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PLXNB3 plexin B3 [ Homo sapiens (human) ]

Gene ID: 5365, updated on 15-Jun-2019

Summary

Official Symbol
PLXNB3provided by HGNC
Official Full Name
plexin B3provided by HGNC
Primary source
HGNC:HGNC:9105
See related
Ensembl:ENSG00000198753 MIM:300214
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PLEXR; PLXN6; PLEXB3
Summary
The protein encoded by this gene is a member of the plexin family. It functions as a receptor for semaphorin 5A, and plays a role in axon guidance, invasive growth and cell migration. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2009]
Expression
Broad expression in brain (RPKM 10.9), salivary gland (RPKM 4.4) and 16 other tissues See more
Orthologs

Genomic context

See PLXNB3 in Genome Data Viewer
Location:
Xq28
Exon count:
37
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) X NC_000023.11 (153764196..153779346)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (153029651..153044801)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene B cell receptor associated protein 31 Neighboring gene ATP binding cassette subfamily D member 1 Neighboring gene uncharacterized LOC102723591 Neighboring gene SRSF protein kinase 3 Neighboring gene isocitrate dehydrogenase (NAD(+)) 3 gamma Neighboring gene signal sequence receptor subunit 4

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Axon guidance, organism-specific biosystem (from KEGG)
    Axon guidance, organism-specific biosystemAxon guidance represents a key stage in the formation of neuronal network. Axons are guided by a variety of guidance factors, such as netrins, ephrins, Slits, and semaphorins. These guidance cues are...
  • Axon guidance, conserved biosystem (from KEGG)
    Axon guidance, conserved biosystemAxon guidance represents a key stage in the formation of neuronal network. Axons are guided by a variety of guidance factors, such as netrins, ephrins, Slits, and semaphorins. These guidance cues are...
  • Axon guidance, organism-specific biosystem (from REACTOME)
    Axon guidance, organism-specific biosystemAxon guidance / axon pathfinding is the process by which neurons send out axons to reach the correct targets. Growing axons have a highly motile structure at the growing tip called the growth cone, w...
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
  • Other semaphorin interactions, organism-specific biosystem (from REACTOME)
    Other semaphorin interactions, organism-specific biosystemThere are eight classes of semaphorins and four types of plexins. Semaphorin (SEMA) classes 1 and 2 are found in invertebrates and classes 3-7 are vertebrate sempahorines. Sempahorin class 3 is secre...
  • Semaphorin interactions, organism-specific biosystem (from REACTOME)
    Semaphorin interactions, organism-specific biosystemSemaphorins are a large family of cell surface and secreted guidance molecules divided into eight classes on the basis of their structures. They all have an N-terminal conserved sema domain. Semaphor...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: SRPK3

Homology

Clone Names

  • FLJ76953

Gene Ontology Provided by GOA

Function Evidence Code Pubs
Rho GDP-dissociation inhibitor binding IEA
Inferred from Electronic Annotation
more info
 
cell-cell adhesion mediator activity IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding IPI
Inferred from Physical Interaction
more info
PubMed 
semaphorin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
cell chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
homophilic cell adhesion via plasma membrane adhesion molecules IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of GTPase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of cell adhesion IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of lamellipodium assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
positive chemotaxis IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of endothelial cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of neuron projection development IDA
Inferred from Direct Assay
more info
PubMed 
regulation of GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of cell shape IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
semaphorin-plexin signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
semaphorin-plexin signaling pathway involved in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
semaphorin receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_013255.1 RefSeqGene

    Range
    5001..20151
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001163257.1NP_001156729.1  plexin-B3 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an additional exon in the 5' region compared to variant 1. This results in translation initiation from a start codon (with a strong Kozak signal) found in this exon, and a longer isoform (2) with a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AF149019, AK292535, AK295762, AK307894
    Consensus CDS
    CCDS55536.1
    UniProtKB/Swiss-Prot
    Q9ULL4
    UniProtKB/TrEMBL
    A8K920
    Related
    ENSP00000442736.1, ENST00000538966.5
    Conserved Domains (7) summary
    cd11277
    Location:70495
    Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3
    cd01179
    Location:9501035
    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:858949
    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 ...
    pfam01437
    Location:497548
    PSI; Plexin repeat
    pfam01833
    Location:11991265
    TIG; IPT/TIG domain
    pfam08337
    Location:13501899
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl15674
    Location:10381169
    IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...
  2. NM_005393.3NP_005384.2  plexin-B3 isoform 1 precursor

    See identical proteins and their annotated locations for NP_005384.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the predominant transcript and encodes isoform 1.
    Source sequence(s)
    AF149019, AK292535, AK295762
    Consensus CDS
    CCDS14729.1
    UniProtKB/Swiss-Prot
    Q9ULL4
    UniProtKB/TrEMBL
    A8K920
    Related
    ENSP00000355378.5, ENST00000361971.10
    Conserved Domains (7) summary
    cd11277
    Location:47472
    Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3
    cd01179
    Location:9271012
    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:835926
    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 ...
    pfam01437
    Location:474525
    PSI; Plexin repeat
    pfam01833
    Location:11761242
    TIG; IPT/TIG domain
    pfam08337
    Location:13271876
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl15674
    Location:10151146
    IPT; Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor ...

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    153764196..153779346
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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