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PLXDC1 plexin domain containing 1 [ Homo sapiens (human) ]

Gene ID: 57125, updated on 3-Apr-2024

Summary

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Official Symbol
PLXDC1provided by HGNC
Official Full Name
plexin domain containing 1provided by HGNC
Primary source
HGNC:HGNC:20945
See related
Ensembl:ENSG00000161381 MIM:606826; AllianceGenome:HGNC:20945
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TEM3; TEM7
Summary
Predicted to be involved in angiogenesis and spinal cord development. Part of receptor complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in gall bladder (RPKM 7.4), endometrium (RPKM 6.4) and 23 other tissues See more
Orthologs
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Genomic context

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Location:
17q12
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (39063313..39152967, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (39927167..40015495, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (37219566..37307890, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105371767 Neighboring gene long intergenic non-protein coding RNA 2079 Neighboring gene leucine rich repeat containing 37 member A11, pseudogene Neighboring gene MED14-independent group 3 enhancer GRCh37_chr17:37202329-37203528 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8447 Neighboring gene RDM1 pseudogene 5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:37228227-37229015 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12086 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12087 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:37239721-37240221 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:37243560-37244060 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12088 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:37255200-37255801 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:37265163-37265351 Neighboring gene uncharacterized LOC124903995 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12089 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12090 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:37309916-37310422 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:37310423-37310927 Neighboring gene tRNA-Cys (anticodon GCA) 2-3 Neighboring gene tRNA-Cys (anticodon GCA) 2-4

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. Glioblastoma endothelium drives bevacizumab-induced infiltrative growth via modulation of PLXDC1. Falchetti ML, et al. Int J Cancer, 2019 Mar 15. PMID 30414187, Free PMC Article
  2. Tumor endothelial marker 7 (TEM-7): a novel target for antiangiogenic therapy. Bagley RG, et al. Microvasc Res, 2011 Nov. PMID 21958527
  3. Preferential expression of the secreted and membrane forms of tumor endothelial marker 7 transcripts in osteosarcoma. Halder C, et al. Anticancer Res, 2009 Nov. PMID 20032373, Free PMC Article
  4. TEM7 (PLXDC1) in neovascular endothelial cells of fibrovascular membranes from patients with proliferative diabetic retinopathy. Yamaji Y, et al. Invest Ophthalmol Vis Sci, 2008 Jul. PMID 18316703
  5. High expression of tumor endothelial marker 7 is associated with metastasis and poor survival of patients with osteogenic sarcoma. Fuchs B, et al. Gene, 2007 Sep 15. PMID 17560052, Free PMC Article

See all (26) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Plxdc family members are novel receptors for the rhesus monkey rhadinovirus (RRV).
    Title: Plxdc family members are novel receptors for the rhesus monkey rhadinovirus (RRV).
  2. Serum TEM5 and TEM7 concentrations correlate with clinicopathologic features and poor prognosis of colorectal cancer patients
    Title: Serum TEM5 and TEM7 concentrations correlate with clinicopathologic features and poor prognosis of colorectal cancer patients.
  3. Study revealed that over-expression of PLXDC1 per se was able to change partly the growth features of U87MG glioblastoma cells. Molecularly, PLXDC1 regulated the epithelial to mesenchymal transition program of tumor cells, whereby its silencing increased the mRNA levels of epithelial transcripts, whereas those of mesenchymal marker genes were reduced.
    Title: Glioblastoma endothelium drives bevacizumab-induced infiltrative growth via modulation of PLXDC1.
  4. PLXDC1 silencing by the HA-CH-NP/siRNA significantly inhibited tumor growth in A2780 tumor-bearing mice.
    Title: Selective delivery of PLXDC1 small interfering RNA to endothelial cells for anti-angiogenesis tumor therapy using CD44-targeted chitosan nanoparticles for epithelial ovarian cancer.
  5. Immunohistochemical analysis of 122 gliomas showed that TGLI1 expression was positively correlated with VEGF-C, TEM7 and microvessel density.
    Title: The gain-of-function GLI1 transcription factor TGLI1 enhances expression of VEGF-C and TEM7 to promote glioblastoma angiogenesis.
  6. PLXDC1 and PLXDC2 as the transmembrane receptors for the multifunctional factor PEDF.
    Title: Identification of PLXDC1 and PLXDC2 as the transmembrane receptors for the multifunctional factor PEDF.
  7. TEM-7 is a vascular protein associated with angiogenic states. TEM-7 is a novel and attractive target for antiangiogenic therapy.
    Title: Tumor endothelial marker 7 (TEM-7): a novel target for antiangiogenic therapy.
  8. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  9. All osteosarcoma cell lines, 6/9 tumors but none of the bone specimens expressed mRNA of TEM7 secreted forms 1 and 2.
    Title: Preferential expression of the secreted and membrane forms of tumor endothelial marker 7 transcripts in osteosarcoma.
  10. TEM7 may play significant role in proliferation and maintenance of neovascular endothelial cells in fibrovascular membranes. TEM7 may be molecular target for new diagnostic and therapeutic strategies for proliferative diabetic retinopathy.
    Title: TEM7 (PLXDC1) in neovascular endothelial cells of fibrovascular membranes from patients with proliferative diabetic retinopathy.
Submit: New GeneRIF Correction See all GeneRIFs (11)

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ36270, FLJ45632, DKFZp686F0937

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in angiogenesis NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in spinal cord development IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in bicellular tight junction IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in dendrite IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
located_in neuronal cell body IEA
Inferred from Electronic Annotation
more info
  
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
part_of receptor complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
plexin domain-containing protein 1
Names
2410003I07Rik
tumor endothelial marker 3
tumor endothelial marker 7

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.

mRNA and Protein(s)

  1. NM_020405.5 → NP_065138.2  plexin domain-containing protein 1 precursor

    See identical proteins and their annotated locations for NP_065138.2

    Status: VALIDATED

    Source sequence(s)
    AC091178, AF378753, AK312999, BC036059, DA205327
    Consensus CDS
    CCDS11333.1
    UniProtKB/Swiss-Prot
    B2R7I8, Q5QCZ7, Q5QCZ8, Q5QCZ9, Q8IUK5, Q9HCT9
    UniProtKB/TrEMBL
    B4E173
    Related
    ENSP00000323927.4, ENST00000315392.9
    Conserved Domains (3) summary
    pfam01437
    Location:303 → 347
    PSI; Plexin repeat
    pfam05283
    Location:303 → 441
    MGC-24; Multi-glycosylated core protein 24 (MGC-24), sialomucin
    cl02648
    Location:152 → 242
    NIDO; Nidogen-like

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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    39063313..39152967 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047436434.1 → XP_047292390.1  plexin domain-containing protein 1 isoform X15

  2. XM_047436432.1 → XP_047292388.1  plexin domain-containing protein 1 isoform X14

  3. XM_047436435.1 → XP_047292391.1  plexin domain-containing protein 1 isoform X15

    Related
    ENSP00000409687.2, ENST00000444911.6

  4. XM_047436428.1 → XP_047292384.1  plexin domain-containing protein 1 isoform X5

  5. XM_047436427.1 → XP_047292383.1  plexin domain-containing protein 1 isoform X4

  6. XM_047436426.1 → XP_047292382.1  plexin domain-containing protein 1 isoform X3

  7. XM_047436425.1 → XP_047292381.1  plexin domain-containing protein 1 isoform X2

  8. XM_047436424.1 → XP_047292380.1  plexin domain-containing protein 1 isoform X1

  9. XM_047436429.1 → XP_047292385.1  plexin domain-containing protein 1 isoform X6

  10. XM_047436431.1 → XP_047292387.1  plexin domain-containing protein 1 isoform X8

  11. XM_047436433.1 → XP_047292389.1  plexin domain-containing protein 1 isoform X9

  12. XM_047436436.1 → XP_047292392.1  plexin domain-containing protein 1 isoform X10

  13. XM_047436430.1 → XP_047292386.1  plexin domain-containing protein 1 isoform X7

  14. XM_047436437.1 → XP_047292393.1  plexin domain-containing protein 1 isoform X11

  15. XM_047436438.1 → XP_047292394.1  plexin domain-containing protein 1 isoform X12

  16. XM_047436439.1 → XP_047292395.1  plexin domain-containing protein 1 isoform X13

    Related
    ENSP00000462089.1, ENST00000578390.5

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    39927167..40015495 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054316715.1 → XP_054172690.1  plexin domain-containing protein 1 isoform X5

  2. XM_054316714.1 → XP_054172689.1  plexin domain-containing protein 1 isoform X4

  3. XM_054316713.1 → XP_054172688.1  plexin domain-containing protein 1 isoform X3

  4. XM_054316712.1 → XP_054172687.1  plexin domain-containing protein 1 isoform X2

  5. XM_054316711.1 → XP_054172686.1  plexin domain-containing protein 1 isoform X1

  6. XM_054316716.1 → XP_054172691.1  plexin domain-containing protein 1 isoform X6

  7. XM_054316718.1 → XP_054172693.1  plexin domain-containing protein 1 isoform X8

  8. XM_054316719.1 → XP_054172694.1  plexin domain-containing protein 1 isoform X9

  9. XM_054316720.1 → XP_054172695.1  plexin domain-containing protein 1 isoform X10

  10. XM_054316717.1 → XP_054172692.1  plexin domain-containing protein 1 isoform X7

  11. XM_054316721.1 → XP_054172696.1  plexin domain-containing protein 1 isoform X11

  12. XM_054316722.1 → XP_054172697.1  plexin domain-containing protein 1 isoform X12

  13. XM_054316723.1 → XP_054172698.1  plexin domain-containing protein 1 isoform X13

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8IUK5.2 GenPept UniProtKB/Swiss-Prot:Q8IUK5

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