Free for academic non-profit institutions. Other users need a Commercial license

Aliases for PLXNB1 Gene

Aliases for PLXNB1 Gene

  • Plexin B1 2 3 5
  • Semaphorin Receptor SEP 3 4
  • PLXN5 3 4
  • SEP 3 4
  • PLEXIN-B1 3
  • Plexin 5 3
  • KIAA0407 4

External Ids for PLXNB1 Gene

Previous HGNC Symbols for PLXNB1 Gene

  • PLXN5

Previous GeneCards Identifiers for PLXNB1 Gene

  • GC03M048246
  • GC03M047727
  • GC03M048405

Summaries for PLXNB1 Gene

GeneCards Summary for PLXNB1 Gene

PLXNB1 (Plexin B1) is a Protein Coding gene. Among its related pathways are Development Slit-Robo signaling and Semaphorin interactions. Gene Ontology (GO) annotations related to this gene include receptor activity and GTPase activating protein binding. An important paralog of this gene is PLXNB3.

UniProtKB/Swiss-Prot for PLXNB1 Gene

  • Receptor for SEMA4D. Plays a role in RHOA activation and subsequent changes of the actin cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration.

Gene Wiki entry for PLXNB1 Gene

Additional gene information for PLXNB1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PLXNB1 Gene

Genomics for PLXNB1 Gene

GeneHancer (GH) Regulatory Elements for PLXNB1 Gene

Promoters and enhancers for PLXNB1 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I048424 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 550.8 -0.3 -303 12.1 HDGF FOXA2 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 LOC105377077 PLXNB1 TMA7 SHISA5 FBXW12 NME6 SPINK8 CDC25A RNU7-128P NDUFB1P1
GH03I048464 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 11.6 -39.8 -39765 11.4 HDGF PKNOX1 CLOCK SMAD1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 SHISA5 TREX1 TMA7 ATRIP NME6 QRICH1 USP19 MRPS18AP1 TMEM89 RHOA-IT1
GH03I048239 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 10.7 +189.4 189400 2.8 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 ZNF589 GC03M048234 QRICH1 NME6 CCDC71 ATRIP PTPN23 USP19 MRPS18AP1 TMEM89
GH03I048401 Enhancer 1 Ensembl ENCODE dbSUPER 12.2 +27.9 27854 1.7 PAF1 SRF ZNF189 JUN BHLHE40 USF2 MAX MNT FOSL1 JUND SHISA5 PLXNB1 FBXW12 CCDC51 TMA7 ATRIP NME6 ENSG00000244380 SPINK8 RN7SL321P
GH03I048400 Enhancer 1 ENCODE dbSUPER 12.2 +29.2 29245 0.2 CTCF ZBTB6 ZNF792 RB1 ZMYM3 RAD21 RFX5 TEAD3 CC2D1A ZNF121 PLXNB1 FBXW12 CCDC51 TMA7 ATRIP NME6 SHISA5 ENSG00000244380 SPINK8 RN7SL321P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around PLXNB1 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the PLXNB1 gene promoter:

Genomic Locations for PLXNB1 Gene

Genomic Locations for PLXNB1 Gene
26,471 bases
Minus strand

Genomic View for PLXNB1 Gene

Genes around PLXNB1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PLXNB1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PLXNB1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PLXNB1 Gene

Proteins for PLXNB1 Gene

  • Protein details for PLXNB1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein Accession:
    Secondary Accessions:
    • A6H8Y2
    • Q6NY20
    • Q9UIV7
    • Q9UJ92
    • Q9UJ93

    Protein attributes for PLXNB1 Gene

    2135 amino acids
    Molecular mass:
    232298 Da
    Quaternary structure:
    • Monomer, and heterodimer with PLXNB2 after proteolytic processing. Binds RAC1 that has been activated by GTP binding. Interaction with SEMA4D promotes binding of cytoplasmic ligands. Binds PLXNA1 (By similarity). Interacts with ARHGEF11, ARHGEF12, ERBB2, MET, MST1R, RRAS, RHOD, RND1, NRP1 and NRP2.
    • Sequence=BAA23703.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PLXNB1 Gene

    Alternative splice isoforms for PLXNB1 Gene


neXtProt entry for PLXNB1 Gene

Post-translational modifications for PLXNB1 Gene

  • Phosphorylated on tyrosine residues by ERBB2 and MET upon SEMA4D binding.
  • Proteolytic processing favors heterodimerization with PLXNB2 and SEMA4D binding.
  • Glycosylation at isoforms=2, 331, Asn334, Asn543, isoforms=691, isoforms=693, Thr696, isoforms=21183, Asn1253, and isoforms=21330

Antibody Products

No data available for DME Specific Peptides for PLXNB1 Gene

Domains & Families for PLXNB1 Gene

Gene Families for PLXNB1 Gene

Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted membrane proteins

Suggested Antigen Peptide Sequences for PLXNB1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the plexin family.
  • Belongs to the plexin family.
genes like me logo Genes that share domains with PLXNB1: view

Function for PLXNB1 Gene

Molecular function for PLXNB1 Gene

GENATLAS Biochemistry:
plexin B1,calcium-dependent cell adhesion molecule at the neuronal cell surface,also expressed in hematopoietic and endothelial cells,receptor for the semaphorin,homologous to the hepatocyte growth factor receptor family
UniProtKB/Swiss-Prot Function:
Receptor for SEMA4D. Plays a role in RHOA activation and subsequent changes of the actin cytoskeleton. Plays a role in axon guidance, invasive growth and cell migration.

Phenotypes From GWAS Catalog for PLXNB1 Gene

Gene Ontology (GO) - Molecular Function for PLXNB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity TAS 8570614
GO:0004888 transmembrane signaling receptor activity NAS 10520995
GO:0005096 GTPase activator activity TAS --
GO:0005515 protein binding IPI 12730235
GO:0017154 semaphorin receptor activity TAS 10520995
genes like me logo Genes that share ontologies with PLXNB1: view
genes like me logo Genes that share phenotypes with PLXNB1: view

Animal Models for PLXNB1 Gene

MGI Knock Outs for PLXNB1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PLXNB1 Gene

Localization for PLXNB1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PLXNB1 Gene

Isoform 1: Cell membrane; Single-pass type I membrane protein.
Isoform 2: Secreted.
Isoform 3: Secreted.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PLXNB1 gene
Compartment Confidence
plasma membrane 5
extracellular 5
cytoskeleton 2
peroxisome 1
endoplasmic reticulum 1
cytosol 1

Gene Ontology (GO) - Cellular Components for PLXNB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002116 semaphorin receptor complex TAS 19909241
GO:0005576 extracellular region IEA --
GO:0005622 intracellular IEA --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane NAS,TAS 10520995
genes like me logo Genes that share ontologies with PLXNB1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PLXNB1 Gene

Pathways & Interactions for PLXNB1 Gene

genes like me logo Genes that share pathways with PLXNB1: view

Pathways by source for PLXNB1 Gene

SIGNOR curated interactions for PLXNB1 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for PLXNB1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007162 negative regulation of cell adhesion IDA 15218527
GO:0007165 signal transduction TAS 8570614
GO:0007186 G-protein coupled receptor signaling pathway TAS --
GO:0008360 regulation of cell shape IDA 19843518
GO:0014068 positive regulation of phosphatidylinositol 3-kinase signaling ISS --
genes like me logo Genes that share ontologies with PLXNB1: view

Drugs & Compounds for PLXNB1 Gene

(4) Drugs for PLXNB1 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine triphosphate Experimental Pharma 0

(1) Additional Compounds for PLXNB1 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with PLXNB1: view

Transcripts for PLXNB1 Gene

Unigene Clusters for PLXNB1 Gene

Plexin B1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for PLXNB1 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12a · 12b · 12c ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18a · 18b ^ 19a · 19b ^
SP1: -
SP2: - -
SP3: - - -
SP8: -
SP12: - - - - - - - - - -
SP13: -

ExUns: 20 ^ 21 ^ 22a · 22b ^ 23a · 23b ^ 24a · 24b · 24c ^ 25 ^ 26a · 26b ^ 27a · 27b ^ 28 ^ 29 ^ 30 ^ 31a · 31b · 31c ^ 32 ^ 33 ^ 34a · 34b ^ 35a · 35b ^
SP1: - -
SP2: - -
SP4: -
SP6: - -
SP7: -

ExUns: 36 ^ 37 ^ 38 ^ 39 ^ 40a · 40b

Relevant External Links for PLXNB1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PLXNB1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PLXNB1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PLXNB1 Gene

This gene is overexpressed in Spinal cord (14.6), Serum (7.5), and Frontal cortex (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PLXNB1 Gene

NURSA nuclear receptor signaling pathways regulating expression of PLXNB1 Gene:


SOURCE GeneReport for Unigene cluster for PLXNB1 Gene:


mRNA Expression by UniProt/SwissProt for PLXNB1 Gene:

Tissue specificity: Highly expressed in fetal kidney, and at slightly lower levels in fetal brain, lung and liver.

Evidence on tissue expression from TISSUES for PLXNB1 Gene

  • Nervous system(4.9)
  • Liver(4.3)
  • Bone marrow(4.1)
  • Kidney(2.2)
  • Skin(2.2)
genes like me logo Genes that share expression patterns with PLXNB1: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PLXNB1 Gene

Orthologs for PLXNB1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PLXNB1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PLXNB1 33 34
  • 99.63 (n)
(Canis familiaris)
Mammalia PLXNB1 34 33
  • 88.93 (n)
(Bos Taurus)
Mammalia PLXNB1 33 34
  • 87.41 (n)
(Mus musculus)
Mammalia Plxnb1 33 16 34
  • 85.94 (n)
(Rattus norvegicus)
Mammalia Plxnb1 33
  • 85.54 (n)
(Monodelphis domestica)
Mammalia PLXNB1 34
  • 73 (a)
(Ornithorhynchus anatinus)
Mammalia PLXNB1 34
  • 63 (a)
(Gallus gallus)
Aves PLXNB1 33 34
  • 68.57 (n)
(Anolis carolinensis)
Reptilia PLXNB1 34
  • 61 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia plxnb1 33
  • 61.53 (n)
Str.10773 33
(Danio rerio)
Actinopterygii plxnb1a 34
  • 76 (a)
plxnb1b 33 34
  • 60.03 (n)
wufb83a09 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011139 33
  • 49.08 (n)
fruit fly
(Drosophila melanogaster)
Insecta plexB 35 33 34
  • 45.09 (n)
(Caenorhabditis elegans)
Secernentea plx-2 35 34
  • 28 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 36 (a)
Species where no ortholog for PLXNB1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PLXNB1 Gene

Gene Tree for PLXNB1 (if available)
Gene Tree for PLXNB1 (if available)

Paralogs for PLXNB1 Gene

Paralogs for PLXNB1 Gene

(7) SIMAP similar genes for PLXNB1 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with PLXNB1: view

Variants for PLXNB1 Gene

Sequence variations from dbSNP and Humsavar for PLXNB1 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
VAR_036074 A breast cancer sample p.Asp1891Val
rs1000065332 -- 48,412,139(-) C/G genic_downstream_transcript_variant, intron_variant
rs1000097168 -- 48,406,760(-) A/C genic_downstream_transcript_variant, intron_variant
rs1000265027 -- 48,408,161(-) C/T genic_downstream_transcript_variant, intron_variant
rs1000436420 -- 48,427,236(-) G/C 5_prime_UTR_variant, intron_variant, non_coding_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PLXNB1 Gene

Variant ID Type Subtype PubMed ID
nsv1072254 CNV deletion 25765185
nsv1118969 CNV deletion 24896259
nsv508917 CNV insertion 20534489
nsv590242 CNV loss 21841781
nsv834683 CNV gain 17160897
nsv834684 CNV gain 17160897
nsv954483 CNV deletion 24416366

Variation tolerance for PLXNB1 Gene

Residual Variation Intolerance Score: 21% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.06; 60.70% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PLXNB1 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PLXNB1 Gene

Disorders for PLXNB1 Gene

Additional Disease Information for PLXNB1

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for PLXNB1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PLXNB1 Gene

Publications for PLXNB1 Gene

  1. The semaphorin receptor plexin-B1 specifically interacts with active Rac in a ligand-dependent manner. (PMID: 11035813) Vikis HG … Guan KL (Proceedings of the National Academy of Sciences of the United States of America 2000) 2 3 4 22 58
  2. Structure and function of the intracellular region of the plexin-b1 transmembrane receptor. (PMID: 19843518) Tong Y … Buck M (The Journal of biological chemistry 2009) 3 4 22 58
  3. Insights into oncogenic mutations of plexin-B1 based on the solution structure of the Rho GTPase binding domain. (PMID: 18275816) Tong Y … Buck M (Structure (London, England : 1993) 2008) 3 4 22 58
  4. Binding of Rac1, Rnd1, and RhoD to a novel Rho GTPase interaction motif destabilizes dimerization of the plexin-B1 effector domain. (PMID: 17916560) Tong Y … Buck M (The Journal of biological chemistry 2007) 3 4 22 58
  5. Plexin-B1/RhoGEF-mediated RhoA activation involves the receptor tyrosine kinase ErbB-2. (PMID: 15210733) Swiercz JM … Offermanns S (The Journal of cell biology 2004) 3 4 22 58

Products for PLXNB1 Gene

Sources for PLXNB1 Gene

Loading form....