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

    Gene ID: 2277, updated on 11-Apr-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
    mouse all
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    Genomic context

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    Location:
    Xp22.2
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (15345596..15384413, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (14928484..14967347, complement)
    105.20220307 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
    • 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. Serum VEGF-D level is correlated with renal dysfunction and proteinuria in patients with diabetic chronic kidney disease. Nguyen TTU, et al. Medicine (Baltimore), 2022 Feb 18. PMID 35363168, Free PMC Article
    2. VEGF-D-mediated signaling in tendon cells is involved in degenerative processes. Tempfer H, et al. FASEB J, 2022 Feb. PMID 35044682
    3. Methacholine reactivity in lymphangioleiomyomatosis is inversely related to FEV(1) and VEGF-D. Cassandro R, et al. Eur Respir J, 2021 Jun. PMID 33653809
    4. A multi-institutional phase 2 trial of regorafenib in refractory advanced biliary tract cancer. Kim RD, et al. Cancer, 2020 Aug 1. PMID 32453456, Free PMC Article
    5. Vascular endothelial growth factor D is a biomarker of fluid overload in haemodialysis patients. von Moos S, et al. Nephrol Dial Transplant, 2021 Feb 20. PMID 31923307

    See all (156) 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 (135)

    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 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 angiogenesis IBA
    Inferred from Biological aspect of Ancestor
    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 endothelial cell proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 positive regulation of protein phosphorylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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_2023_10

    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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