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

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, Dec 2024]
Orthologs: all
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Genomic context

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_007115.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Sema3a1 is a guidance factor for neural growth cones and has a role in the development of the vascular system
Title: Semaphorin3a1 regulates angioblast migration and vascular development in zebrafish embryos.
Sema3a1 plays an essential role in guiding the caudal primary (CaP) motor axon that pioneers the initial region of the motor pathway.
Title: Sema3a1 guides spinal motor axons in a cell- and stage-specific manner in zebrafish.

Submit: New GeneRIF Correction

General gene information

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Markers

G46543 (e-PCR)
- UniSTS:107344

sem1a (e-PCR)
- UniSTS:205510

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

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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)

NM_131060.1 → NP_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:583 → 673

Ig_Semaphorin_classIII; Immunoglobulin (Ig)-like domain of class III semaphorin

smart00410
Location:586 → 654

IG_like; Immunoglobulin like

smart00423
Location:517 → 569

PSI; domain found in Plexins, Semaphorins and Integrins

pfam16228
Location:744 → 859

DUF4887; Domain of unknown function (DUF4887)

cl15693
Location:26 → 519

Sema; The Sema domain, a protein interacting module, of semaphorins and plexins