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

Gene ID: 310652, updated on 13-Apr-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
Ensembl: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 fertilization; gamete generation; and piRNA metabolic process. 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, Apr 2022]
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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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
    ENSRNOP00000028298.5, ENSRNOT00000028299.8
    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
    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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