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sema3aa sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Aa [ Danio rerio (zebrafish) ]

Gene ID: 30266, updated on 2-Nov-2024

Summary

Official Symbol
sema3aaprovided by ZNC
Official Full Name
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3Aaprovided by ZNC
Primary source
ZFIN:ZDB-GENE-991209-3
See related
Ensembl:ENSDARG00000019235 AllianceGenome:ZFIN:ZDB-GENE-991209-3
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
sema1a; sema3a1; semaZ1a
Summary
Predicted to enable chemorepellent activity; neuropilin binding activity; and semaphorin receptor binding activity. Acts upstream of or within blood vessel morphogenesis and nervous system development. Predicted to be located in extracellular region. Predicted to be active in several cellular components, including axon; extracellular space; and glutamatergic synapse. Is expressed in several structures, including anterior neural rod; brain; head; immature eye; and muscle. Human ortholog(s) of this gene implicated in hypogonadotropic hypogonadism 16 with or without anosmia. Orthologous to human SEMA3A (semaphorin 3A). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
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Genomic context

See sema3aa in Genome Data Viewer
Location:
chromosome: 4
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 4 NC_007115.7 (11311350..11367051)
105 previous assembly GRCz10 (GCF_000002035.5) 4 NC_007115.6 (11312501..11368202)

Chromosome 4 - NC_007115.7Genomic Context describing neighboring genes Neighboring gene tetraspanin 11 Neighboring gene uncharacterized LOC137491521 Neighboring gene uncharacterized LOC137491522 Neighboring gene piccolo presynaptic cytomatrix protein a Neighboring gene serine/threonine-protein kinase pim-1-like

Genomic regions, transcripts, and products

Expression

  • 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

General gene information

Markers

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 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
acts_upstream_of_or_within artery morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within branching morphogenesis of a nerve IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell migration involved in vasculogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in motor neuron axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within motor neuron axon guidance IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within motor neuron axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative chemotaxis IBA
Inferred from Biological aspect of Ancestor
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
 
acts_upstream_of_or_within vasculogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in axon IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in extracellular region IEA
Inferred from Electronic Annotation
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

Preferred Names
semaphorin-3aa
Names
sem1a
sema Z1A
semaphorin 1a
semaphorin-1A
semaphorin-Z1A

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_131060.1NP_571135.1  semaphorin-3aa precursor

    See identical proteins and their annotated locations for NP_571135.1

    Status: PROVISIONAL

    Source sequence(s)
    AF086761
    UniProtKB/Swiss-Prot
    Q9W7J1
    Related
    ENSDARP00000051791.5, ENSDART00000051792.6
    Conserved Domains (5) summary
    cd05871
    Location:583673
    Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin
    smart00410
    Location:586654
    IG_like; Immunoglobulin like
    smart00423
    Location:517569
    PSI; domain found in Plexins, Semaphorins and Integrins
    pfam16228
    Location:744859
    DUF4887; Domain of unknown function (DUF4887)
    cl15693
    Location:26519
    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_007115.7 Reference GRCz11 Primary Assembly

    Range
    11311350..11367051
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394552.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    7414..61242
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)