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Sema4d Gene Detail
Summary
  • Symbol
    Sema4d
  • Name
    sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4D
  • Synonyms
    CD100, coll-4, M-sema G, Semacl2, Semaj, semaphorin H, Semcl2
  • Feature Type
    protein coding gene
  • IDs
    MGI:109244
    NCBI Gene: 20354
  • Alliance
    gene page
  • Transcription Start Sites
    30 TSS
Location &
Maps
more
  • Sequence Map
    Chr13:51839565-51947783 bp, - strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 13, 26.16 cM, cytoband B1
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    3248 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_109244
 protein coding gene Chr13:51839565-51947823 (-)
129S1/SvImJ MGP_129S1SvImJ_G0020554
 protein coding gene Chr13:50928398-51042184 (-)
A/J MGP_AJ_G0020508
 protein coding gene Chr13:49121803-49218852 (-)
AKR/J MGP_AKRJ_G0020486
 protein coding gene Chr13:50514659-50614804 (-)
BALB/cJ MGP_BALBcJ_G0020504
 protein coding gene Chr13:49311615-49407589 (-)
C3H/HeJ MGP_C3HHeJ_G0020303
 protein coding gene Chr13:50359871-50465759 (-)
C57BL/6NJ MGP_C57BL6NJ_G0020938
 protein coding gene Chr13:52495304-52601381 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0018520
 protein coding gene Chr13:46918811-47011523 (-)
CAST/EiJ MGP_CASTEiJ_G0019817
 protein coding gene Chr13:50320388-50423241 (-)
CBA/J MGP_CBAJ_G0020263
 protein coding gene Chr13:54528852-54648337 (-)
DBA/2J MGP_DBA2J_G0020386
 protein coding gene Chr13:48688221-48785055 (-)
FVB/NJ MGP_FVBNJ_G0020365
 protein coding gene Chr13:48116117-48209595 (-)
LP/J MGP_LPJ_G0020462
 protein coding gene Chr13:51198179-51313538 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0020394
 protein coding gene Chr13:54129382-54242420 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0020981
 protein coding gene Chr13:50091207-50199228 (-)
PWK/PhJ MGP_PWKPhJ_G0019574
 protein coding gene Chr13:48612236-48706834 (-)
SPRET/EiJ MGP_SPRETEiJ_G0019401
 protein coding gene Chr13:48981348-49086714 (-)
WSB/EiJ MGP_WSBEiJ_G0019879
 protein coding gene Chr13:50403835-50523204 (-)



Homology
more
  • Human Ortholog
    SEMA4D, semaphorin 4D
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SEMA4D, semaphorin 4D
  • Synonyms
    A8, BB18, C9orf164, CD100, coll-4, COLL4, GR3, M-sema-G, SEMAJ
  • Links
    NCBI Gene ID: 10507
    neXtProt AC: NX_Q92854
    UniProt: Q92854

  • Chr Location
    9q22.2; chr9:89360787-89498130 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    18 phenotypes from 2 alleles in 4 genetic backgrounds
    3 phenotypes from multigenic genotypes
    48 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 disruptions in this gene display functional defects in their immune system but are normal in other systems of the body.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    73
  • GO References
    10
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
    843
  • Tissues
    85
  • cDNA Data
    100
  • Literature Summary
    26
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000021451 Ensembl Gene Model | MGI Sequence Detail 108219 C57BL/6J ±  kb
    transcript ENSMUST00000021900 Ensembl | MGI Sequence Detail 4482 Not Applicable  
    polypeptide ENSMUSP00000021900 Ensembl | MGI Sequence Detail 861 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 105
      cDNA 100
      Primer pair 2
      Other 3

      Microarray probesets 4
    Other
    Accession IDs
    less
    MGD-MRK-38289, MGI:895064
    References
    more
    • Summaries
      All 106
      Developmental Gene Expression 26
      Gene Ontology 10
      Phenotypes 48
    • Earliest
      J:182573 Roderick TH, Producing and detecting paracentric chromosomal inversions in mice. Mutat Res. 1971 Jan;11(1):59-69
    • Latest
      J:353444 Bessa P, et al., Semaphorin heterodimerization in cis regulates membrane targeting and neocortical wiring. Nat Commun. 2024 Aug 16;15(1):7059
    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)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    12/10/2024
    MGI 6.24     		The Jackson Laboratory