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Sema3c semaphorin 3C [ Rattus norvegicus (Norway rat) ]

Gene ID: 296787, updated on 11-Apr-2024

Summary

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Official Symbol
Sema3cprovided by RGD
Official Full Name
semaphorin 3Cprovided by RGD
Primary source
RGD:1309343
See related
Ensembl:ENSRNOG00000006526 AllianceGenome:RGD:1309343
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable chemorepellent activity and semaphorin receptor binding activity. Predicted to be involved in several processes, including generation of neurons; mesenchymal cell differentiation; and outflow tract septum morphogenesis. Predicted to act upstream of or within several processes, including chordate embryonic development; circulatory system development; and dichotomous subdivision of terminal units involved in salivary gland branching. Predicted to be active in extracellular space. Predicted to be integral component of plasma membrane. Orthologous to human SEMA3C (semaphorin 3C). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Lung (RPKM 607.3), Muscle (RPKM 350.0) and 8 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
4q11
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (18538452..18702453, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (17583212..17747234, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (14318276..14490438, complement)

Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene platelet glycoprotein 4-like Neighboring gene CD36 molecule, pseudogene 1 Neighboring gene uncharacterized LOC120102215 Neighboring gene ribosomal protein S9, pseudogene 5 Neighboring gene uncharacterized LOC102551002

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. The axonal guidance cue semaphorin 3C contributes to alveolar growth and repair. Vadivel A, et al. PLoS One, 2013. PMID 23840631, Free PMC Article
  2. Expression of Semaphorin3C in axotomized rodent facial and rubrospinal neurons. Oschipok LW, et al. Neurosci Lett, 2008 Mar 21. PMID 18308469
  3. Increased prevalence of semaphorin 3C, a repellent of sympathetic nerve fibers, in the synovial tissue of patients with rheumatoid arthritis. Miller LE, et al. Arthritis Rheum, 2004 Apr. PMID 15077297
  4. Identification of human semaphorin E gene expression in rheumatoid synovial cells by mRNA differential display. Mangasser-Stephan K, et al. Biochem Biophys Res Commun, 1997 May 8. PMID 9168980
  5. Semaphorins 3A, 3C, and 3F in mesencephalic dopaminergic axon pathfinding. Hernández-Montiel HL, et al. J Comp Neurol, 2008 Jan 20. PMID 18041777

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Sema3C promotes normal alveolar growth.
    Title: The axonal guidance cue semaphorin 3C contributes to alveolar growth and repair.
  2. This demonstrates that increased Sema3C mRNA levels in axotomized rubrospinal neurons is common to both mouse and rat injury models.
    Title: Expression of Semaphorin3C in axotomized rodent facial and rubrospinal neurons.
  3. Sema3C had an attractive effect and enhanced axon growth
    Title: Semaphorins 3A, 3C, and 3F in mesencephalic dopaminergic axon pathfinding.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Clone Names

  • MGC189535

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables semaphorin receptor binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in axon guidance ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within blood vessel remodeling ISO
Inferred from Sequence Orthology
more info
  
involved_in cardiac endothelial to mesenchymal transition ISO
Inferred from Sequence Orthology
more info
  
involved_in cardiac right ventricle morphogenesis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within dichotomous subdivision of terminal units involved in salivary gland branching ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within heart development ISO
Inferred from Sequence Orthology
more info
  
involved_in limb bud formation ISO
Inferred from Sequence Orthology
more info
  
involved_in negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in neural crest cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within neural crest cell migration ISO
Inferred from Sequence Orthology
more info
  
involved_in neural tube development ISO
Inferred from Sequence Orthology
more info
  
involved_in outflow tract morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in outflow tract septum morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cardiac neural crest cell migration involved in outflow tract morphogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within post-embryonic development ISO
Inferred from Sequence Orthology
more info
  
involved_in pulmonary myocardium development ISO
Inferred from Sequence Orthology
more info
  
involved_in semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in semaphorin-plexin signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in somitogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular space ISO
Inferred from Sequence Orthology
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
semaphorin-3C
Names
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C

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_001106578.1 → NP_001100048.1  semaphorin-3C precursor

    See identical proteins and their annotated locations for NP_001100048.1

    Status: PROVISIONAL

    Source sequence(s)
    BC169108
    UniProtKB/TrEMBL
    A0A8I6A4P5, B5DFL7
    Conserved Domains (4) summary
    cd05871
    Location:575 → 664
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11251
    Location:45 → 514
    Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
    smart00410
    Location:579 → 653
    IG_like; Immunoglobulin like
    smart00423
    Location:513 → 550
    PSI; domain found in Plexins, Semaphorins and Integrins

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_086022.1 Reference GRCr8

    Range
    18538452..18702453 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008762645.4 → XP_008760867.1  semaphorin-3C isoform X1

    UniProtKB/TrEMBL
    A0A8I6A4P5, F7FHT4
    Related
    ENSRNOP00000009132.6
    Conserved Domains (4) summary
    cd05871
    Location:584 → 673
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11251
    Location:51 → 520
    Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
    smart00410
    Location:588 → 662
    IG_like; Immunoglobulin like
    smart00423
    Location:519 → 556
    PSI; domain found in Plexins, Semaphorins and Integrins

  2. XM_008762646.4 → XP_008760868.1  semaphorin-3C isoform X2

    UniProtKB/TrEMBL
    A0A8I6A4P5
    Related
    ENSRNOP00000086874.1
    Conserved Domains (4) summary
    cd05871
    Location:581 → 670
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11251
    Location:51 → 520
    Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
    smart00410
    Location:585 → 659
    IG_like; Immunoglobulin like
    smart00423
    Location:519 → 556
    PSI; domain found in Plexins, Semaphorins and Integrins
Nucleotide Protein Strain
Heading Accession and Version

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