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PLXDC2 plexin domain containing 2 [ Homo sapiens (human) ]

Gene ID: 84898, updated on 3-Apr-2024

Summary

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Official Symbol
PLXDC2provided by HGNC
Official Full Name
plexin domain containing 2provided by HGNC
Primary source
HGNC:HGNC:21013
See related
Ensembl:ENSG00000120594 MIM:606827; AllianceGenome:HGNC:21013
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
TEM7R; PLXDC2-OT
Summary
Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in gall bladder (RPKM 10.7), lung (RPKM 7.5) and 24 other tissues See more
Orthologs
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Genomic context

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Location:
10p12.31
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (19816432..20289856)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (19834692..20308236)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (20105361..20578785)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902388 Neighboring gene RNA, U6 small nuclear 1212, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:20104285-20105050 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:20208919-20209420 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3117 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3118 Neighboring gene NANOG hESC enhancer GRCh37_chr10:20408149-20408686 Neighboring gene NANOG hESC enhancer GRCh37_chr10:20413464-20413975 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:20546341-20546868 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr10:20659563-20660207 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:20661486-20662107 Neighboring gene adenosylmethionine decarboxylase 1 pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:20716465-20716965 Neighboring gene microRNA 4675

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. The Upregulation of PLXDC2 Correlates with Immune Microenvironment Characteristics and Predicts Prognosis in Gastric Cancer. Li Y, et al. Dis Markers, 2021. PMID 34777633, Free PMC Article
  2. Plexin domain containing protein 2 is more expressed within the invasive area of human colorectal cancer tissues. Hamada Y, et al. Hum Cell, 2021 Sep. PMID 34146255
  3. Expression Pattern of Plexin Domain Containing 2 in Human Hepatocellular Carcinoma. Yamamoto N, et al. Monoclon Antib Immunodiagn Immunother, 2020 Apr. PMID 32202949
  4. A Genome Wide Association Study on plasma FV levels identified PLXDC2 as a new modifier of the coagulation process. Thibord F, et al. J Thromb Haemost, 2019 Nov. PMID 31271701
  5. Plexin domain containing 2 (PLXDC2) gene polymorphism rs7081455 may not influence POAG risk in a Saudi cohort. Kondkar AA, et al. BMC Res Notes, 2018 Oct 16. PMID 30326957, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Adaptive c-Met-PLXDC2 Signaling Axis Mediates Cancer Stem Cell Plasticity to Confer Radioresistance-associated Aggressiveness in Head and Neck Cancer.
    Title: Adaptive c-Met-PLXDC2 Signaling Axis Mediates Cancer Stem Cell Plasticity to Confer Radioresistance-associated Aggressiveness in Head and Neck Cancer.
  2. The Upregulation of PLXDC2 Correlates with Immune Microenvironment Characteristics and Predicts Prognosis in Gastric Cancer.
    Title: The Upregulation of PLXDC2 Correlates with Immune Microenvironment Characteristics and Predicts Prognosis in Gastric Cancer.
  3. Plexin domain containing protein 2 is more expressed within the invasive area of human colorectal cancer tissues.
    Title: Plexin domain containing protein 2 is more expressed within the invasive area of human colorectal cancer tissues.
  4. 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).
  5. Expression Pattern of Plexin Domain Containing 2 in Human Hepatocellular Carcinoma.
    Title: Expression Pattern of Plexin Domain Containing 2 in Human Hepatocellular Carcinoma.
  6. A Genome Wide Association Study on plasma FV levels identified PLXDC2 as a new modifier of the coagulation process.
    Title: A Genome Wide Association Study on plasma FV levels identified PLXDC2 as a new modifier of the coagulation process.
  7. PLXDC2 rs7081455 is not associated with primary open angle glaucoma or its clinical phenotypes in patients of Saudi origin.
    Title: Plexin domain containing 2 (PLXDC2) gene polymorphism rs7081455 may not influence POAG risk in a Saudi cohort.
  8. The genetic variant near the PLXDC2 gene was found to influence the risk of POAG by increasing IOP in the Japanese population.
    Title: Genetic Variant Near PLXDC2 Influences the Risk of Primary Open-angle Glaucoma by Increasing Intraocular Pressure in the Japanese Population.
  9. 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.
  10. We identified a genetic association for susceptibility to retinopathy in 5 novel chromosomal regions and PLXDC2 and ARHGAP22, the latter 2 of which are genes implicated in endothelial cell angiogenesis and increased capillary permeability.
    Title: Genome-wide association study of diabetic retinopathy in a Taiwanese population.
Submit: New GeneRIF Correction See all GeneRIFs (13)

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

EBI GWAS Catalog

Description
A genome-wide association study (GWAS) for bronchopulmonary dysplasia.
EBI GWAS Catalog
Genome-wide association study of diabetic retinopathy in a Taiwanese population.
EBI GWAS Catalog

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

  • FLJ14623

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
plexin domain-containing protein 2
Names
1200007L24Rik
tumor endothelial marker 7-related protein

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_001282736.2 → NP_001269665.1  plexin domain-containing protein 2 isoform 2

    See identical proteins and their annotated locations for NP_001269665.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
    Source sequence(s)
    AC067743, AI311457, AL353147, AL353790, AY358486, BC012885
    Consensus CDS
    CCDS60497.1
    UniProtKB/TrEMBL
    B4E367
    Related
    ENSP00000366450.3, ENST00000377242.7
    Conserved Domains (2) summary
    pfam01437
    Location:278 → 323
    PSI; Plexin repeat
    cl02648
    Location:142 → 233
    NIDO; Nidogen-like

  2. NM_032812.9 → NP_116201.7  plexin domain-containing protein 2 isoform 1 precursor

    See identical proteins and their annotated locations for NP_116201.7

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC067743, AI311457, AL353147, AL353790, AY358486
    Consensus CDS
    CCDS7132.1
    UniProtKB/Swiss-Prot
    Q6UX71, Q96E59, Q96PD9, Q96SU9
    UniProtKB/TrEMBL
    B4E367
    Related
    ENSP00000366460.3, ENST00000377252.5
    Conserved Domains (2) summary
    pfam01437
    Location:327 → 372
    PSI; Plexin repeat
    cl02648
    Location:191 → 282
    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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    19816432..20289856
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011519750.3 → XP_011518052.1  plexin domain-containing protein 2 isoform X1

    UniProtKB/TrEMBL
    B4E367
    Conserved Domains (2) summary
    pfam01437
    Location:327 → 372
    PSI; Plexin repeat
    cl02648
    Location:191 → 282
    NIDO; Nidogen-like

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    19834692..20308236
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054367033.1 → XP_054223008.1  plexin domain-containing protein 2 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6UX71.1 GenPept UniProtKB/Swiss-Prot:Q6UX71

Gene LinkOut

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