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sema5a sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5A [ Danio rerio (zebrafish) ]

Gene ID: 561295, updated on 12-Sep-2024

Summary

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Official Symbol
sema5aprovided by ZNC
Official Full Name
sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5Aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-8969
See related
Ensembl:ENSDARG00000058821 AllianceGenome:ZFIN:ZDB-GENE-030131-8969
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
wu:fa95e03; wu:fi41a04
Summary
Predicted to enable chemorepellent activity and semaphorin receptor binding activity. Acts upstream of or within axon extension. Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in CaP motoneuron and myotome. Orthologous to human SEMA5A (semaphorin 5A). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See sema5a in Genome Data Viewer
Location:
chromosome: 24
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 24 NC_007135.7 (16393658..16706939)
105 previous assembly GRCz10 (GCF_000002035.5) 24 NC_007135.6 (16249116..16562520)

Chromosome 24 - NC_007135.7Genomic Context describing neighboring genes Neighboring gene si:dkey-118j18.2 Neighboring gene uncharacterized LOC101885655 Neighboring gene uncharacterized LOC137489226 Neighboring gene uncharacterized LOC137489227

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Semaphorin 5A is a bifunctional axon guidance cue for axial motoneurons in vivo. Hilario JD, et al. Dev Biol, 2009 Feb 1. PMID 19059233
  2. G-quadruplexes as novel cis-elements controlling transcription during embryonic development. David AP, et al. Nucleic Acids Res, 2016 May 19. PMID 26773060, Free PMC Article
  3. Modulation of tissue repair by regeneration enhancer elements. Kang J, et al. Nature, 2016 Apr 14. PMID 27049946, Free PMC Article
  4. Single cell sequencing of radial glia progeny reveals the diversity of newborn neurons in the adult zebrafish brain. Lange C, et al. Development, 2020 Jan 9. PMID 31908317, Free PMC Article
  5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables chemorepellent activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables semaphorin receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables semaphorin receptor binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in axon extension IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within axon extension IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within axon extension IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within nervous system development IEA
Inferred from Electronic Annotation
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 semaphorin-plexin signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
semaphorin-5A

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_001271670.1 → NP_001258599.1  semaphorin-5A

    Status: VALIDATED

    Source sequence(s)
    BX323577, CR354550, CT573359
    UniProtKB/TrEMBL
    A0A0R4IMM9, A0A8M1P527
    Related
    ENSDARP00000137400.1, ENSDART00000164319.2
    Conserved Domains (4) summary
    smart00209
    Location:819 → 871
    TSP1; Thrombospondin type 1 repeats
    pfam00090
    Location:875 → 915
    TSP_1; Thrombospondin type 1 domain
    pfam01437
    Location:464 → 511
    PSI; Plexin repeat
    cl15693
    Location:68 → 462
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007135.7 Reference GRCz11 Primary Assembly

    Range
    16393658..16706939
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005162619.5 → XP_005162676.1  semaphorin-5A isoform X1

    UniProtKB/TrEMBL
    A0A286YBG6, A0A8M2B9M5, F1R9L1
    Related
    ENSDARP00000144320.1, ENSDART00000177790.2
    Conserved Domains (4) summary
    smart00209
    Location:849 → 901
    TSP1; Thrombospondin type 1 repeats
    pfam00090
    Location:905 → 945
    TSP_1; Thrombospondin type 1 domain
    pfam01437
    Location:494 → 541
    PSI; Plexin repeat
    cl15693
    Location:58 → 492
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins

  2. XM_021470194.2 → XP_021325869.1  semaphorin-5A isoform X2

    UniProtKB/TrEMBL
    A0A8M9PLV2
    Related
    ENSDARP00000150854.1, ENSDART00000188670.1
    Conserved Domains (4) summary
    smart00209
    Location:849 → 901
    TSP1; Thrombospondin type 1 repeats
    pfam00090
    Location:905 → 945
    TSP_1; Thrombospondin type 1 domain
    pfam01437
    Location:494 → 541
    PSI; Plexin repeat
    cl15693
    Location:58 → 492
    Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
Nucleotide Protein Strain
Heading Accession and Version

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