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Tdrd9 tudor domain containing 9 [ Mus musculus (house mouse) ]

Gene ID: 74691, updated on 18-Sep-2024

Summary

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Official Symbol
Tdrd9provided by MGI
Official Full Name
tudor domain containing 9provided by MGI
Primary source
MGI:MGI:1921941
See related
Ensembl:ENSMUSG00000054003 AllianceGenome:MGI:1921941
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
4930441E05Rik
Summary
Predicted to enable RNA binding activity. Involved in fertilization; gamete generation; and piRNA metabolic process. Acts upstream of or within negative regulation of transposition. Located in nucleus and piP-body. Is expressed in germ cell of testis. Human ortholog(s) of this gene implicated in spermatogenic failure 30. Orthologous to human TDRD9 (tudor domain containing 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward testis adult (RPKM 20.7) See more
Orthologs
human all
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Genomic context

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See Tdrd9 in Genome Data Viewer
Location:
12 F1; 12 61.14 cM
Exon count:
38
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (111937922..112035288)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (111971488..112068854)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 36757 Neighboring gene STARR-positive B cell enhancer ABC_E8504 Neighboring gene ATP synthase membrane subunit j Neighboring gene retinal degeneration 3-like Neighboring gene predicted gene, 46381 Neighboring gene microRNA 3073a Neighboring gene microRNA 3073b Neighboring gene asparaginase Neighboring gene microRNA 203b Neighboring gene microRNA 203

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. The nuage mediates retrotransposon silencing in mouse primordial ovarian follicles. Lim AK, et al. Development, 2013 Sep. PMID 23924633, Free PMC Article
  2. Mouse GTSF1 is an essential factor for secondary piRNA biogenesis. Yoshimura T, et al. EMBO Rep, 2018 Apr. PMID 29437694, Free PMC Article
  3. Mouse D1Pas1, a DEAD-box RNA helicase, is required for the completion of first meiotic prophase in male germ cells. Inoue H, et al. Biochem Biophys Res Commun, 2016 Sep 16. PMID 27473657
  4. MVH in piRNA processing and gene silencing of retrotransposons. Kuramochi-Miyagawa S, et al. Genes Dev, 2010 May. PMID 20439430, Free PMC Article
  5. Distinct Roles of RNA Helicases MVH and TDRD9 in PIWI Slicing-Triggered Mammalian piRNA Biogenesis and Function. Wenda JM, et al. Dev Cell, 2017 Jun 19. PMID 28633017, Free PMC Article

See all (26) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. ATPase activity of TDRD9 is dispensable for piRNA biogenesis but is essential for transposon silencing and male fertility
    Title: Distinct Roles of RNA Helicases MVH and TDRD9 in PIWI Slicing-Triggered Mammalian piRNA Biogenesis and Function.
  2. Results identify TDRD9 as a functional partner of MIWI2 and indicate that the tudor-piwi association is a conserved feature, while two separate axes, TDRD9-MIWI2 and TDRD1-MILI, cooperate in the piwi-small RNA pathway in the mouse male germline.
    Title: The TDRD9-MIWI2 complex is essential for piRNA-mediated retrotransposon silencing in the mouse male germline.
  3. Transcripts highly enriched in ovary; gene identified as candidate female fertility factor.
    Title: Genomewide discovery and classification of candidate ovarian fertility genes in the mouse.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Targeted (5)  1 citation

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in fertilization IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in male meiosis I IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in male meiotic nuclear division IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in piRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in piRNA-mediated retrotransposon silencing by heterochromatin formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within retrotransposon silencing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in retrotransposon silencing by piRNA-directed DNA methylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in spermatogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in spermatogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
located_in piP-body IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
ATP-dependent RNA helicase TDRD9
Names
putative ATP-dependent RNA helicase TDRD9
tudor domain-containing protein 9
NP_083332.1
XP_006516379.1
XP_006516380.1
XP_006516382.1
XP_006516383.1
XP_006516384.1
XP_006516385.1
XP_017170707.1

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_029056.1 → NP_083332.1  ATP-dependent RNA helicase TDRD9

    See identical proteins and their annotated locations for NP_083332.1

    Status: VALIDATED

    Source sequence(s)
    AB362563
    Consensus CDS
    CCDS49184.1
    UniProtKB/Swiss-Prot
    B1Q3J8, Q14AW6, Q14BI7
    Related
    ENSMUSP00000078022.6, ENSMUST00000079009.11
    Conserved Domains (2) summary
    COG1643
    Location:111 → 717
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    cd20431
    Location:906 → 1006
    Tudor_TDRD9; Tudor domain found in Tudor domain-containing protein 9 (TDRD9) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    111937922..112035288
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017315218.2 → XP_017170707.1  ATP-dependent RNA helicase TDRD9 isoform X7

    Conserved Domains (1) summary
    COG1643
    Location:111 → 717
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]

  2. XM_006516317.5 → XP_006516380.1  ATP-dependent RNA helicase TDRD9 isoform X2

    Conserved Domains (2) summary
    COG1643
    Location:111 → 717
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    pfam00567
    Location:905 → 1014
    TUDOR; Tudor domain

  3. XM_006516316.3 → XP_006516379.1  ATP-dependent RNA helicase TDRD9 isoform X1

    Conserved Domains (2) summary
    COG1643
    Location:111 → 680
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    pfam00567
    Location:887 → 996
    TUDOR; Tudor domain

  4. XM_006516320.4 → XP_006516383.1  ATP-dependent RNA helicase TDRD9 isoform X4

    Conserved Domains (2) summary
    COG1643
    Location:111 → 695
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    pfam00567
    Location:812 → 921
    TUDOR; Tudor domain

  5. XM_006516319.3 → XP_006516382.1  ATP-dependent RNA helicase TDRD9 isoform X3

    Conserved Domains (2) summary
    COG1643
    Location:38 → 644
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    pfam00567
    Location:832 → 941
    TUDOR; Tudor domain

  6. XM_006516321.3 → XP_006516384.1  ATP-dependent RNA helicase TDRD9 isoform X5

    See identical proteins and their annotated locations for XP_006516384.1

    UniProtKB/Swiss-Prot
    Q14BI7
    Conserved Domains (2) summary
    COG1643
    Location:13 → 316
    HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    pfam00567
    Location:504 → 613
    TUDOR; Tudor domain

  7. XM_006516322.1 → XP_006516385.1  ATP-dependent RNA helicase TDRD9 isoform X6

    Conserved Domains (2) summary
    TIGR01967
    Location:1 → 186
    DEAH_box_HrpA; RNA helicase HrpA
    pfam00567
    Location:379 → 488
    TUDOR; Tudor domain

RNA

  1. XR_381553.4 RNA Sequence

  2. XR_003950089.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q14BI7.3 GenPept UniProtKB/Swiss-Prot:Q14BI7

Gene LinkOut

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