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Sema6a Gene Detail
Summary
  • Symbol
    Sema6a
  • Name
    sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A
  • Synonyms
    A730020P05Rik, sema, Sema6A-1, Semaq, VIa
  • Feature Type
    protein coding gene
  • IDs
    MGI:1203727
    NCBI Gene: 20358
  • Alliance
    gene page
  • Transcription Start Sites
    20 TSS
Location &
Maps
more
  • Sequence Map
    Chr18:47378321-47504267 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 18, 25.08 cM, cytoband C
  • Mapping Data
    3 experiments
Strain
Comparison
more
  • SNPs within 2kb
    3265 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1203727
 protein coding gene Chr18:47368665-47504267 (-)
129S1/SvImJ MGP_129S1SvImJ_G0024417
 protein coding gene Chr18:46094965-46231476 (-)
A/J MGP_AJ_G0024383
 protein coding gene Chr18:44418249-44555158 (-)
AKR/J MGP_AKRJ_G0024352
 protein coding gene Chr18:45631438-45766977 (-)
BALB/cJ MGP_BALBcJ_G0024383
 protein coding gene Chr18:44518761-44653657 (-)
C3H/HeJ MGP_C3HHeJ_G0024150
 protein coding gene Chr18:45730734-45865110 (-)
C57BL/6NJ MGP_C57BL6NJ_G0024828
 protein coding gene Chr18:47707777-47842808 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0022262
 protein coding gene Chr18:44206348-44334108 (-)
CAST/EiJ MGP_CASTEiJ_G0023625
 protein coding gene Chr18:45666494-45805112 (-)
CBA/J MGP_CBAJ_G0024119
 protein coding gene Chr18:48999670-49138452 (-)
DBA/2J MGP_DBA2J_G0024249
 protein coding gene Chr18:44013751-44145721 (-)
FVB/NJ MGP_FVBNJ_G0024216
 protein coding gene Chr18:43579371-43711857 (-)
LP/J MGP_LPJ_G0024334
 protein coding gene Chr18:46152559-46288544 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0024247
 protein coding gene Chr18:50354849-50490927 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0024875
 protein coding gene Chr18:45563602-45696894 (-)
PWK/PhJ MGP_PWKPhJ_G0023368
 protein coding gene Chr18:44167284-44302766 (-)
SPRET/EiJ MGP_SPRETEiJ_G0023174
 protein coding gene Chr18:45738719-45875290 (-)
WSB/EiJ MGP_WSBEiJ_G0023688
 protein coding gene Chr18:45454030-45594794 (-)



Homology
more
  • Human Ortholog
    SEMA6A, semaphorin 6A
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SEMA6A, semaphorin 6A
  • Synonyms
    HT018, SEMA, SEMA6A1, SEMAQ, VIA
  • Links
    NCBI Gene ID: 57556
    neXtProt AC: NX_Q9H2E6
    UniProt: Q9H2E6

  • Chr Location
    5q23.1; chr5:116443555-116574823 (-)  GRCh38
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    11 phenotypes from 1 allele in 3 genetic backgrounds
    8 phenotypes from multigenic genotypes
    45 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 a gene trapped allele exhibit defects in lamina-specific neurite stratification of specific retinal neuron subtypes and disruption of the dendritic plexus organization of On but not Off starburst amacrine cells.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    33
  • GO References
    9
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
    1213
  • Tissues
    218
  • cDNA Data
    18
  • Literature Summary
    56
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 20358 NCBI Gene Model | MGI Sequence Detail 125947 C57BL/6J ±  kb
    transcript NM_018744 RefSeq | MGI Sequence Detail 6901 C57BL/6  
    polypeptide O35464 UniProt | EBI | MGI Sequence Detail 1031 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 26
      cDNA 20
      Primer pair 2
      Other 4

      Microarray probesets 9
    Other
    Accession IDs
    less
    MGI:2147277, MGI:2443196
    References
    more
    • Summaries
      All 120
      Developmental Gene Expression 56
      Gene Ontology 9
      Phenotypes 45
    • Earliest
      J:37600 Puschel AW, et al., The sensory innervation of the mouse spinal cord may be patterned by differential expression of and differential responsiveness to semaphorins. Mol Cell Neurosci. 1996 May;7(5):419-31
    • 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