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VEGFD vascular endothelial growth factor D [ Homo sapiens (human) ]

Gene ID: 2277, updated on 2-Nov-2024

Summary

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Official Symbol
VEGFDprovided by HGNC
Official Full Name
vascular endothelial growth factor Dprovided by HGNC
Primary source
HGNC:HGNC:3708
See related
Ensembl:ENSG00000165197 MIM:300091; AllianceGenome:HGNC:3708
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
FIGF; VEGF-D
Summary
The protein encoded by this gene is a member of the platelet-derived growth factor/vascular endothelial growth factor (PDGF/VEGF) family and is active in angiogenesis, lymphangiogenesis, and endothelial cell growth. This secreted protein undergoes a complex proteolytic maturation, generating multiple processed forms which bind and activate VEGFR-2 and VEGFR-3 receptors. This protein is structurally and functionally similar to vascular endothelial growth factor C. Read-through transcription has been observed between this locus and the upstream PIR (GeneID 8544) locus. [provided by RefSeq, Feb 2011]
Expression
Biased expression in lung (RPKM 21.7), fat (RPKM 4.7) and 9 other tissues See more
Orthologs
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Genomic context

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See VEGFD in Genome Data Viewer
Location:
Xp22.2
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (15345596..15384413, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (14928484..14967347, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (15363718..15402535, complement)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 14330 Neighboring gene ankyrin repeat and SOCS box containing 11 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29446 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29447 Neighboring gene phosphatidylinositol glycan anchor biosynthesis class A Neighboring gene PIR-FIGF readthrough Neighboring gene pirin Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20672 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:15510866-15511368 Neighboring gene H3K27ac hESC enhancer GRCh37_chrX:15511369-15511872 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:15537807-15538079 Neighboring gene BMX non-receptor tyrosine kinase Neighboring gene angiotensin converting enzyme 2 Neighboring gene HNRNPDL pseudogene 5

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Vascular endothelial growth factor-D promotes growth, lymphangiogenesis and lymphatic metastasis in gallbladder cancer. Lin W, et al. Cancer Lett, 2012 Jan 28. PMID 22071224
  2. Human FIGF: cloning, gene structure, and mapping to chromosome Xp22.1 between the PIGA and the GRPR genes. Rocchigiani M, et al. Genomics, 1998 Jan 15. PMID 9479493
  3. Vascular endothelial growth factor attenuates hepatic sinusoidal capillarization in thioacetamide-induced cirrhotic rats. Xu H, et al. World J Gastroenterol, 2008 Apr 21. PMID 18416461, Free PMC Article
  4. Vascular endothelial growth factor-D mediates fibrogenic response in myofibroblasts. Zhao T, et al. Mol Cell Biochem, 2016 Feb. PMID 26724950
  5. Biosynthesis of vascular endothelial growth factor-D involves proteolytic processing which generates non-covalent homodimers. Stacker SA, et al. J Biol Chem, 1999 Nov 5. PMID 10542248

See all (159) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. S100A6 drives lymphatic metastasis of liver cancer via activation of the RAGE/NF-kB/VEGF-D pathway.
    Title: S100A6 drives lymphatic metastasis of liver cancer via activation of the RAGE/NF-kB/VEGF-D pathway.
  2. Vascular endothelial growth factor-D plasma levels in fluid overload and cardiac function evaluation of elderly patients with cardiovascular disease.
    Title: Vascular endothelial growth factor-D plasma levels in fluid overload and cardiac function evaluation of elderly patients with cardiovascular disease.
  3. Vascular Endothelial Growth Factor-D (VEGF-D): An Angiogenesis Bypass in Malignant Tumors.
    Title: Vascular Endothelial Growth Factor-D (VEGF-D): An Angiogenesis Bypass in Malignant Tumors.
  4. Vascular endothelial growth factor-D plasma levels and VEGFD genetic variants are independently associated with outcomes in patients with cardiovascular disease.
    Title: Vascular endothelial growth factor-D plasma levels and VEGFD genetic variants are independently associated with outcomes in patients with cardiovascular disease.
  5. Serum VEGF-D level is correlated with renal dysfunction and proteinuria in patients with diabetic chronic kidney disease.
    Title: Serum VEGF-D level is correlated with renal dysfunction and proteinuria in patients with diabetic chronic kidney disease.
  6. VEGF-D-mediated signaling in tendon cells is involved in degenerative processes.
    Title: VEGF-D-mediated signaling in tendon cells is involved in degenerative processes.
  7. circEHBP1 promotes lymphangiogenesis and lymphatic metastasis of bladder cancer via miR-130a-3p/TGFbetaR1/VEGF-D signaling.
    Title: circEHBP1 promotes lymphangiogenesis and lymphatic metastasis of bladder cancer via miR-130a-3p/TGFβR1/VEGF-D signaling.
  8. Methacholine reactivity in lymphangioleiomyomatosis is inversely related to FEV1 and VEGF-D.
    Title: Methacholine reactivity in lymphangioleiomyomatosis is inversely related to FEV(1) and VEGF-D.
  9. Vascular endothelial growth factor D is a biomarker of fluid overload in haemodialysis patients.
    Title: Vascular endothelial growth factor D is a biomarker of fluid overload in haemodialysis patients.
  10. A multi-institutional phase 2 trial of regorafenib in refractory advanced biliary tract cancer.
    Title: A multi-institutional phase 2 trial of regorafenib in refractory advanced biliary tract cancer.
Submit: New GeneRIF Correction See all GeneRIFs (134)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Readthrough PIR-FIGF

Readthrough gene: PIR-FIGF, Included gene: PIR

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables chemoattractant activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables chemoattractant activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables growth factor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables identical protein binding IEA
Inferred from Electronic Annotation
more info
  
enables platelet-derived growth factor receptor binding TAS
Traceable Author Statement
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables vascular endothelial growth factor receptor 3 binding IEA
Inferred from Electronic Annotation
more info
  
enables vascular endothelial growth factor receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables vascular endothelial growth factor receptor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in dopaminergic neuron differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in fibroblast proliferation IEA
Inferred from Electronic Annotation
more info
  
involved_in induction of positive chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in induction of positive chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive chemotaxis IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of cell division IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of cell population proliferation TAS
Traceable Author Statement
more info
 PubMed 
involved_in positive regulation of mast cell chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of mast cell chemotaxis IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in response to bacterium IEA
Inferred from Electronic Annotation
more info
  
involved_in response to hypoxia IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in sprouting angiogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in vascular endothelial growth factor receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in vascular endothelial growth factor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in extracellular region TAS
Traceable Author Statement
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in platelet alpha granule lumen TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
vascular endothelial growth factor D
Names
c-fos induced growth factor (vascular endothelial growth factor D)

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_012509.1 RefSeqGene

    Range
    5043..43860
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_004469.5 → NP_004460.1  vascular endothelial growth factor D preproprotein

    See identical proteins and their annotated locations for NP_004460.1

    Status: REVIEWED

    Source sequence(s)
    BC027948, DA587496
    Consensus CDS
    CCDS14166.1
    UniProtKB/Swiss-Prot
    B2R7Z3, O43915
    UniProtKB/TrEMBL
    Q53FX1
    Related
    ENSP00000297904.3, ENST00000297904.4
    Conserved Domains (1) summary
    smart00141
    Location:109 → 193
    PDGF; Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    15345596..15384413 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    14928484..14967347 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O43915.1 GenPept UniProtKB/Swiss-Prot:O43915

Gene LinkOut

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