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    tdrd3 tudor domain containing 3 [ Danio rerio (zebrafish) ]

    Gene ID: 402828, updated on 9-Dec-2024

    Summary

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    Official Symbol
    tdrd3provided by ZNC
    Official Full Name
    tudor domain containing 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-19
    See related
    Ensembl:ENSDARG00000025421 AllianceGenome:ZFIN:ZDB-GENE-040426-19
    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
    zgc:77174
    Summary
    Predicted to enable chromatin binding activity; methylated histone binding activity; and transcription coactivator activity. Predicted to act upstream of or within chromatin organization and mRNA processing. Predicted to be located in cytoplasm. Predicted to be part of exon-exon junction complex. Predicted to be active in nucleus. Orthologous to human TDRD3 (tudor domain containing 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See tdrd3 in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 11 NC_007122.7 (42724615..42817723)
    105 previous assembly GRCz10 (GCF_000002035.5) 11 NC_007122.6 (42473871..42525641)

    Chromosome 11 - NC_007122.7Genomic Context describing neighboring genes Neighboring gene HESX homeobox 1 Neighboring gene interleukin 17 receptor D Neighboring gene si:ch73-106k19.2 Neighboring gene si:ch73-106k19.4 Neighboring gene si:ch73-106k19.5 Neighboring gene uncharacterized LOC100331538 Neighboring gene zgc:194981 Neighboring gene uncharacterized LOC108191666 Neighboring gene protocadherin 20 Neighboring gene uncharacterized LOC137496737 Neighboring gene EMAP like 6

    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. Comparative studies on duplicated tdrd7 paralogs in teleosts: Molecular evolution caused neo-functionalization. Wang B, et al. Comp Biochem Physiol Part D Genomics Proteomics, 2019 Jun. PMID 31059868
    2. A network of epigenetic regulators guides developmental haematopoiesis in vivo. Huang HT, et al. Nat Cell Biol, 2013 Dec. PMID 24240475, Free PMC Article
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables methylated histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables transcription coactivator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of exon-exon junction complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    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
    tudor domain-containing protein 3

    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_001001823.2 → NP_001001823.2  tudor domain-containing protein 3

      Status: VALIDATED

      Source sequence(s)
      CU459094, CU464202, CU633774
      UniProtKB/Swiss-Prot
      Q6NYG6
      UniProtKB/TrEMBL
      A0A8M1MZN5, X1WG14
      Related
      ENSDARP00000129169.1, ENSDART00000156080.3
      Conserved Domains (3) summary
      cd04508
      Location:643 → 691
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      cd14282
      Location:291 → 329
      UBA_TDRD3; UBA domain of Tudor domain-containing protein 3 (TDRD3) and similar proteins
      pfam08585
      Location:14 → 163
      RMI1_N; RecQ mediated genome instability 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_007122.7 Reference GRCz11 Primary Assembly

      Range
      42724615..42817723
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068224135.1 → XP_068080236.1  tudor domain-containing protein 3 isoform X2

      UniProtKB/Swiss-Prot
      Q6NYG6
      Related
      ENSDARP00000030883.6, ENSDART00000028955.6

    2. XM_005169413.5 → XP_005169470.1  tudor domain-containing protein 3 isoform X3

      UniProtKB/Swiss-Prot
      Q6NYG6
      UniProtKB/TrEMBL
      A0A8M2BGT2
      Conserved Domains (3) summary
      cd04508
      Location:643 → 691
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      cd14282
      Location:291 → 329
      UBA_TDRD3; UBA domain of Tudor domain-containing protein 3 (TDRD3) and similar proteins
      pfam08585
      Location:14 → 163
      RMI1_N; RecQ mediated genome instability protein

    3. XM_005169411.5 → XP_005169468.1  tudor domain-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      Q6NYG6
      UniProtKB/TrEMBL
      A0A2R8RPE6, A0A8M2BGQ3
      Related
      ENSDARP00000149904.1, ENSDART00000179888.1
      Conserved Domains (3) summary
      cd04508
      Location:643 → 691
      TUDOR; Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to ...
      cd14282
      Location:291 → 329
      UBA_TDRD3; UBA domain of Tudor domain-containing protein 3 (TDRD3) and similar proteins
      pfam08585
      Location:14 → 163
      RMI1_N; RecQ mediated genome instability protein
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6NYG6.1 GenPept UniProtKB/Swiss-Prot:Q6NYG6

    Gene LinkOut

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