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PLXNB1 plexin B1 [ Homo sapiens (human) ]

Gene ID: 5364, updated on 6-Nov-2022

Summary

Official Symbol
PLXNB1provided by HGNC
Official Full Name
plexin B1provided by HGNC
Primary source
HGNC:HGNC:9103
See related
Ensembl:ENSG00000164050 MIM:601053; AllianceGenome:HGNC:9103
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SEP; PLXN5; PLEXIN-B1
Summary
Enables semaphorin receptor activity. Involved in several processes, including negative regulation of cell adhesion; regulation of cell shape; and semaphorin-plexin signaling pathway. Is integral component of plasma membrane. Part of semaphorin receptor complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in skin (RPKM 13.8), kidney (RPKM 13.0) and 24 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See PLXNB1 in Genome Data Viewer
Location:
3p21.31
Exon count:
42
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (48403854..48430310, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (48431864..48458098, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (48445261..48471495, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene serine peptidase inhibitor Kazal type 8 (putative) Neighboring gene microRNA 2115 Neighboring gene F-box and WD repeat domain containing 12 Neighboring gene RNA, 7SL, cytoplasmic 321, pseudogene Neighboring gene coiled-coil domain containing 51 Neighboring gene ATRIP-TREX1 readthrough Neighboring gene translation machinery associated 7 homolog Neighboring gene ATR interacting protein Neighboring gene three prime repair exonuclease 1

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 Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0407, MGC149167

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTPase activating protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables GTPase activator activity TAS
Traceable Author Statement
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables semaphorin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables semaphorin receptor activity IDA
Inferred from Direct Assay
more info
PubMed 
enables semaphorin receptor activity TAS
Traceable Author Statement
more info
PubMed 
enables semaphorin receptor binding TAS
Traceable Author Statement
more info
PubMed 
enables transmembrane signaling receptor activity NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
involved_in cell migration NAS
Non-traceable Author Statement
more info
PubMed 
involved_in inhibitory synapse assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in intracellular signal transduction NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of cell adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in negative regulation of cell adhesion IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of osteoblast proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in neuron projection morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in ossification involved in bone maturation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of GTPase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of phosphatidylinositol 3-kinase signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of cell shape IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in regulation of cell shape IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of cytoskeleton organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in semaphorin-plexin signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
involved_in semaphorin-plexin signaling pathway involved in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in semaphorin-plexin signaling pathway involved in bone trabecula morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 
located_in plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
located_in plasma membrane TAS
Traceable Author Statement
more info
 
part_of semaphorin receptor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of semaphorin receptor complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of semaphorin receptor complex TAS
Traceable Author Statement
more info
PubMed 

General protein information

Preferred Names
plexin-B1
Names
plexin 5
semaphorin receptor SEP

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001130082.3NP_001123554.1  plexin-B1 precursor

    See identical proteins and their annotated locations for NP_001123554.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AB007867, AC134772, BC066773
    Consensus CDS
    CCDS2765.1
    UniProtKB/Swiss-Prot
    O43157, Q9UJ93
    Related
    ENSP00000296440.6, ENST00000296440.11
    Conserved Domains (10) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    PHA03247
    Location:681839
    PHA03247; large tegument protein UL36; Provisional
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622102
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    pfam17960
    Location:541627
    TIG_plexin; TIG domain
    pfam18020
    Location:9211020
    TIG_2; TIG domain found in plexin
  2. NM_002673.6NP_002664.2  plexin-B1 precursor

    See identical proteins and their annotated locations for NP_002664.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AB007867, AC134772, BC066773
    Consensus CDS
    CCDS2765.1
    UniProtKB/Swiss-Prot
    O43157, Q9UJ93
    Related
    ENSP00000351338.4, ENST00000358536.8
    Conserved Domains (10) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    PHA03247
    Location:681839
    PHA03247; large tegument protein UL36; Provisional
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622102
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    pfam17960
    Location:541627
    TIG_plexin; TIG domain
    pfam18020
    Location:9211020
    TIG_2; TIG domain found in plexin

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    48403854..48430310 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047448333.1XP_047304289.1  plexin-B1 isoform X2

    UniProtKB/Swiss-Prot
    Q9UJ93
  2. XM_011533835.2XP_011532137.1  plexin-B1 isoform X1

    See identical proteins and their annotated locations for XP_011532137.1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  3. XM_047448335.1XP_047304291.1  plexin-B1 isoform X2

    UniProtKB/Swiss-Prot
    Q9UJ93
  4. XM_011533836.2XP_011532138.1  plexin-B1 isoform X1

    See identical proteins and their annotated locations for XP_011532138.1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  5. XM_011533833.3XP_011532135.1  plexin-B1 isoform X1

    See identical proteins and their annotated locations for XP_011532135.1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  6. XM_047448331.1XP_047304287.1  plexin-B1 isoform X2

    UniProtKB/Swiss-Prot
    Q9UJ93
  7. XM_017006630.2XP_016862119.1  plexin-B1 isoform X1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  8. XM_047448332.1XP_047304288.1  plexin-B1 isoform X2

    UniProtKB/Swiss-Prot
    Q9UJ93
  9. XM_011533837.2XP_011532139.1  plexin-B1 isoform X1

    See identical proteins and their annotated locations for XP_011532139.1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  10. XM_011533834.2XP_011532136.1  plexin-B1 isoform X1

    See identical proteins and their annotated locations for XP_011532136.1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  11. XM_047448334.1XP_047304290.1  plexin-B1 isoform X2

    UniProtKB/Swiss-Prot
    Q9UJ93
  12. XM_047448330.1XP_047304286.1  plexin-B1 isoform X1

  13. XM_017006631.2XP_016862120.1  plexin-B1 isoform X2

    UniProtKB/Swiss-Prot
    O43157, Q9UJ93
    Conserved Domains (10) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    PHA03247
    Location:681839
    PHA03247; large tegument protein UL36; Provisional
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622102
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    pfam17960
    Location:541627
    TIG_plexin; TIG domain
    pfam18020
    Location:9211020
    TIG_2; TIG domain found in plexin
  14. XM_024453600.2XP_024309368.1  plexin-B1 isoform X1

    Conserved Domains (8) summary
    cd11275
    Location:28480
    Sema_plexin_B1; The Sema domain, a protein interacting module, of Plexin B1
    smart00423
    Location:641677
    PSI; domain found in Plexins, Semaphorins and Integrins
    cd01179
    Location:11621249
    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:10701161
    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:12521376
    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:481527
    PSI; Plexin repeat
    pfam08337
    Location:15622103
    Plexin_cytopl; Plexin cytoplasmic RasGAP domain
    cl26464
    Location:681839
    Atrophin-1; Atrophin-1 family
  15. XM_047448336.1XP_047304292.1  plexin-B1 isoform X3

RNA

  1. XR_007095694.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    48431864..48458098 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)