Human Gene VEGFC (ENST00000618562.2_7) from GENCODE V47lift37
  Description: vascular endothelial growth factor C (from RefSeq NM_005429.5)
Gencode Transcript: ENST00000618562.2_7
Gencode Gene: ENSG00000150630.4_9
Transcript (Including UTRs)
   Position: hg19 chr4:177,604,689-177,714,076 Size: 109,388 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr4:177,605,077-177,713,465 Size: 108,389 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:177,604,689-177,714,076)mRNA (may differ from genome)Protein (420 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: VEGFC_HUMAN
DESCRIPTION: RecName: Full=Vascular endothelial growth factor C; Short=VEGF-C; AltName: Full=Flt4 ligand; Short=Flt4-L; AltName: Full=Vascular endothelial growth factor-related protein; Short=VRP; Flags: Precursor;
FUNCTION: Growth factor active in angiogenesis, and endothelial cell growth, stimulating their proliferation and migration and also has effects on the permeability of blood vessels. May function in angiogenesis of the venous and lymphatic vascular systems during embryogenesis, and also in the maintenance of differentiated lymphatic endothelium in adults. Binds and activates VEGFR-2 (KDR/FLK1) and VEGFR-3 (FLT4) receptors.
SUBUNIT: Homodimer; non-covalent and antiparallel.
INTERACTION: P35916:FLT4; NbExp=2; IntAct=EBI-3405539, EBI-1005467;
SUBCELLULAR LOCATION: Secreted.
TISSUE SPECIFICITY: Spleen, lymph node, thymus, appendix, bone marrow, heart, placenta, ovary, skeletal muscle, prostate, testis, colon and small intestine and fetal liver, lung and kidney, but not in peripheral blood lymphocyte.
PTM: Undergoes a complex proteolytic maturation which generates a variety of processed secreted forms with increased activity toward VEGFR-3, but only the fully processed form could activate VEGFR-2. VEGF-C first form an antiparallel homodimer linked by disulfide bonds. Before secretion, a cleavage occurs between Arg-227 and Ser-228 producing a heterotetramer. The next extracellular step of the processing removes the N-terminal propeptide. Finally the mature VEGF-C is composed mostly of two VEGF homology domains (VHDs) bound by non-covalent interactions.
SIMILARITY: Belongs to the PDGF/VEGF growth factor family.

-  Primer design for this transcript
 

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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.
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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: VEGFC
Diseases sorted by gene-association score: lymphedema, hereditary, id* (1000), lymphangioma (20), lymphedema (18), infiltrating angiolipoma (15), tongue cancer (13), congenital lymphedema (10), lymphangioleiomyomatosis (10), tongue squamous cell carcinoma (10), thyroid cancer, nonmedullary, 1 (9), twin-to-twin transfusion syndrome (8), oral squamous cell carcinoma (7), hennekam syndrome (7), esophageal cancer (7), cervical intraepithelial neoplasia (7), lung cancer (7), breast carcinoma in situ (6), breast ductal carcinoma (6), microinvasive gastric cancer (6), uveal melanoma (6), lymphangiosarcoma (6), breast cancer (6), cholangiocarcinoma, susceptibility to (5), congenital muscular dystrophy due to lmna mutation (4), lymphatic system disease (4), cervical cancer, somatic (3), colorectal cancer (3), intrahepatic cholangiocarcinoma (2), stomach cancer (2), nasopharyngeal carcinoma (2), urinary bladder cancer (2), thyroid cancer, nonmedullary, 2 (2), squamous cell carcinoma, head and neck (2), prostate cancer (1), ovarian cancer, somatic (1), gastric cancer, somatic (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D002251 Carbon Tetrachloride
  • D013749 Tetrachlorodibenzodioxin
  • D014212 Tretinoin
  • C057693 troglitazone
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C016403 2,4-dinitrotoluene
  • C049584 2-amino-1-methyl-6-phenylimidazo(4,5-b)pyridine
  • C472791 3-(4'-hydroxy-3'-adamantylbiphenyl-4-yl)acrylic acid
  • C002202 4-oxoretinoic acid
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
          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 -327.70611-0.536 Picture PostScript Text
3' UTR -79.50388-0.205 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
IPR004153 - CXCXC_repeat
IPR000072 - PD_growth_factor
IPR023581 - PD_growth_factor_CS

Pfam Domains:
PF00341 - PDGF/VEGF domain
PF03128 - CXCXC repeat

SCOP Domains:
57501 - Cystine-knot cytokines

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2X1W - X-ray MuPIT 2X1X - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P49767
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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:0005515 protein binding
GO:0008083 growth factor activity
GO:0042056 chemoattractant activity
GO:0043185 vascular endothelial growth factor receptor 3 binding

Biological Process:
GO:0001525 angiogenesis
GO:0001666 response to hypoxia
GO:0001938 positive regulation of endothelial cell proliferation
GO:0001954 positive regulation of cell-matrix adhesion
GO:0002052 positive regulation of neuroblast proliferation
GO:0002576 platelet degranulation
GO:0006929 substrate-dependent cell migration
GO:0007165 signal transduction
GO:0007275 multicellular organism development
GO:0008284 positive regulation of cell proliferation
GO:0008285 negative regulation of cell proliferation
GO:0009887 animal organ morphogenesis
GO:0010469 regulation of receptor activity
GO:0016331 morphogenesis of embryonic epithelium
GO:0030154 cell differentiation
GO:0030947 regulation of vascular endothelial growth factor receptor signaling pathway
GO:0031954 positive regulation of protein autophosphorylation
GO:0042493 response to drug
GO:0043536 positive regulation of blood vessel endothelial cell migration
GO:0045766 positive regulation of angiogenesis
GO:0045776 negative regulation of blood pressure
GO:0048010 vascular endothelial growth factor receptor signaling pathway
GO:0050679 positive regulation of epithelial cell proliferation
GO:0050714 positive regulation of protein secretion
GO:0050731 positive regulation of peptidyl-tyrosine phosphorylation
GO:0050918 positive chemotaxis
GO:0050930 induction of positive chemotaxis
GO:0051781 positive regulation of cell division
GO:0060754 positive regulation of mast cell chemotaxis
GO:1901492 positive regulation of lymphangiogenesis
GO:1990830 cellular response to leukemia inhibitory factor

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0016020 membrane
GO:0031093 platelet alpha granule lumen


-  Descriptions from all associated GenBank mRNAs
  KJ897733 - Synthetic construct Homo sapiens clone ccsbBroadEn_07127 VEGFC gene, encodes complete protein.
LQ270820 - Sequence 148 from Patent WO2016071350.
BC035212 - Homo sapiens vascular endothelial growth factor C, mRNA (cDNA clone MGC:24887 IMAGE:4753457), complete cds.
X94216 - H.sapiens mRNA for VEGF-C protein.
FW406920 - NUCLEIC ACID COMPOUNDS FOR INHIBITING VEGF FAMILY GENE EXPRESSION AND USES THEREOF.
JA810033 - Sequence 1166 from Patent EP2468864.
BC063685 - Homo sapiens vascular endothelial growth factor C, mRNA (cDNA clone MGC:74703 IMAGE:4513934), complete cds.
U43142 - Human vascular endothelial growth factor related protein VRP mRNA, complete cds.
U58111 - Human FLT4 ligand mRNA, complete cds.
JD442088 - Sequence 423112 from Patent EP1572962.
JD331253 - Sequence 312277 from Patent EP1572962.
CR541897 - Homo sapiens full open reading frame cDNA clone RZPDo834C1033D for gene VEGFC, vascular endothelial growth factor C; complete cds, incl. stopcodon.
AB590333 - Synthetic construct DNA, clone: pFN21AE1426, Homo sapiens VEGFC gene for vascular endothelial growth factor C, without stop codon, in Flexi system.
DQ891162 - Synthetic construct clone IMAGE:100003792; FLH170840.01X; RZPDo839C03100D vascular endothelial growth factor C (VEGFC) gene, encodes complete protein.
DQ893345 - Synthetic construct clone IMAGE:100005975; FLH196459.01X; RZPDo839D07156D vascular endothelial growth factor C (VEGFC) gene, encodes complete protein.
DQ894481 - Synthetic construct Homo sapiens clone IMAGE:100008941; FLH170836.01L; RZPDo839C0399D vascular endothelial growth factor C (VEGFC) gene, encodes complete protein.
DQ896666 - Synthetic construct Homo sapiens clone IMAGE:100011126; FLH196455.01L; RZPDo839D07155D vascular endothelial growth factor C (VEGFC) gene, encodes complete protein.
AK313879 - Homo sapiens cDNA, FLJ94513, Homo sapiens vascular endothelial growth factor C (VEGFC), mRNA.
JD395985 - Sequence 377009 from Patent EP1572962.
JD471363 - Sequence 452387 from Patent EP1572962.
JD191241 - Sequence 172265 from Patent EP1572962.
JD128783 - Sequence 109807 from Patent EP1572962.
JD547181 - Sequence 528205 from Patent EP1572962.
JD056230 - Sequence 37254 from Patent EP1572962.
JD406055 - Sequence 387079 from Patent EP1572962.
JD271292 - Sequence 252316 from Patent EP1572962.
JD458514 - Sequence 439538 from Patent EP1572962.
JD057274 - Sequence 38298 from Patent EP1572962.
JD406801 - Sequence 387825 from Patent EP1572962.
JD461601 - Sequence 442625 from Patent EP1572962.
JD056228 - Sequence 37252 from Patent EP1572962.
JD458513 - Sequence 439537 from Patent EP1572962.
JD458511 - Sequence 439535 from Patent EP1572962.

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

Protein P49767 (Reactome details) participates in the following event(s):

R-HSA-195378 Homodimerization of VEGF proteins
R-HSA-481007 Exocytosis of platelet alpha granule contents
R-HSA-194308 VEGF-C,D bind to VEGFR3 leading to receptor dimerization
R-HSA-194310 VEGF-A,C,D bind to VEGFR2 leading to receptor dimerization
R-HSA-194313 VEGF ligand-receptor interactions
R-HSA-114608 Platelet degranulation
R-HSA-195399 VEGF binds to VEGFR leading to receptor dimerization
R-HSA-194138 Signaling by VEGF
R-HSA-76005 Response to elevated platelet cytosolic Ca2+
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-76002 Platelet activation, signaling and aggregation
R-HSA-162582 Signal Transduction
R-HSA-109582 Hemostasis

-  Other Names for This Gene
  Alternate Gene Symbols: B2R9Q8, ENST00000618562.1, NM_005429, P49767, uc327rui.1, uc327rui.2, VEGFC_HUMAN
UCSC ID: ENST00000618562.2_7
RefSeq Accession: NM_005429.5
Protein: P49767 (aka VEGFC_HUMAN or VEGC_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.