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Sema3e sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E [ Mus musculus (house mouse) ]

Gene ID: 20349, updated on 2-Nov-2024

Summary

Official Symbol
Sema3eprovided by MGI
Official Full Name
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Eprovided by MGI
Primary source
MGI:MGI:1340034
See related
Ensembl:ENSMUSG00000063531 AllianceGenome:MGI:1340034
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Semah; mKIAA0331; 6430702L12
Summary
Enables semaphorin receptor binding activity. Involved in several processes, including angiogenesis; negative regulation of angiogenesis; and negative regulation of cell-matrix adhesion. Located in extracellular space. Is expressed in several structures, including cochlea; embryo mesenchyme; hemolymphoid system gland; nervous system; and nose. Orthologous to human SEMA3E (semaphorin 3E). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in lung adult (RPKM 7.6), placenta adult (RPKM 3.8) and 10 other tissues See more
Orthologs
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Genomic context

See Sema3e in Genome Data Viewer
Location:
5 A1; 5 5.66 cM
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (14075290..14306703)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (14025276..14256689)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 35702 Neighboring gene DND microRNA-mediated repression inhibitor 1, pseudogene Neighboring gene STARR-seq mESC enhancer starr_12460 Neighboring gene STARR-seq mESC enhancer starr_12461 Neighboring gene STARR-seq mESC enhancer starr_12466 Neighboring gene STARR-seq mESC enhancer starr_12467 Neighboring gene STARR-seq mESC enhancer starr_12468 Neighboring gene STARR-seq mESC enhancer starr_12469 Neighboring gene STARR-seq mESC enhancer starr_12470 Neighboring gene STARR-seq mESC enhancer starr_12471 Neighboring gene STARR-seq mESC enhancer starr_12472 Neighboring gene STARR-seq mESC enhancer starr_12473 Neighboring gene STARR-seq mESC enhancer starr_12474 Neighboring gene piccolo (presynaptic cytomatrix protein) Neighboring gene STARR-seq mESC enhancer starr_12476 Neighboring gene STARR-seq mESC enhancer starr_12477 Neighboring gene STARR-seq mESC enhancer starr_12478 Neighboring gene arginine/serine-rich coiled-coil 2 pseudogene Neighboring gene STARR-seq mESC enhancer starr_12479 Neighboring gene STARR-seq mESC enhancer starr_12480 Neighboring gene predicted gene, 52805 Neighboring gene predicted gene 9758

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 
  • Gene trapped (2) 
  • Targeted (4)  1 citation

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables neuropilin binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables receptor ligand activity IEA
Inferred from Electronic Annotation
more info
 
enables receptor ligand activity ISO
Inferred from Sequence Orthology
more info
 
enables semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables semaphorin receptor binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables semaphorin receptor binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in branching involved in blood vessel morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in gonadotrophin-releasing hormone neuronal migration to the hypothalamus IEA
Inferred from Electronic Annotation
more info
 
involved_in gonadotrophin-releasing hormone neuronal migration to the hypothalamus ISO
Inferred from Sequence Orthology
more info
 
involved_in negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of neuron apoptotic process IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of neuron apoptotic process ISO
Inferred from Sequence Orthology
more info
 
involved_in neural crest cell migration IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cell shape IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in semaphorin-plexin signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in semaphorin-plexin signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in sprouting angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in extracellular region NAS
Non-traceable Author Statement
more info
PubMed 
located_in extracellular space HDA PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
semaphorin-3E
Names
sema H
semaphorin-H

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_011348.2NP_035478.2  semaphorin-3E precursor

    See identical proteins and their annotated locations for NP_035478.2

    Status: VALIDATED

    Source sequence(s)
    AC120420, AF034744, AK141295, AK142340, BE947109
    Consensus CDS
    CCDS19093.1
    UniProtKB/Swiss-Prot
    O09078, O09079, P70275, Q9QX23
    Related
    ENSMUSP00000073612.7, ENSMUST00000073957.8
    Conserved Domains (3) summary
    cd05871
    Location:585675
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11253
    Location:49519
    Sema_3E; The Sema domain, a protein interacting module, of semaphorin 3E (Sema3E)
    smart00423
    Location:518566
    PSI; domain found in Plexins, Semaphorins and Integrins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000071.7 Reference GRCm39 C57BL/6J

    Range
    14075290..14306703
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)