413.701533-0.270 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
IPR020475 - Bibrotoxin/Sarafotoxin-D
IPR019764 - Endothelin_toxin_CS
IPR001928 - Endothln-like_toxin

Pfam Domains:
PF00322 - Endothelin family

ModBase Predicted Comparative 3D Structure on P14138
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 DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005102 receptor binding
GO:0005179 hormone activity
GO:0031708 endothelin B receptor binding

Biological Process:
GO:0001755 neural crest cell migration
GO:0002690 positive regulation of leukocyte chemotaxis
GO:0003100 regulation of systemic arterial blood pressure by endothelin
GO:0006874 cellular calcium ion homeostasis
GO:0007165 signal transduction
GO:0007166 cell surface receptor signaling pathway
GO:0007186 G-protein coupled receptor signaling pathway
GO:0007267 cell-cell signaling
GO:0007275 multicellular organism development
GO:0008015 blood circulation
GO:0008284 positive regulation of cell proliferation
GO:0010460 positive regulation of heart rate
GO:0010468 regulation of gene expression
GO:0010469 regulation of receptor activity
GO:0010961 cellular magnesium ion homeostasis
GO:0014826 vein smooth muscle contraction
GO:0019229 regulation of vasoconstriction
GO:0030072 peptide hormone secretion
GO:0030182 neuron differentiation
GO:0030318 melanocyte differentiation
GO:0030334 regulation of cell migration
GO:0030593 neutrophil chemotaxis
GO:0042310 vasoconstriction
GO:0043406 positive regulation of MAP kinase activity
GO:0045597 positive regulation of cell differentiation
GO:0045840 positive regulation of mitotic nuclear division
GO:0046887 positive regulation of hormone secretion
GO:0048016 inositol phosphate-mediated signaling
GO:0048070 regulation of developmental pigmentation
GO:0050880 regulation of blood vessel size
GO:1901381 positive regulation of potassium ion transmembrane transport
GO:0014824 artery smooth muscle contraction

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005622 intracellular
GO:0005623 cell


-  Descriptions from all associated GenBank mRNAs
  BC008876 - Homo sapiens endothelin 3, mRNA (cDNA clone MGC:15067 IMAGE:4139312), complete cds.
BC053866 - Homo sapiens endothelin 3, mRNA (cDNA clone MGC:61498 IMAGE:5202210), complete cds.
J05081 - Human endothelin 3 (EDN3) mRNA, complete cds.
JD351911 - Sequence 332935 from Patent EP1572962.
E03907 - cDNA sequence coding for human endocerin-3 precursor and mature peptide.
X52001 - H.sapiens endothelin 3 mRNA.
JD160315 - Sequence 141339 from Patent EP1572962.
JD125312 - Sequence 106336 from Patent EP1572962.
AB590897 - Synthetic construct DNA, clone: pFN21AB6958, Homo sapiens EDN3 gene for endothelin 3, without stop codon, in Flexi system.
CU679163 - Synthetic construct Homo sapiens gateway clone IMAGE:100016854 5' read EDN3 mRNA.
HQ447100 - Synthetic construct Homo sapiens clone IMAGE:100070385; CCSB005440_01 endothelin 3 (EDN3) gene, encodes complete protein.
KJ891085 - Synthetic construct Homo sapiens clone ccsbBroadEn_00479 EDN3 gene, encodes complete protein.
KR710128 - Synthetic construct Homo sapiens clone CCSBHm_00009969 EDN3 (EDN3) mRNA, encodes complete protein.
KR710129 - Synthetic construct Homo sapiens clone CCSBHm_00009970 EDN3 (EDN3) mRNA, encodes complete protein.
KR710130 - Synthetic construct Homo sapiens clone CCSBHm_00009973 EDN3 (EDN3) mRNA, encodes complete protein.
KR710131 - Synthetic construct Homo sapiens clone CCSBHm_00009977 EDN3 (EDN3) mRNA, encodes complete protein.
BT007085 - Homo sapiens endothelin 3 mRNA, complete cds.
DQ096281 - Homo sapiens endothelin 3 mRNA, complete cds, alternatively spliced.
S50864 - endothelin-3 {splice variant pET-3III} [human, endometrium, mRNA Partial, 358 nt].
S50866 - endothelin-3 {splice variant pET-3I} [human, endometrium, mRNA Partial, 277 nt].
JD316962 - Sequence 297986 from Patent EP1572962.
JD065400 - Sequence 46424 from Patent EP1572962.
JD375895 - Sequence 356919 from Patent EP1572962.
JD554540 - Sequence 535564 from Patent EP1572962.
JD176310 - Sequence 157334 from Patent EP1572962.
JD270597 - Sequence 251621 from Patent EP1572962.
JD309165 - Sequence 290189 from Patent EP1572962.
JD078411 - Sequence 59435 from Patent EP1572962.
JD282668 - Sequence 263692 from Patent EP1572962.
JD274814 - Sequence 255838 from Patent EP1572962.
JD450142 - Sequence 431166 from Patent EP1572962.
JD248200 - Sequence 229224 from Patent EP1572962.

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

Protein P14138 (Reactome details) participates in the following event(s):

R-HSA-5694082 XK:KEL:Zn2+ cleaves EDN3
R-HSA-388560 Endothelin receptors bind endothelin
R-HSA-749452 The Ligand:GPCR:Gq complex dissociates
R-HSA-749448 Liganded Gq-activating GPCRs bind inactive heterotrimeric Gq
R-HSA-379048 Liganded Gq/11-activating GPCRs act as GEFs for Gq/11
R-HSA-375276 Peptide ligand-binding receptors
R-HSA-373076 Class A/1 (Rhodopsin-like receptors)
R-HSA-416476 G alpha (q) signalling events
R-HSA-500792 GPCR ligand binding
R-HSA-388396 GPCR downstream signalling
R-HSA-372790 Signaling by GPCR
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: E1P5I5, EDN3_HUMAN, ENST00000337938.1, ENST00000337938.2, ENST00000337938.3, ENST00000337938.4, ENST00000337938.5, ENST00000337938.6, NM_207034, P14138, Q03229, Q7Z6D2, Q9UGT7, uc317uwr.1, uc317uwr.2
UCSC ID: ENST00000337938.7_5
RefSeq Accession: NM_207034.3
Protein: P14138 (aka EDN3_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.