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

Gene ID: 402828, updated on 2-Nov-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, Nov 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 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

    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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