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

Gene ID: 30252, updated on 12-Sep-2024

Summary

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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
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Genomic context

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See sema3h in Genome Data Viewer
Location:
chromosome: 8
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 8 NC_007119.7 (25913511..25958618)
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

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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. 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

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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 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

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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)

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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_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: 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_007119.7 Reference GRCz11 Primary Assembly

    Range
    25913511..25958618
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009303983.4 → 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

  2. XM_068222855.1 → XP_068078956.1  sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3H isoform X2

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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