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Tdrd6 tudor domain containing 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 316254, updated on 9-Dec-2024

Summary

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Official Symbol
Tdrd6provided by RGD
Official Full Name
tudor domain containing 6provided by RGD
Primary source
RGD:1305956
See related
EnsemblRapid:ENSRNOG00000025693 AllianceGenome:RGD:1305956
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to be involved in P granule organization; RNA processing; and spermatogenesis. Predicted to act upstream of or within germ cell development. Predicted to be located in chromatoid body and endoplasmic reticulum. Predicted to be part of ribonucleoprotein complex. Predicted to be active in P granule and synapse. Orthologous to human TDRD6 (tudor domain containing 6). [provided by Alliance of Genome Resources, Dec 2024]
Expression
Restricted expression toward (RPKM 608.9) See more
Orthologs
human mouse all
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Genomic context

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See Tdrd6 in Genome Data Viewer
Location:
9q13
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (24841259..24856621)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (17344033..17359348)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (19917613..19932888)

Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene cytochrome P450, family 39, subfamily a, polypeptide 1 Neighboring gene uncharacterized LOC120094639 Neighboring gene solute carrier family 25, member 27 Neighboring gene uncharacterized LOC134480345 Neighboring gene phospholipase A2 group VII Neighboring gene uncharacterized LOC120094640 Neighboring gene ankyrin repeat domain 66

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. TDRD6 mediates early steps of spliceosome maturation in primary spermatocytes. Akpınar M, et al. PLoS Genet, 2017 Mar. PMID 28263986, Free PMC Article
  2. RNF17, a component of the mammalian germ cell nuage, is essential for spermiogenesis. Pan J, et al. Development, 2005 Sep. PMID 16093322, Free PMC Article
  3. Tudor-related proteins TDRD1/MTR-1, TDRD6 and TDRD7/TRAP: domain composition, intracellular localization, and function in male germ cells in mice. Hosokawa M, et al. Dev Biol, 2007 Jan 1. PMID 17141210
  4. Tdrd6 is required for spermiogenesis, chromatoid body architecture, and regulation of miRNA expression. Vasileva A, et al. Curr Biol, 2009 Apr 28. PMID 19345099, Free PMC Article
  5. Integrative characterization of germ cell-specific genes from mouse spermatocyte UniGene library. Choi E, et al. BMC Genomics, 2007 Jul 28. PMID 17662146, 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 RGD

Process Evidence Code Pubs
involved_in P granule organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within germ cell development ISO
Inferred from Sequence Orthology
more info
  
involved_in piRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in spliceosomal snRNP assembly ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in P granule IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P granule ISO
Inferred from Sequence Orthology
more info
  
located_in chromatoid body ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
  
is_active_in synapse ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tudor domain-containing protein 6

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_001432644.1 → NP_001419573.1  tudor domain-containing protein 6 isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    D3ZXQ5

  2. NM_001432645.1 → NP_001419574.1  tudor domain-containing protein 6 isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000009
    UniProtKB/TrEMBL
    D3ZXQ5

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086027.1 Reference GRCr8

    Range
    24841259..24856621
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006244608.5 → XP_006244670.1  tudor domain-containing protein 6 isoform X1

    UniProtKB/TrEMBL
    D3ZXQ5
    Conserved Domains (2) summary
    cd04508
    Location:1578 → 1616
    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 ...
    pfam00567
    Location:1523 → 1645
    TUDOR; Tudor domain

  2. XM_006244609.5 → XP_006244671.1  tudor domain-containing protein 6 isoform X2

    Conserved Domains (2) summary
    cd04508
    Location:1578 → 1616
    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 ...
    pfam00567
    Location:1523 → 1645
    TUDOR; Tudor domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001191583.1: Suppressed sequence

    Description
    NM_001191583.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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