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    Plxdc1 plexin domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 72324, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Plxdc1provided by MGI
    Official Full Name
    plexin domain containing 1provided by MGI
    Primary source
    MGI:MGI:1919574
    See related
    Ensembl:ENSMUSG00000017417 AllianceGenome:MGI:1919574
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Tem7; 2410003I07Rik
    Summary
    Predicted to be involved in spinal cord development. Located in cytoplasm and plasma membrane. Orthologous to human PLXDC1 (plexin domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in testis adult (RPKM 22.2), thymus adult (RPKM 19.3) and 12 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Plxdc1 in Genome Data Viewer
    Location:
    11 D; 11 61.31 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (97814063..97879393, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (97923237..97986669, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA B230217C12 gene Neighboring gene STARR-seq mESC enhancer starr_30642 Neighboring gene F-box protein 47 Neighboring gene STARR-seq mESC enhancer starr_30643 Neighboring gene STARR-positive B cell enhancer ABC_E3011 Neighboring gene STARR-seq mESC enhancer starr_30644 Neighboring gene STARR-seq mESC enhancer starr_30646 Neighboring gene STARR-seq mESC enhancer starr_30648 Neighboring gene predicted gene 11633 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:97839153-97839454 Neighboring gene STARR-positive B cell enhancer ABC_E7053 Neighboring gene STARR-positive B cell enhancer ABC_E3012 Neighboring gene STARR-positive B cell enhancer ABC_E5273 Neighboring gene STARR-positive B cell enhancer ABC_E10711 Neighboring gene nuclear encoded tRNA cysteine 55 (anticodon GCA) Neighboring gene nuclear encoded tRNA cysteine 54 (anticodon GCA) Neighboring gene ADP-ribosylation factor-like 5C

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Modulation of tumor endothelial cell marker 7 expression during endothelial cell capillary morphogenesis. Wang XQ, et al. Microvasc Res, 2005 Nov. PMID 16202431
    2. A fusion-protein approach enabling mammalian cell production of tumor targeting protein domains for therapeutic development. Hu J, et al. Protein Sci, 2018 May. PMID 29500915, Free PMC Article
    3. Gene targeting using a promoterless gene trap vector ("targeted trapping") is an efficient method to mutate a large fraction of genes. Friedel RH, et al. Proc Natl Acad Sci U S A, 2005 Sep 13. PMID 16129827, Free PMC Article
    4. LDL receptor-related protein 1 regulates the abundance of diverse cell-signaling proteins in the plasma membrane proteome. Gaultier A, et al. J Proteome Res, 2010 Dec 3. PMID 20919742, Free PMC Article
    5. Identification of a binding partner for the endothelial cell surface proteins TEM7 and TEM7R. Nanda A, et al. Cancer Res, 2004 Dec 1. PMID 15574754

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A novel fusion expression system based on mouse TEM7 (tumor endothelial marker 7), which could facilitate protein expression.
      Title: A fusion-protein approach enabling mammalian cell production of tumor targeting protein domains for therapeutic development.
    2. Studies identify Plxdc1, Sema4D, and neuropilin-1 as novel LRP1-regulated cell-signaling proteins.
      Title: LDL receptor-related protein 1 regulates the abundance of diverse cell-signaling proteins in the plasma membrane proteome.
    3. TEM7 is a novel protein whose cell surface expression is essential during endothelial cell capillary morphogenesis
      Title: Modulation of tumor endothelial cell marker 7 expression during endothelial cell capillary morphogenesis.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (5) 
    • Gene trapped (1) 
    • Targeted (1)  1 citation

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC130377

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in dendrite ISO
    Inferred from Sequence Orthology
    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 neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    part_of receptor complex ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    plexin domain-containing protein 1
    Names
    TEM7 related

    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_001163608.1 → NP_001157080.1  plexin domain-containing protein 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001157080.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AI848450, AK036144, AL591209
      Consensus CDS
      CCDS48897.1
      UniProtKB/Swiss-Prot
      Q91ZV7
      Related
      ENSMUSP00000103191.3, ENSMUST00000107565.3
      Conserved Domains (3) summary
      pfam01437
      Location:311 → 355
      PSI; Plexin repeat
      pfam15756
      Location:367 → 455
      DUF4690; Domain of unknown function (DUF4690)
      cl02648
      Location:160 → 266
      NIDO; Nidogen-like

    2. NM_028199.3 → NP_082475.3  plexin domain-containing protein 1 isoform 2 precursor

      See identical proteins and their annotated locations for NP_082475.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
      Source sequence(s)
      AI848450, AK153684, AL591209, BB129646
      Consensus CDS
      CCDS25333.1
      UniProtKB/Swiss-Prot
      A2A537, A2A538, Q29R73, Q8BM20, Q91ZV7, Q9CWV5
      UniProtKB/TrEMBL
      A0A172Q399
      Related
      ENSMUSP00000017561.9, ENSMUST00000017561.15
      Conserved Domains (3) summary
      pfam05283
      Location:304 → 441
      MGC-24; Multi-glycosylated core protein 24 (MGC-24), sialomucin
      pfam01437
      Location:304 → 348
      PSI; Plexin repeat
      cl02648
      Location:153 → 259
      NIDO; Nidogen-like

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      97814063..97879393 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036157011.1 → XP_036012904.1  plexin domain-containing protein 1 isoform X2

      Conserved Domains (3) summary
      pfam05283
      Location:143 → 280
      MGC-24; Multi-glycosylated core protein 24 (MGC-24), sialomucin
      pfam01437
      Location:143 → 187
      PSI; Plexin repeat
      cl02648
      Location:4 → 98
      NIDO; Nidogen-like

    2. XM_006534301.5 → XP_006534364.1  plexin domain-containing protein 1 isoform X1

      Conserved Domains (1) summary
      cl02648
      Location:238 → 344
      NIDO; Nidogen-like
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q91ZV7.2 GenPept UniProtKB/Swiss-Prot:Q91ZV7

    Gene LinkOut

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

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