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Aliases for SEMA3C Gene

Aliases for SEMA3C Gene

  • Semaphorin 3C 2 3
  • Sema Domain, Immunoglobulin Domain (Ig), Short Basic Domain, Secreted, (Semaphorin) 3C 2 3 5
  • Semaphorin-E 3 4
  • Sema E 3 4
  • SEMAE 3 4
  • Semaphorin E 3
  • SemE 3

External Ids for SEMA3C Gene

Previous HGNC Symbols for SEMA3C Gene


Previous GeneCards Identifiers for SEMA3C Gene

  • GC07M078907
  • GC07M079970
  • GC07M079983
  • GC07M080016
  • GC07M080209
  • GC07M080371
  • GC07M074974

Summaries for SEMA3C Gene

GeneCards Summary for SEMA3C Gene

SEMA3C (Semaphorin 3C) is a Protein Coding gene. Diseases associated with SEMA3C include hirschsprung disease 1 and schizophreniform disorder. Among its related pathways are Axon guidance. GO annotations related to this gene include receptor activity and semaphorin receptor binding. An important paralog of this gene is SEMA3F.

UniProtKB/Swiss-Prot for SEMA3C Gene

  • Binds to plexin family members and plays an important role in the regulation of developmental processes. Required for normal cardiovascular development during embryogenesis. Functions as attractant for growing axons, and thereby plays an important role in axon growth and axon guidance (By similarity).

Gene Wiki entry for SEMA3C Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SEMA3C Gene

Genomics for SEMA3C Gene

Regulatory Elements for SEMA3C Gene

Genomic Location for SEMA3C Gene

80,742,538 bp from pter
80,922,359 bp from pter
179,822 bases
Minus strand

Genomic View for SEMA3C Gene

Genes around SEMA3C on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEMA3C Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEMA3C Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEMA3C Gene

Proteins for SEMA3C Gene

  • Protein details for SEMA3C Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • B4DRL8

    Protein attributes for SEMA3C Gene

    751 amino acids
    Molecular mass:
    85207 Da
    Quaternary structure:
    • Interacts with PLXND1.

    Alternative splice isoforms for SEMA3C Gene


neXtProt entry for SEMA3C Gene

Proteomics data for SEMA3C Gene at MOPED

Post-translational modifications for SEMA3C Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SEMA3C Gene

Antibody Products

  • R&D Systems Antibodies for SEMA3C (Semaphorin 3C)

No data available for DME Specific Peptides for SEMA3C Gene

Domains & Families for SEMA3C Gene

Gene Families for SEMA3C Gene

Suggested Antigen Peptide Sequences for SEMA3C Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
  • Belongs to the semaphorin family.
  • Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
  • Contains 1 PSI domain.
  • Contains 1 Sema domain.
  • Belongs to the semaphorin family.
genes like me logo Genes that share domains with SEMA3C: view

Function for SEMA3C Gene

Molecular function for SEMA3C Gene

GENATLAS Biochemistry:
semaphorin 3C,secreted in the developing nervous system,repellent of the nerve growth cone guidance
UniProtKB/Swiss-Prot Function:
Binds to plexin family members and plays an important role in the regulation of developmental processes. Required for normal cardiovascular development during embryogenesis. Functions as attractant for growing axons, and thereby plays an important role in axon growth and axon guidance (By similarity).

LifeMap Function Summary for SEMA3C Gene

During embryonic development, SEMA3C as signaling molecule is secreted from the following cells
genes like me logo Genes that share phenotypes with SEMA3C: view

Human Phenotype Ontology for SEMA3C Gene

HPO Id HPO Name Alternative Ids Definition Synonyms

Animal Models for SEMA3C Gene

MGI Knock Outs for SEMA3C:

Animal Model Products

miRNA for SEMA3C Gene

miRTarBase miRNAs that target SEMA3C

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Transcription Factor Targets and HOMER Transcription for SEMA3C Gene

Localization for SEMA3C Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEMA3C Gene


Subcellular locations from

Jensen Localization Image for SEMA3C Gene COMPARTMENTS Subcellular localization image for SEMA3C gene
Compartment Confidence
extracellular 5
golgi apparatus 3
cytosol 2
plasma membrane 2
cytoskeleton 1
endoplasmic reticulum 1
lysosome 1
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for SEMA3C Gene

Pathways & Interactions for SEMA3C Gene

SuperPathways for SEMA3C Gene

Superpath Contained pathways
1 Axon guidance
genes like me logo Genes that share pathways with SEMA3C: view

Pathways by source for SEMA3C Gene

1 KEGG pathway for SEMA3C Gene

SIGNOR curated interactions for SEMA3C Gene


Gene Ontology (GO) - Biological Process for SEMA3C Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001755 neural crest cell migration IBA --
GO:0001756 somitogenesis IEA --
GO:0003151 outflow tract morphogenesis IEA --
GO:0003215 cardiac right ventricle morphogenesis IEA --
GO:0003350 pulmonary myocardium development IEA --
genes like me logo Genes that share ontologies with SEMA3C: view

Drugs & Compounds for SEMA3C Gene

(2) Drugs for SEMA3C Gene - From: Novoseek and PharmGKB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Irinotecan Approved, Investigational Pharma Topoisomerase I inhibitor, TOPO I inhibitor, Topoisomerase 1 Inhibitors 1044
genes like me logo Genes that share compounds with SEMA3C: view

Transcripts for SEMA3C Gene

Unigene Clusters for SEMA3C Gene

Sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SEMA3C Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21
SP1: - - -
SP2: -
SP3: -

Relevant External Links for SEMA3C Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SEMA3C Gene

mRNA expression in normal human tissues for SEMA3C Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SEMA3C Gene

This gene is overexpressed in Amniocyte (40.8), Lung (8.1), Liver, secretome (8.0), and Pancreas (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SEMA3C Gene

SOURCE GeneReport for Unigene cluster for SEMA3C Gene Hs.269109

mRNA Expression by UniProt/SwissProt for SEMA3C Gene

Tissue specificity: Expressed intensely in the heart, skeletal muscle, colon, small intestine, ovary, testis, and prostate. Faint expression ubiquitously among other organs, including brain.
genes like me logo Genes that share expression patterns with SEMA3C: view

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and Protein tissue co-expression partners for SEMA3C Gene

Orthologs for SEMA3C Gene

This gene was present in the common ancestor of animals.

Orthologs for SEMA3C Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia SEMA3C 35
  • 92.37 (n)
  • 95.87 (a)
  • 96 (a)
(Canis familiaris)
Mammalia SEMA3C 35
  • 92.36 (n)
  • 97.47 (a)
  • 97 (a)
(Mus musculus)
Mammalia Sema3c 35
  • 88.15 (n)
  • 97.07 (a)
Sema3c 16
Sema3c 36
  • 97 (a)
(Pan troglodytes)
Mammalia SEMA3C 35
  • 99.69 (n)
  • 99.87 (a)
  • 100 (a)
(Rattus norvegicus)
Mammalia Sema3c 35
  • 88.46 (n)
  • 96.8 (a)
(Monodelphis domestica)
Mammalia SEMA3C 36
  • 92 (a)
(Ornithorhynchus anatinus)
Mammalia SEMA3C 36
  • 91 (a)
(Gallus gallus)
Aves SEMA3C 35
  • 81.45 (n)
  • 89.21 (a)
  • 89 (a)
(Anolis carolinensis)
Reptilia SEMA3C 36
  • 89 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia sema3c 35
  • 76.43 (n)
  • 83.29 (a)
Str.7048 35
(Danio rerio)
Actinopterygii sema3c 35
  • 67.23 (n)
  • 71.59 (a)
sema3c 36
  • 69 (a)
fruit fly
(Drosophila melanogaster)
Insecta Sema-2a 37
  • 31 (a)
Species with no ortholog for SEMA3C:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SEMA3C Gene

Gene Tree for SEMA3C (if available)
Gene Tree for SEMA3C (if available)

Paralogs for SEMA3C Gene

genes like me logo Genes that share paralogs with SEMA3C: view

Variants for SEMA3C Gene

Sequence variations from dbSNP and Humsavar for SEMA3C Gene

SNP ID Clin Chr 07 pos Sequence Context AA Info Type
rs1527482 - 80,798,214(-) CAGCC(A/G)TGTGT reference, missense
rs35070362 - 80,802,676(-) ACACT(C/T)TGATG reference, missense
rs886660 -- 80,833,523(-) CCTGC(A/G)GTATT intron-variant
rs765764 -- 80,879,106(-) ATCCT(C/T)TCCTC intron-variant
rs765765 -- 80,879,067(-) GGGTT(C/T)TTCAC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SEMA3C Gene

Variant ID Type Subtype PubMed ID
nsv888512 CNV Loss 21882294
nsv888524 CNV Gain 21882294
esv274214 CNV Insertion 20981092
esv270195 CNV Insertion 20981092
esv2434401 CNV Deletion 19546169
esv3931 CNV Deletion 18987735
esv2673014 CNV Deletion 23128226

Variation tolerance for SEMA3C Gene

Residual Variation Intolerance Score: 7.58% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.14; 69.40% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SEMA3C Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEMA3C Gene

Disorders for SEMA3C Gene

MalaCards: The human disease database

(2) MalaCards diseases for SEMA3C Gene - From: Orphanet and DISEASES

Disorder Aliases PubMed IDs
hirschsprung disease 1
  • hirschsprung's disease
schizophreniform disorder
  • schizophreniform disorders
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SEMA3C

Genetic Association Database (GAD)
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with SEMA3C: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SEMA3C Gene

Publications for SEMA3C Gene

  1. Identification of semaphorin E as a non-MDR drug resistance gene of human cancers. (PMID: 9405678) Yamada T. … Hirohashi S. (Proc. Natl. Acad. Sci. U.S.A. 1997) 3 4 23 67
  2. Identification of human semaphorin E gene expression in rheumatoid synovial cells by mRNA differential display. (PMID: 9168980) Mangasser-Stephan K. … Hanselmann R.G. (Biochem. Biophys. Res. Commun. 1997) 2 3 23
  3. The cleavage of semaphorin 3C induced by ADAMTS1 promotes cell migration. (PMID: 19915008) Esselens C. … Arribas J. (J. Biol. Chem. 2010) 3 23
  4. GATA6 mutations cause human cardiac outflow tract defects by disrupting semaphorin-plexin signaling. (PMID: 19666519) Kodo K. … Yamagishi H. (Proc. Natl. Acad. Sci. U.S.A. 2009) 3 23
  5. Increased prevalence of semaphorin 3C, a repellent of sympathetic nerve fibers, in the synovial tissue of patients with rheumatoid arthritis. (PMID: 15077297) Miller L.E. … Straub R.H. (Arthritis Rheum. 2004) 3 23

Products for SEMA3C Gene

Sources for SEMA3C Gene

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