Plxna4 plexin A4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Plxna4provided by RGD
Official Full Name: plexin A4provided by RGD
Primary source: RGD:1308074
See related: EnsemblRapid:ENSRNOG00000013072 AllianceGenome:RGD:1308074
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Plxna4a
Summary: Predicted to enable semaphorin receptor activity. Predicted to be involved in several processes, including maintenance of synapse structure; nervous system development; and positive regulation of axonogenesis. Predicted to act upstream of or within nervous system development; regulation of axon extension involved in axon guidance; and regulation of negative chemotaxis. Predicted to be part of semaphorin receptor complex. Predicted to be active in cerebellar climbing fiber to Purkinje cell synapse and plasma membrane. Orthologous to human PLXNA4 (plexin A4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 103.0), Heart (RPKM 52.6) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q22

Exon count:: 34

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (61687483..62129467, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (60720246..61162206, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (59439489..59883637, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This is the first detailed description of the cellular and subcellular distribution of PlexinA4 in the adult rat cranial nerves
Title: Plexin a4 expression in adult rat cranial nerves.
Data suggest amechanism by which retrograde semaphorin 3A (Sema3A) signalling regulates the glutamate receptor localization through trafficking of cis-interacting PlexA4 with GluA2 along dendrites.
Title: Plexin-A4-dependent retrograde semaphorin 3A signalling regulates the dendritic localization of GluA2-containing AMPA receptors.
This is the first detailed description of the cellular and subcellular distribution of PlexinA4 in the adult spinal cord and dorsal root ganglia
Title: PlexinA4 distribution in the adult rat spinal cord and dorsal root ganglia.

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General gene information

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Markers

D4Rat20 (e-PCR)
- UniSTS:118821

Plxna4 (e-PCR), detects polymorphism
- UniSTS:472891

AU047795 (e-PCR)
- UniSTS:110167

D4Got40 (e-PCR)
- UniSTS:115836

BF401449 (e-PCR)
- UniSTS:245476

RH142001 (e-PCR)
- UniSTS:223992

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables semaphorin receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables semaphorin receptor activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within anterior commissure morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in branchiomotor neuron axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chemorepulsion of branchiomotor axon	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cranial nerve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic heart tube development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within facial nerve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in facial nerve structural organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in maintenance of synapse structure	ISO Inferred from Sequence Orthology more info
involved_in motor neuron axon guidance	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nervous system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron projection morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within postganglionic parasympathetic fiber development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of axon extension involved in axon guidance	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of negative chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in semaphorin-plexin signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within semaphorin-plexin signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in semaphorin-plexin signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within sympathetic nervous system development	ISO Inferred from Sequence Orthology more info
involved_in sympathetic neuron axon guidance	ISO Inferred from Sequence Orthology more info
involved_in synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within trigeminal nerve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in trigeminal nerve structural organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within vagus nerve morphogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cerebellar climbing fiber to Purkinje cell synapse	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
part_of semaphorin receptor complex	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: plexin-A4

Names: plexin A4, A

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_001107852.3 → NP_001101322.2 plexin-A4 precursor

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

D3ZES7

Related

ENSRNOP00000017537.4, ENSRNOT00000017536.7

Conserved Domains (10) summary

cd11274
Location:38 → 510

Sema_plexin_A4; The Sema domain, a protein interacting module, of Plexin A4

smart00423
Location:509 → 547

PSI; domain found in Plexins, Semaphorins and Integrins

cd00603
Location:1141 → 1221

IPT_PCSR; IPT domain of Plexins and Cell Surface Receptors (PCSR) and related proteins . This subgroup contains IPT domains of plexins, receptors, like the plasminogen-related growth factor receptors, the hepatocyte growth factor-scatter factors, and the ...

cd01179
Location:954 → 1037

IPT_plexin_repeat2; Second repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...

cd01180
Location:857 → 952

IPT_plexin_repeat1; First repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...

cd01181
Location:1039 → 1139

IPT_plexin_repeat3; Third repeat of the IPT domain of Plexins and Cell Surface Receptors (PCSR) . Plexins are involved in the regulation of cell proliferation and of cellular adhesion and repulsion receptors. In general, there are three copies of the IPT domain present ...

pfam01437
Location:654 → 701

PSI; Plexin repeat

pfam08337
Location:1310 → 1862

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

pfam17960
Location:564 → 653

TIG_plexin; TIG domain

pfam18020
Location:707 → 801

TIG_2; TIG domain found in plexin