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    prg4b proteoglycan 4b [ Danio rerio (zebrafish) ]

    Gene ID: 553377, updated on 9-Dec-2024

    Summary

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    Official Symbol
    prg4bprovided by ZNC
    Official Full Name
    proteoglycan 4bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-041014-324
    See related
    Ensembl:ENSDARG00000028163 AllianceGenome:ZFIN:ZDB-GENE-041014-324
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    prg4; zgc:122988; si:dkey-97o5.3
    Summary
    Predicted to enable polysaccharide binding activity and scavenger receptor activity. Predicted to act upstream of or within immune response. Predicted to be located in extracellular region. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in articular cartilage; inter-coracoid joint; liver; and quadrate-anguloarticular joint. Human ortholog(s) of this gene implicated in camptodactyly-arthropathy-coxa vara-pericarditis syndrome and pericarditis. Orthologous to human PRG4 (proteoglycan 4). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See prg4b in Genome Data Viewer
    Location:
    chromosome: 20
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 20 NC_007131.7 (34029810..34039634)
    105 previous assembly GRCz10 (GCF_000002035.5) 20 NC_007131.6 (34126929..34136755)

    Chromosome 20 - NC_007131.7Genomic Context describing neighboring genes Neighboring gene fignl1 interacting regulator of recombination and mitosis Neighboring gene SCY1-like, kinase-like 3 Neighboring gene translocated promoter region b, nuclear basket protein Neighboring gene phosducin b Neighboring gene prostaglandin-endoperoxide synthase 2b

    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. Regeneration of Jaw Joint Cartilage in Adult Zebrafish. Smeeton J, et al. Front Cell Dev Biol, 2021. PMID 35127702, Free PMC Article
    2. Ancient origin of lubricated joints in bony vertebrates. Askary A, et al. Elife, 2016 Jul 19. PMID 27434666, Free PMC Article
    3. Latent developmental potential to form limb-like skeletal structures in zebrafish. Hawkins MB, et al. Cell, 2021 Feb 18. PMID 33545089
    4. Tpr Deficiency Disrupts Erythroid Maturation With Impaired Chromatin Condensation in Zebrafish Embryogenesis. Wu S, et al. Front Cell Dev Biol, 2021. PMID 34722501, Free PMC Article
    5. Comparative Transcriptome Analysis of the Regenerating Zebrafish Telencephalon Unravels a Resource With Key Pathways During Two Early Stages and Activation of Wnt/β-Catenin Signaling at the Early Wound Healing Stage. Demirci Y, et al. Front Cell Dev Biol, 2020. PMID 33163496, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC122988

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables polysaccharide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables scavenger receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    proteoglycan 4b
    Names
    proteoglycan 4

    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_001328330.1 → NP_001315259.1  proteoglycan 4b precursor

      Status: VALIDATED

      Source sequence(s)
      BX323056, EB918079, EH497845, EH524122
      UniProtKB/TrEMBL
      A0A8M1PA50, F1REF9
      Related
      ENSDARP00000112635.2, ENSDART00000143901.4
      Conserved Domains (6) summary
      cd00094
      Location:477 → 705
      HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...
      pfam01033
      Location:62 → 99
      Somatomedin_B; Somatomedin B domain
      pfam05466
      Location:113 → 332
      BASP1; Brain acid soluble protein 1 (BASP1 protein)
      pfam08690
      Location:192 → 297
      GET2; GET complex subunit GET2
      pfam15140
      Location:258 → 420
      DUF4573; Domain of unknown function (DUF4573)
      cl15483
      Location:350 → 461
      Hid1; High-temperature-induced dauer-formation protein

    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_007131.7 Reference GRCz11 Primary Assembly

      Range
      34029810..34039634
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068215442.1 → XP_068071543.1  proteoglycan 4b isoform X1

      UniProtKB/TrEMBL
      A0A8M2B7K8

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001037673.1: Suppressed sequence

      Description
      NM_001037673.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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