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Plxnc1 plexin C1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362873, updated on 10-Jul-2024

Summary

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Official Symbol
Plxnc1provided by RGD
Official Full Name
plexin C1provided by RGD
Primary source
RGD:1307420
See related
EnsemblRapid:ENSRNOG00000007970 AllianceGenome:RGD:1307420
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable semaphorin receptor activity. Predicted to be involved in several processes, including generation of neurons; regulation of GTPase activity; and regulation of cell shape. Predicted to be part of semaphorin receptor complex. Predicted to be integral component of plasma membrane. Orthologous to human PLXNC1 (plexin C1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 116.3), Spleen (RPKM 95.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Plxnc1 in Genome Data Viewer
Location:
7q13
Exon count:
36
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (31276978..31430823, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (29390038..29543985, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (35848083..36000969, complement)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene centrosomal protein 83, opposite strand Neighboring gene centrosomal protein 83 Neighboring gene uncharacterized LOC120093560 Neighboring gene uncharacterized LOC134479861 Neighboring gene uncharacterized LOC120093559 Neighboring gene uncharacterized LOC134479663 Neighboring gene uncharacterized LOC108351432

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Expression patterns of semaphorin7A and plexinC1 during rat neural development suggest roles in axon guidance and neuronal migration. Pasterkamp RJ, et al. BMC Dev Biol, 2007 Aug 29. PMID 17727705, Free PMC Article
  2. Endothelial semaphorin 7A promotes seawater aspiration-induced acute lung injury through plexin C1 and β1 integrin. Zhang M, et al. Mol Med Rep, 2017 Oct. PMID 28765893
  3. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SEMA7A promotes seawater induced lung edema via plexin C1 and stimulates seawater induced lung inflammation via beta1 integrin.
    Title: Endothelial semaphorin 7A promotes seawater aspiration-induced acute lung injury through plexin C1 and β1 integrin.
  2. Sema7A and plexinC1 expression patterns are consistent with these proteins serving both cooperative and separate functions during neural development
    Title: Expression patterns of semaphorin7A and plexinC1 during rat neural development suggest roles in axon guidance and neuronal migration.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables semaphorin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in negative regulation of cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in positive regulation of axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of cell shape IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of synapse pruning ISO
Inferred from Sequence Orthology
more info
  
involved_in semaphorin-plexin signaling pathway IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cerebellar climbing fiber to Purkinje cell synapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of semaphorin receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
plexin-C1

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_001426988.1 → NP_001413917.1  plexin-C1 precursor

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000007
    UniProtKB/TrEMBL
    A0A8I5ZKT8, D4A7M0
    Related
    ENSRNOP00000078419.2, ENSRNOT00000106534.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086025.1 Reference GRCr8

    Range
    31276978..31430823 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039080100.2 → XP_038936028.2  plexin-C1 isoform X1

    UniProtKB/TrEMBL
    D4A7M0

  2. XM_039080102.2 → XP_038936030.1  plexin-C1 isoform X4

    Conserved Domains (4) summary
    smart00429
    Location:204 → 296
    IPT; ig-like, plexins, transcription factors
    pfam01437
    Location:39 → 83
    PSI; Plexin repeat
    pfam01833
    Location:115 → 201
    TIG; IPT/TIG domain
    pfam08337
    Location:467 → 990
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain

  3. XM_039080103.2 → XP_038936031.1  plexin-C1 isoform X4

    Conserved Domains (4) summary
    smart00429
    Location:204 → 296
    IPT; ig-like, plexins, transcription factors
    pfam01437
    Location:39 → 83
    PSI; Plexin repeat
    pfam01833
    Location:115 → 201
    TIG; IPT/TIG domain
    pfam08337
    Location:467 → 990
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain

  4. XM_039080101.2 → XP_038936029.2  plexin-C1 isoform X2

    UniProtKB/TrEMBL
    D4A7M0
    Related
    ENSRNOP00000081399.2, ENSRNOT00000102613.2

  5. XM_063263772.1 → XP_063119842.1  plexin-C1 isoform X3

    UniProtKB/TrEMBL
    D4A7M0

RNA

  1. XR_005486861.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001108744.1: Suppressed sequence

    Description
    NM_001108744.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: PLXNC1 (GeneID:10154).
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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Other Literature Sources
Chemical Information
Molecular Biology Databases
Research Materials