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Sema3c sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C [ Mus musculus (house mouse) ]

Gene ID: 20348, updated on 8-Feb-2024

Summary

Official Symbol
Sema3cprovided by MGI
Official Full Name
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Cprovided by MGI
Primary source
MGI:MGI:107557
See related
Ensembl:ENSMUSG00000028780 AllianceGenome:MGI:107557
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
SemE; Semae; 1110036B02Rik
Summary
Enables semaphorin receptor binding activity. Involved in several processes, including cardiac endothelial to mesenchymal transition; outflow tract septum morphogenesis; and positive regulation of cardiac neural crest cell migration involved in outflow tract morphogenesis. Acts upstream of or within several processes, including chordate embryonic development; circulatory system development; and dichotomous subdivision of terminal units involved in salivary gland branching. Located in extracellular space. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; heart; and sensory organ. Orthologous to human SEMA3C (semaphorin 3C). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in bladder adult (RPKM 26.3), lung adult (RPKM 25.9) and 17 other tissues See more
Orthologs
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Genomic context

See Sema3c in Genome Data Viewer
Location:
5 A3; 5 7.99 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (17779814..17935266)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (17574816..17730268)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene Neighboring gene predicted gene, 31555 Neighboring gene STARR-seq mESC enhancer starr_12499 Neighboring gene STARR-positive B cell enhancer mm9_chr5:17322004-17322304 Neighboring gene CD36 molecule Neighboring gene STARR-positive B cell enhancer ABC_E6307 Neighboring gene STARR-positive B cell enhancer ABC_E8043 Neighboring gene predicted gene, 31612

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

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 IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in axon guidance IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within blood vessel remodeling IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cardiac endothelial to mesenchymal transition IDA
Inferred from Direct Assay
more info
PubMed 
involved_in cardiac right ventricle morphogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within dichotomous subdivision of terminal units involved in salivary gland branching IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within heart development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in limb bud formation IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of axon extension involved in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
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 IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in neural tube development IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in outflow tract morphogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in outflow tract septum morphogenesis IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in outflow tract septum morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cardiac neural crest cell migration involved in outflow tract morphogenesis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within post-embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in pulmonary myocardium development IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in semaphorin-plexin signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in somitogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
located_in collagen-containing extracellular matrix HDA PubMed 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular space HDA PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
semaphorin-3C
Names
sema E
semaphorin E

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_013657.5NP_038685.3  semaphorin-3C precursor

    See identical proteins and their annotated locations for NP_038685.3

    Status: PROVISIONAL

    Source sequence(s)
    AC122936, AC161507
    Consensus CDS
    CCDS19099.1
    UniProtKB/Swiss-Prot
    Q62181, Q6NXW7
    Related
    ENSMUSP00000030568.8, ENSMUST00000030568.14
    Conserved Domains (4) summary
    cd05871
    Location:575664
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11251
    Location:45514
    Sema_3C; The Sema domain, a protein interacting module, of semaphorin 3C (Sema3C)
    smart00410
    Location:579653
    IG_like; Immunoglobulin like
    smart00423
    Location:513550
    PSI; domain found in Plexins, Semaphorins and Integrins

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_000071.7 Reference GRCm39 C57BL/6J

    Range
    17779814..17935266
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)