U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    sema3h sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3H [ Danio rerio (zebrafish) ]

    Gene ID: 30252, updated on 25-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    sema3hprovided by ZNC
    Official Full Name
    sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Hprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990715-8
    See related
    Ensembl:ENSDARG00000042616 AllianceGenome:ZFIN:ZDB-GENE-990715-8
    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
    sema8; Sema3G; semaZ8
    Summary
    Enables neuropilin binding activity. Predicted to be involved in several processes, including generation of neurons; neural crest cell migration; and positive regulation of neuron migration. Predicted to be active in extracellular space. Predicted to be integral component of plasma membrane. Is expressed in several structures, including adaxial cell; brain; pectoral fin; pharyngeal arch 3-7 skeleton; and pronephric duct. [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See sema3h in Genome Data Viewer
    Location:
    chromosome: 8
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (25913432..25958448)
    105 previous assembly GRCz10 (GCF_000002035.5) 8 NC_007119.6 (25894273..25939296)

    Chromosome 8 - NC_007119.7Genomic Context describing neighboring genes Neighboring gene transmembrane protein 115 Neighboring gene ras homolog gene family, member Ab Neighboring gene BLOC-1 related complex subunit 6 Neighboring gene si:dkey-72l14.3

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Developmental expression of sema3G, a novel zebrafish semaphorin. Stevens CB, et al. Gene Expr Patterns, 2005 Jun. PMID 15939377
    2. Cellular and molecular bases of axonal pathfinding during embryogenesis of the fish central nervous system. Bernhardt RR. J Neurobiol, 1999 Jan. PMID 10027569
    3. Attractant and repellent cues cooperate in guiding a subset of olfactory sensory axons to a well-defined protoglomerular target. Taku AA, et al. Development, 2016 Jan 1. PMID 26732841, Free PMC Article
    4. Semaphorin signaling guides cranial neural crest cell migration in zebrafish. Yu HH, et al. Dev Biol, 2005 Apr 15. PMID 15882579
    5. Semaphorin/neuropilin binding specificities are stable over 400 million years of evolution. He Z, et al. Biochem Biophys Res Commun, 2019 Sep 10. PMID 31349972, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. analysis of developmental expression of sema3G in zebrafish
      Title: Developmental expression of sema3G, a novel zebrafish semaphorin.
    2. Semaphorin signaling guides cranial neural crest cell migration in zebrafish
      Title: Semaphorin signaling guides cranial neural crest cell migration in zebrafish.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    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 neuropilin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables semaphorin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in motor neuron axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    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
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in glutamatergic synapse 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

    Go to the top of the page Help
    Preferred Names
    sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3H
    Names
    class 3 secreted semaphorin
    semaphorin 3h
    semaphorin 8

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001328378.1 → NP_001315307.1  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3H isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      BX784025
      Related
      ENSDARP00000062514.5, ENSDART00000062515.6
      Conserved Domains (4) summary
      cd04979
      Location:570 → 661
      Ig_Semaphorin_C; Immunoglobulin (Ig)-like domain of semaphorin
      cd11239
      Location:39 → 509
      Sema_3; The Sema domain, a protein interacting module, of class 3 semaphorins
      smart00410
      Location:573 → 658
      IG_like; Immunoglobulin like
      smart00423
      Location:508 → 544
      PSI; domain found in Plexins, Semaphorins and Integrins

    2. NM_131050.2 → NP_571125.2  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3H isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      BX784025
      Related
      ENSDARP00000152344.1, ENSDART00000190257.1

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007119.7 Reference GRCz11 Primary Assembly

      Range
      25913432..25958448
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009303983.3 → XP_009302258.1  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3H isoform X1

      Conserved Domains (2) summary
      smart00423
      Location:508 → 544
      PSI; domain found in Plexins, Semaphorins and Integrins
      cl15693
      Location:39 → 509
      Sema; The Sema domain, a protein interacting module, of semaphorins and plexins
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.