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    Tdrkh tudor and KH domain containing [ Rattus norvegicus (Norway rat) ]

    Gene ID: 310652, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Tdrkhprovided by RGD
    Official Full Name
    tudor and KH domain containingprovided by RGD
    Primary source
    RGD:1311196
    See related
    EnsemblRapid:ENSRNOG00000020860 AllianceGenome:RGD:1311196
    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
    Also known as
    RGD1311196
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in several processes, including P granule organization; male meiotic nuclear division; and piRNA processing. Predicted to be located in mitochondrion; pi-body; and piP-body. Predicted to be active in P granule. Orthologous to human TDRKH (tudor and KH domain containing). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 39.5), Adrenal (RPKM 30.1) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tdrkh in Genome Data Viewer
    Location:
    2q34
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (184736255..184760534)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (182049175..182071516)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (195649813..195674217)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene RAR-related orphan receptor C Neighboring gene leucine rich repeat and Ig domain containing 4 Neighboring gene cytochrome c, somatic-like Neighboring gene ornithine decarboxylase antizyme 3 Neighboring gene mitochondrial ribosomal protein L9

    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. Mouse Piwi interactome identifies binding mechanism of Tdrkh Tudor domain to arginine methylated Miwi. Chen C, et al. Proc Natl Acad Sci U S A, 2009 Dec 1. PMID 19918066, Free PMC Article
    2. Tdrkh is essential for spermatogenesis and participates in primary piRNA biogenesis in the germline. Saxe JP, et al. EMBO J, 2013 Jul 3. PMID 23714778, Free PMC Article
    3. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, 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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in P granule organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in fertilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in male meiotic nuclear division ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in piRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in piRNA processing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spermatogenesis 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 cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in pi-body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in piP-body ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    tudor and KH domain-containing protein

    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_001014038.2 → NP_001014060.2  tudor and KH domain-containing protein

      See identical proteins and their annotated locations for NP_001014060.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      A6K2Q7, G3V8T7
      Related
      ENSRNOP00000028298.6, ENSRNOT00000028299.9
      Conserved Domains (2) summary
      cd20412
      Location:328 → 420
      Tudor_TDRD2; Tudor domain found in Tudor domain-containing protein 2 (TDRD2) and similar proteins
      cl00098
      Location:124 → 205
      KH-I; K homology (KH) RNA-binding domain, type I

    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_086020.1 Reference GRCr8

      Range
      184736255..184760534
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281868.1 → XP_063137938.1  tudor and KH domain-containing protein isoform X1

      UniProtKB/TrEMBL
      A6K2Q7, G3V8T7

    2. XM_006232870.5 → XP_006232932.1  tudor and KH domain-containing protein isoform X1

      See identical proteins and their annotated locations for XP_006232932.1

      UniProtKB/TrEMBL
      A6K2Q7, G3V8T7
      Related
      ENSRNOP00000103700.1, ENSRNOT00000130858.1
      Conserved Domains (2) summary
      cd20412
      Location:328 → 420
      Tudor_TDRD2; Tudor domain found in Tudor domain-containing protein 2 (TDRD2) and similar proteins
      cl00098
      Location:124 → 205
      KH-I; K homology (KH) RNA-binding domain, type I
    Nucleotide Protein Strain
    Heading Accession and Version

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