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    wdr24 WD repeat domain 24 [ Danio rerio (zebrafish) ]

    Gene ID: 406336, updated on 9-Dec-2024

    Summary

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    Official Symbol
    wdr24provided by ZNC
    Official Full Name
    WD repeat domain 24provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2012
    See related
    Ensembl:ENSDARG00000025507 AllianceGenome:ZFIN:ZDB-GENE-040426-2012
    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
    zgc:55946; wu:fd05f12
    Summary
    Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in several processes, including cellular response to amino acid starvation; positive regulation of TORC1 signaling; and protein K6-linked ubiquitination. Predicted to act upstream of or within autophagy and positive regulation of TOR signaling. Predicted to be located in lysosomal membrane. Predicted to be part of GATOR2 complex. Predicted to be active in cytosol and vacuolar membrane. Orthologous to human WDR24 (WD repeat domain 24). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See wdr24 in Genome Data Viewer
    Location:
    chromosome: 24
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 24 NC_007135.7 (37640698..37661073)
    105 previous assembly GRCz10 (GCF_000002035.5) 24 NC_007135.6 (37752768..37772762)

    Chromosome 24 - NC_007135.7Genomic Context describing neighboring genes Neighboring gene rhomboid, veinlet-like 1 (Drosophila) Neighboring gene zgc:112496 Neighboring gene ankyrin repeat and sterile alpha motif domain containing 3 Neighboring gene zgc:112185

    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. Zebrafish raptor mutation inhibits the activity of mTORC1, inducing craniofacial defects due to autophagy-induced neural crest cell death. Tucker SK, et al. Development, 2024 Mar 15. PMID 38512806,
    2. Early leucine programming on protein utilization and mTOR signaling by DNA methylation in zebrafish (Danio rerio). Zhu QS, et al. Nutr Metab (Lond), 2020. PMID 32818036, Free PMC Article
    3. Initiation of zebrafish haematopoiesis by the TATA-box-binding protein-related factor Trf3. Hart DO, et al. Nature, 2007 Dec 13. PMID 18046332, Free PMC Article
    4. Analysis of DNA methylation reveals a partial reprogramming of the Müller glia genome during retina regeneration. Powell C, et al. Proc Natl Acad Sci U S A, 2013 Dec 3. PMID 24248357, Free PMC Article
    5. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article

    See all (8) 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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin protein ligase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within autophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cellular response to amino acid starvation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to nutrient levels ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within positive regulation of TOR signaling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of TORC1 signaling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of TORC1 signaling ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of macroautophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein K6-linked ubiquitination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of GATOR2 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of GATOR2 complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in lysosomal membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in lysosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in vacuolar membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    GATOR2 complex protein WDR24
    Names
    GATOR complex protein WDR24
    WD repeat-containing protein 24
    NP_998228.1
    XP_005162936.1

    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_213063.1 → NP_998228.1  GATOR2 complex protein WDR24

      See identical proteins and their annotated locations for NP_998228.1

      Status: PROVISIONAL

      Source sequence(s)
      BC045501
      UniProtKB/Swiss-Prot
      Q7ZVL2
      Related
      ENSDARP00000008451.8, ENSDART00000008047.10
      Conserved Domains (4) summary
      COG2319
      Location:51 → 318
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:118 → 155
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:82 → 318
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      cl24077
      Location:718 → 776
      Zn_ribbon_17; Zinc-ribbon, C4HC2 type

    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_007135.7 Reference GRCz11 Primary Assembly

      Range
      37640698..37661073
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005162879.5 → XP_005162936.1  GATOR2 complex protein WDR24 isoform X1

      UniProtKB/TrEMBL
      A0A8M2B9U3
      Conserved Domains (4) summary
      COG2319
      Location:51 → 318
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:118 → 155
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:82 → 318
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      cl24077
      Location:717 → 775
      Zn_ribbon_17; Zinc-ribbon, C4HC2 type
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7ZVL2.1 GenPept UniProtKB/Swiss-Prot:Q7ZVL2

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