About   Help   FAQ
Sema3c Gene Detail
Summary
  • Symbol
    Sema3c
  • Name
    sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3C
  • Synonyms
    1110036B02Rik, Semae
  • Feature Type
    protein coding gene
  • IDs
    MGI:107557
    NCBI Gene: 20348
  • Alliance
    genome feature page
  • Transcription Start Sites
    17 TSS
Location &
Maps
more
  • Sequence Map
    Chr5:17779814-17935266 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 5, 7.99 cM
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    5027 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_107557
 protein coding gene Chr5:17779279-17935266 (+)
129S1/SvImJ ENSMUSG00200009568
 protein coding gene Chr5:13400714-13546995 (+)
A/J ENSMUSG00195038265
 protein coding gene Chr5:12885512-13041523 (+)
AKR/J ENSMUSG00220035477
 protein coding gene Chr5:12851384-12999789 (+)
BALB/cJ ENSMUSG00180023519
 protein coding gene Chr5:12742624-12898619 (+)
C3H/HeJ ENSMUSG00175025534
 protein coding gene Chr5:14694579-14850580 (+)
C57BL/6NJ ENSMUSG00215017101
 protein coding gene Chr5:13310091-13466092 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0026974
 protein coding gene Chr5:12795632-12945928 (+)
CAST/EiJ ENSTCUG00005002980
 protein coding gene Chr5:13053749-13197387 (+)
CBA/J ENSMUSG00210004468
 protein coding gene Chr5:13733970-13889966 (+)
DBA/2J ENSMUSG00185016841
 protein coding gene Chr5:15207430-15378104 (+)
FVB/NJ ENSMUSG00205027188
 protein coding gene Chr5:12447621-12603622 (+)
JF1/MsJ ENSUMUG00000001527
 protein coding gene Chr5:19864239-20010496 (+)
LP/J ENSMUSG00230002777
 protein coding gene Chr5:19721686-19867965 (+)
NOD/ShiLtJ ENSMUSG00190004409
 protein coding gene Chr5:12760598-12916611 (+)
NZO/HlLtJ ENSMUSG00225008583
 protein coding gene Chr5:25111292-25267289 (+)
PWK/PhJ ENSLUMG00010034281
 protein coding gene Chr5:12884581-13028852 (+)
SPRET/EiJ ENSMSPG00010027566
 protein coding gene Chr5:13662203-13808382 (+)
WSB/EiJ ENSIUOG00005030869
 protein coding gene Chr5:15577307-15733143 (+)



Homology
more
  • Human Ortholog
    SEMA3C, semaphorin 3C
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SEMA3C, semaphorin 3C
  • Synonyms
    SEMAE, SemE
  • Links
    NCBI Gene ID: 10512
    UniProt: Q99985

  • Chr Location
    7q21.11; chr7:80742538-80922389 (-)  GRCh38
Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    17 phenotypes from 2 alleles in 3 genetic backgrounds
    1 phenotype from multigenic genotypes
    28 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Mice homozygous for an ENU mutation exhibit perinatal lethality, hypopigmentation and abnormal heart development. Mice homozygous for a knock-out allele exhibit prenatal lethality associated with heart defects.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    39
  • GO References
    12
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    1100
  • Tissues
    375
  • cDNA Data
    25
  • Literature Summary
    126
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 20348 NCBI Gene Model | MGI Sequence Detail 155453 C57BL/6J ±  kb
    transcript NM_013657 RefSeq | MGI Sequence Detail 4956 C57BL/6  
    polypeptide Q62181 UniProt | EBI | MGI Sequence Detail 751 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 63
      Genomic 1
      cDNA 28
      Primer pair 13
      Other 21

      Microarray probesets 6
    Other
    Accession IDs
    less
    MGD-MRK-36128, MGI:1915946
    References
    more
    • Summaries
      All 181
      Developmental Gene Expression 126
      Diseases 1
      Gene Ontology 12
      Phenotypes 28
    • Earliest
      J:109968 Roderick TH, et al., Nineteen paracentric chromosomal inversions in mice. Genetics. 1974 Jan;76(1):109-17
    • Latest
      J:366801 Shen J, et al., Semaphorin3C identified as mediator of neuroinflammation and microglia polarization after spinal cord injury. iScience. 2024 May 17;27(5):109649
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
    Warranty Disclaimer, Privacy Notice, Licensing, & Copyright
    Send questions and comments to User Support.     		last database update
    09/08/2026
    MGI 6.24     		The Jackson Laboratory