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    wdr48b WD repeat domain 48b [ Danio rerio (zebrafish) ]

    Gene ID: 334682, updated on 9-Dec-2024

    Summary

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    Official Symbol
    wdr48bprovided by ZNC
    Official Full Name
    WD repeat domain 48bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-6622
    See related
    Ensembl:ENSDARG00000038543 AllianceGenome:ZFIN:ZDB-GENE-030131-6622
    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
    wd48; wdr48; fk50c12; zgc:66229; wu:fd19a04; wu:fk50c12
    Summary
    Predicted to enable DNA binding activity; deubiquitinase activator activity; and ubiquitin binding activity. Predicted to be involved in double-strand break repair via homologous recombination and positive regulation of double-strand break repair via homologous recombination. Predicted to act upstream of or within DNA repair. Predicted to be located in nucleus. Orthologous to human WDR48 (WD repeat domain 48). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See wdr48b in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (49805886..49834052)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (50071665..50099826)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene si:ch211-209f23.7 Neighboring gene upregulator of cell proliferation Neighboring gene uncharacterized LOC137488210 Neighboring gene uncharacterized LOC101882528 Neighboring gene uncharacterized LOC137487488 Neighboring gene biliverdin reductase A Neighboring gene cytochrome C oxidase assembly factor 1

    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. Rapid progression through the cell cycle ensures efficient migration of primordial germ cells - The role of Hsp90. Pfeiffer J, et al. Dev Biol, 2018 Apr 15. PMID 29477339
    2. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
    3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables deubiquitinase activator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables double-stranded DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables single-stranded DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables ubiquitin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA damage response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA damage response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair via homologous recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of double-strand break repair via homologous recombination ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in late endosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in lysosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    WD repeat-containing protein 48
    Names
    USP1-associated factor 1
    WD repeat domain 48

    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_214709.1 → NP_999874.1  WD repeat-containing protein 48

      See identical proteins and their annotated locations for NP_999874.1

      Status: PROVISIONAL

      Source sequence(s)
      BC057489
      UniProtKB/Swiss-Prot
      B0S5N8, Q6PFM9
      Related
      ENSDARP00000056247.4, ENSDART00000056248.5
      Conserved Domains (4) summary
      COG2319
      Location:31 → 391
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:30 → 300
      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 ...
      pfam11816
      Location:509 → 673
      DUF3337; Domain of unknown function (DUF3337)
      sd00039
      Location:35 → 73
      7WD40; WD40 repeat [structural motif]

    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_007113.7 Reference GRCz11 Primary Assembly

      Range
      49805886..49834052
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005168422.5 → XP_005168479.1  WD repeat-containing protein 48 isoform X1

      UniProtKB/Swiss-Prot
      B0S5N8, Q6PFM9
      UniProtKB/TrEMBL
      A0A8M2BFQ8
      Conserved Domains (4) summary
      COG2319
      Location:31 → 390
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:30 → 299
      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 ...
      pfam11816
      Location:508 → 672
      DUF3337; Domain of unknown function (DUF3337)
      sd00039
      Location:35 → 72
      7WD40; WD40 repeat [structural motif]

    2. XM_005168423.5 → XP_005168480.1  WD repeat-containing protein 48 isoform X2

      UniProtKB/Swiss-Prot
      B0S5N8, Q6PFM9
      UniProtKB/TrEMBL
      A0A8M2BFR4
      Conserved Domains (4) summary
      COG2319
      Location:27 → 325
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:28 → 298
      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 ...
      pfam11816
      Location:507 → 671
      DUF3337; Domain of unknown function (DUF3337)
      sd00039
      Location:33 → 71
      7WD40; WD40 repeat [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PFM9.2 GenPept UniProtKB/Swiss-Prot:Q6PFM9

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