Plxnb3 plexin B3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Plxnb3provided by RGD
Official Full Name: plexin B3provided by RGD
Primary source: RGD:1560615
See related: EnsemblRapid:ENSRNOG00000061731 AllianceGenome:RGD:1560615
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1560615
Summary: Predicted to enable several functions, including Rho GDP-dissociation inhibitor binding activity; cell-cell adhesion mediator activity; and semaphorin receptor activity. Involved in negative regulation of cell migration; negative regulation of lamellipodium assembly; and semaphorin-plexin signaling pathway. Predicted to be located in cell surface. Predicted to be part of semaphorin receptor complex. Predicted to be active in plasma membrane. Orthologous to human PLXNB3 (plexin B3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 65.2), Heart (RPKM 6.8) and 2 other tissues See more
Orthologs: human mouse all
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: Xq37

Exon count:: 35

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	X	NC_086039.1 (156645505..156660011)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	X	NC_051356.1 (151493832..151508688)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	X	NC_005120.4 (157015297..157030147, complement)

Chromosome X - NC_086039.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Essential roles of plexin-B3(+) oligodendrocyte precursor cells in the pathogenesis of Alzheimer's disease.
Title: Essential roles of plexin-B3(+) oligodendrocyte precursor cells in the pathogenesis of Alzheimer's disease.
Plexin-B3 contributes to regulating synapse formation.
Title: Plexin-B3 suppresses excitatory and promotes inhibitory synapse formation in rat hippocampal neurons.

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables Rho GDP-dissociation inhibitor binding	ISO Inferred from Sequence Orthology more info
enables cell-cell adhesion mediator activity	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	ISS Inferred from Sequence or Structural Similarity more info
enables semaphorin receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables semaphorin receptor activity	ISO Inferred from Sequence Orthology more info
enables semaphorin receptor activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of GTPase activity	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of GTPase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell adhesion	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lamellipodium assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in positive chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive chemotaxis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of axonogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of endothelial cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell shape	IBA Inferred from Biological aspect of Ancestor more info
involved_in semaphorin-plexin signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in semaphorin-plexin signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in semaphorin-plexin signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in synapse assembly	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cell surface	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

Go to the top of the page Help

Preferred Names: plexin-B3

Names: protein Plxnb3

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001135878.1 → NP_001129350.1 plexin-B3 precursor

See identical proteins and their annotated locations for NP_001129350.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000021

UniProtKB/Swiss-Prot

D3ZLH5

UniProtKB/TrEMBL

A6KRV8

Conserved Domains (8) summary

cd11277
Location:37 → 462

Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3

smart00423
Location:622 → 658

PSI; domain found in Plexins, Semaphorins and Integrins

cd01179
Location:916 → 1001

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:824 → 915

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:464 → 514

PSI; Plexin repeat

pfam01833
Location:1165 → 1232

TIG; IPT/TIG domain

pfam08337
Location:1317 → 1869

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:1004 → 1135

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: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086039.1 Reference GRCr8

Range

156645505..156660011

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039099913.2 → XP_038955841.1 plexin-B3 isoform X5

Conserved Domains (10) summary

cd11277
Location:37 → 462

Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3

smart00423
Location:622 → 658

PSI; domain found in Plexins, Semaphorins and Integrins

cd01179
Location:916 → 1001

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:824 → 915

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:464 → 514

PSI; Plexin repeat

pfam01833
Location:1165 → 1232

TIG; IPT/TIG domain

pfam17960
Location:522 → 608

TIG_plexin; TIG domain

pfam18020
Location:681 → 775

TIG_2; TIG domain found in plexin

cl02569
Location:1317 → 1457

RasGAP; Ras GTPase Activating Domain

cl15674
Location:1004 → 1135

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 ...
XM_017602116.3 → XP_017457605.1 plexin-B3 isoform X1

UniProtKB/TrEMBL

A6KRV8

Conserved Domains (8) summary

cd11277
Location:37 → 462

Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3

smart00423
Location:622 → 658

PSI; domain found in Plexins, Semaphorins and Integrins

cd01179
Location:916 → 1001

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:824 → 915

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:464 → 514

PSI; Plexin repeat

pfam01833
Location:1165 → 1232

TIG; IPT/TIG domain

pfam08337
Location:1317 → 1887

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:1004 → 1135

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 ...
XM_008773631.4 → XP_008771853.1 plexin-B3 isoform X1

See identical proteins and their annotated locations for XP_008771853.1

UniProtKB/TrEMBL

A6KRV8

Conserved Domains (8) summary

cd11277
Location:37 → 462

Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3

smart00423
Location:622 → 658

PSI; domain found in Plexins, Semaphorins and Integrins

cd01179
Location:916 → 1001

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:824 → 915

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:464 → 514

PSI; Plexin repeat

pfam01833
Location:1165 → 1232

TIG; IPT/TIG domain

pfam08337
Location:1317 → 1887

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:1004 → 1135

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 ...
XM_008773632.4 → XP_008771854.1 plexin-B3 isoform X3

UniProtKB/TrEMBL

A6KRV8

Conserved Domains (7) summary

cd11277
Location:37 → 462

Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3

smart00423
Location:622 → 658

PSI; domain found in Plexins, Semaphorins and Integrins

cd01179
Location:916 → 1001

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:824 → 915

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:464 → 514

PSI; Plexin repeat

pfam08337
Location:1263 → 1833

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:1004 → 1135

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 ...
XM_006229587.5 → XP_006229649.1 plexin-B3 isoform X2

See identical proteins and their annotated locations for XP_006229649.1

UniProtKB/Swiss-Prot

D3ZLH5

UniProtKB/TrEMBL

A6KRV8

Related

ENSRNOP00000072671.1, ENSRNOT00000080088.3

Conserved Domains (8) summary

cd11277
Location:37 → 462

Sema_plexin_B3; The Sema domain, a protein interacting module, of Plexin B3

smart00423
Location:622 → 658

PSI; domain found in Plexins, Semaphorins and Integrins

cd01179
Location:916 → 1001

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:824 → 915

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:464 → 514

PSI; Plexin repeat

pfam01833
Location:1165 → 1232

TIG; IPT/TIG domain

pfam08337
Location:1317 → 1869

Plexin_cytopl; Plexin cytoplasmic RasGAP domain

cl15674
Location:1004 → 1135

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 ...
XM_063280161.1 → XP_063136231.1 plexin-B3 isoform X4

Related

ENSRNOP00000100425.1, ENSRNOT00000164300.1