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Sema3a
Gene Detail
Symbol

Name
ID
Sema3a
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A
MGI:107558
Synonyms
collapsin-1, Semad, sema III, semaphorin III, SemD
Feature Type
protein coding gene
Genetic Map
Chromosome 5
4.31 cM
Detailed Genetic Map ± 1 cM


Mapping data(2)
Sequence Map
Chr5:13396784-13602565 bp, + strand
From VEGA annotation of GRCm38

  205782 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:31358  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog; 1 zebrafish

HCOP human homology predictions: SEMA3A
Protein SuperFamily: semaphorin
Gene Tree: Sema3a

Human
homologs
SEMA3A, sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A
Orthology source: HomoloGene, HGNC

IDs:
NCBI Gene ID: 10371
neXtProt AC: NX_Q14563

Human Synonyms: coll-1, COLL1, HH16, Hsema-I, Hsema-III, SEMA1, SEMAD, SEMAIII, SEMAL, SemD

Human Chr (Location): 7p12.1; chr7:83956805-84492724 (-)  GRCh38.p2

Disease Associations: (1) Diseases Associated with Human SEMA3A

Mutations,
alleles, and
phenotypes
All mutations/alleles(8) : Chemically induced (ENU)(1) Targeted(7)
Incidental mutations (data from Mutagenetix , APF , CvDC )
 
Homozygotes for targeted null mutations exhibit patterning abnormalities of sensory and sympathetic neurons, abnormal embryonic bones and cartilaginous structures, cardiac defects, and high postnatal mortality.
 
Interactions
Sema3a interacts with 421 markers (Mir1a-1, Mir1a-2, Mir1b, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (53 annotations)
Process apoptotic process, axonal fasciculation, ...
Component axon, dendrite, ...
Function chemorepellent activity, neuropilin binding, ...
External Resources: FuncBase
Expression
Literature Summary: (95 records)
Data Summary: Results (297)    Tissues (266)    Images (61)    Tissue x Stage Matrix (view)
Assay TypeResults
Immunohistochemistry 5
RNA in situ 279
Northern blot 8
RT-PCR 5
cDNA source data(22)
Other mouse links: Allen Institute   GENSAT   GEO   Expression Atlas
Other vertebrate links: GEISHA SEMA3A ; Xenbase sema3a    NEW 
Molecular
reagents
All nucleic(31) Genomic(2) cDNA(24) Primer pair(3) Other(2)
Microarray probesets(7)
Other database
links
VEGA Gene Model OTTMUSG00000021298 (Evidence)
Ensembl Gene Model ENSMUSG00000028883 (Evidence)
Entrez Gene 20346 (Evidence)
DFCI TC1580481, TC1596640, TC1631240, TC1632021, TC1628192, TC1629532
DoTS DT.110667889, DT.101231690, DT.97389999, DT.101734769, DT.40184457, DT.101734768, DT.40158374
PDB 4GZA, 1Q47, 4GZ8
Consensus CDS Project CCDS19092.1
International Mouse Phenotyping Consortium Status Sema3a
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000021298 VEGA Gene Model | MGI Sequence Detail 205782 C57BL/6J ±  kb
transcript OTTMUST00000050495 VEGA | MGI Sequence Detail 4085 Not Applicable 
polypeptide OTTMUSP00000023580 VEGA | MGI Sequence Detail 772 Not Applicable 

For the selected sequences
All sequences(72) RefSeq(14) UniProt(4)
Polymorphisms
SNPs within 2kb(1220 from dbSNP Build 137)    SNPs within 2kb including multiple locations(1222)
Protein-related
information
ResourceIDDescription
InterPro IPR007110 Immunoglobulin-like domain
InterPro IPR013783 Immunoglobulin-like fold
InterPro IPR003599 Immunoglobulin subtype
InterPro IPR016201 Plexin-like fold
InterPro IPR027231 Semaphorin
InterPro IPR001627 Semaphorin/CD100 antigen
InterPro IPR015943 WD40/YVTN repeat-like-containing domain
Protein Ontology PR:000014615 semaphorin-3A
References
(Earliest) J:25500 Puschel AW, et al., Murine semaphorin D/collapsin is a member of a diverse gene family and creates domains inhibitory for axonal extension. Neuron. 1995 May;14(5):941-8
(Latest) J:217803 Sitaras N, et al., Retinal Neurons Curb Inflammation and Enhance Revascularization in Ischemic Retinopathies via Proteinase-Activated Receptor-2. Am J Pathol. 2015 Feb;185(2):581-95
All references(178)
Other
accession IDs
MGD-MRK-36129

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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last database update
06/23/2015
MGI 5.22
The Jackson Laboratory