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tdrd5 tudor domain containing 5 [ Danio rerio (zebrafish) ]

Gene ID: 557999, updated on 4-Jan-2025

Summary

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Official Symbol
tdrd5provided by ZNC
Official Full Name
tudor domain containing 5provided by ZNC
Primary source
ZFIN:ZDB-GENE-050208-502
See related
Ensembl:ENSDARG00000071450 AllianceGenome:ZFIN:ZDB-GENE-050208-502
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
si:dkey-171o17.7
Summary
Predicted to be involved in P granule organization; spermatid development; and transposable element silencing by piRNA-mediated DNA methylation. Predicted to act upstream of or within germ cell development and spermatogenesis. Predicted to be located in chromatoid body and pi-body. Orthologous to human TDRD5 (tudor domain containing 5). [provided by Alliance of Genome Resources, Jan 2025]
Orthologs
human mouse all
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Genomic context

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See tdrd5 in Genome Data Viewer
Location:
chromosome: 22
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (17261878..17280723)
105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (17235608..17254453)

Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene axonemal dynein light chain domain containing 1 Neighboring gene NPHS2 stomatin family member, podocin Neighboring gene family with sequence similarity 163 member Ab Neighboring gene RAB GTPase activating protein 1-like Neighboring gene G protein-coupled receptor 52

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. Functional equivalence of germ plasm organizers. Krishnakumar P, et al. PLoS Genet, 2018 Nov. PMID 30399145, Free PMC Article
  2. 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
  3. Control over the morphology and segregation of Zebrafish germ cell granules during embryonic development. Strasser MJ, et al. BMC Dev Biol, 2008 May 28. PMID 18507824, Free PMC Article
  4. A Germline-Specific Regulator of Mitochondrial Fusion is Required for Maintenance and Differentiation of Germline Stem and Progenitor Cells. Zhang R, et al. Adv Sci (Weinh), 2022 Dec. PMID 36257818, Free PMC Article
  5. An evolutionary approach to recover genes predominantly expressed in the testes of the zebrafish, chicken and mouse. Fouchécourt S, et al. BMC Evol Biol, 2019 Jul 3. PMID 31269894, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in P granule organization ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within germ cell development IEA
Inferred from Electronic Annotation
more info
  
involved_in spermatid development ISS
Inferred from Sequence or Structural Similarity
more info
  
acts_upstream_of_or_within spermatogenesis IEA
Inferred from Electronic Annotation
more info
  
involved_in transposable element silencing by piRNA-mediated DNA methylation ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in chromatoid body ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in pi-body ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
tudor domain-containing protein 5

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_001044850.1 → NP_001038315.1  tudor domain-containing protein 5

    See identical proteins and their annotated locations for NP_001038315.1

    Status: PROVISIONAL

    Source sequence(s)
    CR381682
    UniProtKB/Swiss-Prot
    A4QN69, Q1L981
    UniProtKB/TrEMBL
    A0A8M9PDW1
    Related
    ENSDARP00000122775.1, ENSDART00000134798.2
    Conserved Domains (5) summary
    cd04508
    Location:527 → 572
    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 ...
    cd09975
    Location:133 → 202
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:289 → 364
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:3 → 97
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:472 → 592
    TUDOR; Tudor domain

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_007133.7 Reference GRCz11 Primary Assembly

    Range
    17261878..17280723
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068216308.1 → XP_068072409.1  tudor domain-containing protein 5 isoform X1

    UniProtKB/TrEMBL
    A0A8M9PDW1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q1L981.1 GenPept UniProtKB/Swiss-Prot:Q1L981

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