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plcb3 phospholipase C, beta 3 (phosphatidylinositol-specific) [ Danio rerio (zebrafish) ]

Gene ID: 100001532, updated on 4-Jan-2025

Summary

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Official Symbol
plcb3provided by ZNC
Official Full Name
phospholipase C, beta 3 (phosphatidylinositol-specific)provided by ZNC
Primary source
ZFIN:ZDB-GENE-030616-594
See related
Ensembl:ENSDARG00000068246 AllianceGenome:ZFIN:ZDB-GENE-030616-594
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
she; Plcbeta3; wu:fl04b08; si:zc188c22.1; si:ch211-188c22.1
Summary
Predicted to enable calmodulin binding activity and phosphatidylinositol phospholipase C activity. Acts upstream of or within negative regulation of calcium ion import; negative regulation of vascular permeability; and skeletal system development. Predicted to be active in cytoplasm. Is expressed in several structures, including epidermis; nervous system; otic vesicle; pharyngeal arch; and pronephric duct. Human ortholog(s) of this gene implicated in spondylometaphyseal dysplasia with corneal dystrophy. Orthologous to human PLCB3 (phospholipase C beta 3). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See plcb3 in Genome Data Viewer
Location:
chromosome: 7
Exon count:
34
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (60256923..60351876, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (59951156..60047321, complement)

Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene chaperonin containing TCP1, subunit 7 (eta) Neighboring gene solute carrier family 8 member 4b Neighboring gene uncharacterized LOC137496230 Neighboring gene protein phosphatase 1, regulatory (inhibitor) subunit 14Bb Neighboring gene BRMS1 transcriptional repressor and anoikis regulator

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Endothelin 1-mediated regulation of pharyngeal bone development in zebrafish. Kimmel CB, et al. Development, 2003 Apr. PMID 12588850
  2. Revealing the role of phospholipase Cβ3 in the regulation of VEGF-induced vascular permeability. Hoeppner LH, et al. Blood, 2012 Sep 13. PMID 22674805, Free PMC Article
  3. Jaw and branchial arch mutants in zebrafish II: anterior arches and cartilage differentiation. Piotrowski T, et al. Development, 1996 Dec. PMID 9007254
  4. Craniofacial skeletal defects of adult zebrafish Glypican 4 (knypek) mutants. LeClair EE, et al. Dev Dyn, 2009 Oct. PMID 19777561, Free PMC Article
  5. phospholipase C, beta 3 is required for Endothelin1 regulation of pharyngeal arch patterning in zebrafish. Walker MB, et al. Dev Biol, 2007 Apr 1. PMID 17239364, Free PMC Article

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables calmodulin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphatidylinositol phospholipase C activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables phosphatidylinositol phospholipase C activity IEA
Inferred from Electronic Annotation
more info
  
enables phosphoric diester hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in G protein-coupled receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cartilage morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within embryonic viscerocranium morphogenesis IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within embryonic viscerocranium morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within intracellular signal transduction IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within lipid catabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within lipid metabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of calcium ion import IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within negative regulation of vascular permeability IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in phosphatidylinositol metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in phosphatidylinositol-mediated signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in release of sequestered calcium ion into cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within signal transduction IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-3
Names
schmerle
NP_001116245.1
XP_005166590.1

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)

  1. NM_001122773.1 → NP_001116245.1  1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-3

    See identical proteins and their annotated locations for NP_001116245.1

    Status: PROVISIONAL

    Source sequence(s)
    EF204528
    UniProtKB/TrEMBL
    A2TJ25
    Related
    ENSDARP00000089334.3, ENSDART00000098563.4
    Conserved Domains (9) summary
    cd00275
    Location:707 → 825
    C2_PLC_like; C2 domain present in Phosphoinositide-specific phospholipases C (PLC)
    cd08591
    Location:318 → 673
    PI-PLCc_beta; Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta
    PLN02952
    Location:209 → 820
    PLN02952; phosphoinositide phospholipase C
    cd13361
    Location:22 → 151
    PH_PLC_beta; Phospholipase C-beta (PLC-beta) pleckstrin homology (PH) domain
    pfam06631
    Location:922 → 957
    DUF1154; Protein of unknown function (DUF1154)
    pfam07106
    Location:1013 → 1139
    TBPIP; Tat binding protein 1(TBP-1)-interacting protein (TBPIP)
    pfam08703
    Location:1014 → 1184
    PLC-beta_C; PLC-beta C terminal
    pfam09279
    Location:226 → 316
    EF-hand_like; Phosphoinositide-specific phospholipase C, efhand-like
    pfam14644
    Location:913 → 1051
    DUF4456; Domain of unknown function (DUF4456)

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007118.7 Reference GRCz11 Primary Assembly

    Range
    60256923..60351876 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005166533.5 → XP_005166590.1  1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase beta-3 isoform X1

    UniProtKB/TrEMBL
    A0A0R4IVA6, A0A8M2BDZ4
    Related
    ENSDARP00000138179.2, ENSDART00000159875.2
    Conserved Domains (8) summary
    cd00275
    Location:707 → 825
    C2_PLC_like; C2 domain present in Phosphoinositide-specific phospholipases C (PLC)
    cd08591
    Location:318 → 673
    PI-PLCc_beta; Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta
    PLN02952
    Location:209 → 820
    PLN02952; phosphoinositide phospholipase C
    cd13361
    Location:22 → 151
    PH_PLC_beta; Phospholipase C-beta (PLC-beta) pleckstrin homology (PH) domain
    pfam06631
    Location:922 → 957
    DUF1154; Protein of unknown function (DUF1154)
    pfam08703
    Location:1014 → 1185
    PLC-beta_C; PLC-beta C terminal
    pfam09279
    Location:226 → 316
    EF-hand_like; Phosphoinositide-specific phospholipase C, efhand-like
    pfam14644
    Location:934 → 1051
    DUF4456; Domain of unknown function (DUF4456)
Nucleotide Protein Strain
Heading Accession and Version

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