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SEMA3E semaphorin 3E [ Homo sapiens (human) ]

Gene ID: 9723, updated on 1-Jun-2020

Summary

Official Symbol
SEMA3Eprovided by HGNC
Official Full Name
semaphorin 3Eprovided by HGNC
Primary source
HGNC:HGNC:10727
See related
Ensembl:ENSG00000170381 MIM:608166
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SEMAH; coll-5; M-SEMAH; M-SemaK
Summary
Semaphorins are a large family of conserved secreted and membrane associated proteins which possess a semaphorin (Sema) domain and a PSI domain (found in plexins, semaphorins and integrins) in the N-terminal extracellular portion. Based on sequence and structural similarities, semaphorins are put into eight classes: invertebrates contain classes 1 and 2, viruses have class V, and vertebrates contain classes 3-7. Semaphorins serve as axon guidance ligands via multimeric receptor complexes, some (if not all) containing plexin proteins. This gene encodes a class 4 semaphorin. This gene encodes a class 3 semaphorin. Multiple transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, May 2010]
Expression
Biased expression in brain (RPKM 3.1), gall bladder (RPKM 2.2) and 13 other tissues See more
Orthologs

Genomic context

See SEMA3E in Genome Data Viewer
Location:
7q21.11
Exon count:
18
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (83363238..83649139, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (82993222..83278479, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene piccolo presynaptic cytomatrix protein Neighboring gene RNA, 5S ribosomal pseudogene 235 Neighboring gene uncharacterized LOC105375377 Neighboring gene uncharacterized LOC105375378 Neighboring gene RAD23B pseudogene 2 Neighboring gene uncharacterized LOC107986745

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat Microarray analysis indicates HIV-1 Tat-induced upregulation of sema domain, immunoglobulin domain, short basic domain, secreted, 3E (SEMA3E) in primary human brain microvascular endothelial cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0331

Gene Ontology Provided by GOA

Function Evidence Code Pubs
chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
branching involved in blood vessel morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of angiogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of axon extension involved in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of cell-matrix adhesion ISS
Inferred from Sequence or Structural Similarity
more info
 
neural crest cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of actin cytoskeleton reorganization ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of cell shape ISS
Inferred from Sequence or Structural Similarity
more info
 
semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin-plexin signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
sprouting angiogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
synapse organization ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
extracellular region TAS
Traceable Author Statement
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
semaphorin-3E
Names
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3E

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_021242.2 RefSeqGene

    Range
    5025..290926
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_1287

mRNA and Protein(s)

  1. NM_001178129.1NP_001171600.1  semaphorin-3E isoform 2

    See identical proteins and their annotated locations for NP_001171600.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    AC079799, AK303925, BC152458
    Consensus CDS
    CCDS55121.1
    UniProtKB/Swiss-Prot
    O15041
    Related
    ENSP00000405052.1, ENST00000427262.6
    Conserved Domains (3) summary
    cd05871
    Location:525610
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    cd11253
    Location:1459
    Sema_3E; The Sema domain, a protein interacting module, of semaphorin 3E (Sema3E)
    smart00423
    Location:458506
    PSI; domain found in Plexins, Semaphorins and Integrins
  2. NM_012431.3NP_036563.1  semaphorin-3E isoform 1 precursor

    See identical proteins and their annotated locations for NP_036563.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC079799, AW450461, BC140706, BC152458, DA722912, DB215551
    Consensus CDS
    CCDS34674.1
    UniProtKB/Swiss-Prot
    O15041
    Related
    ENSP00000496491.1, ENST00000643230.2
    Conserved Domains (3) summary
    cd05871
    Location:585670
    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: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    83363238..83649139 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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