U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Tdrd9 tudor domain containing 9 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 299343, updated on 9-Dec-2024

    Summary

    Official Symbol
    Tdrd9provided by RGD
    Official Full Name
    tudor domain containing 9provided by RGD
    Primary source
    RGD:1306942
    See related
    EnsemblRapid:ENSRNOG00000053631 AllianceGenome:RGD:1306942
    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 enable ATP hydrolysis activity; RNA binding activity; and helicase activity. Predicted to be involved in several processes, including male meiosis I; regulatory ncRNA-mediated gene silencing; and spermatogenesis. Predicted to act upstream of or within retrotransposon silencing. Predicted to be located in piP-body. Predicted to be active in cytoplasm and nucleus. 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, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 138.2) and Testes (RPKM 85.5) See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Tdrd9 in Genome Data Viewer
    Location:
    6q32
    Exon count:
    39
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (136850797..136966225)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (131029644..131145076)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (136536636..136650481)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102548399 Neighboring gene ATP synthase membrane subunit j Neighboring gene U6 spliceosomal RNA Neighboring gene ATP synthase membrane subunit g, pseudogene 4 Neighboring gene RD3 like Neighboring gene fibrillarin, pseudogene 3 Neighboring gene asparaginase Neighboring gene microRNA 3545 Neighboring gene microRNA 203

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding  
    enables ATP hydrolysis activity  
    enables ATP hydrolysis activity  
    enables ATP-dependent H2AZ histone chaperone activity  
    enables ATP-dependent H3-H4 histone complex chaperone activity  
    enables DNA clamp loader activity  
    enables RNA binding  
    enables RNA helicase activity  
    enables chromatin extrusion motor activity  
    enables cohesin loader activity  
    enables helicase activity  
    enables helicase activity  
    enables nucleic acid binding  
    Process Evidence Code Pubs
    involved_in cell differentiation  
    involved_in chromatin looping  
    involved_in fertilization  
    involved_in fertilization  
    involved_in male meiosis I  
    involved_in male meiosis I  
    involved_in male meiotic nuclear division  
    involved_in male meiotic nuclear division  
    involved_in meiotic cell cycle  
    involved_in piRNA processing  
    involved_in piRNA processing  
    involved_in regulatory ncRNA-mediated gene silencing  
    involved_in spermatogenesis  
    involved_in spermatogenesis  
    involved_in spermatogenesis  
    acts_upstream_of_or_within transposable element silencing  
    involved_in transposable element silencing by piRNA-mediated DNA methylation  
    involved_in transposable element silencing by piRNA-mediated DNA methylation  
    involved_in transposable element silencing by piRNA-mediated heterochromatin formation  
    involved_in transposable element silencing by piRNA-mediated heterochromatin formation  
    Component Evidence Code Pubs
    is_active_in cytoplasm  
    located_in cytoplasm  
    located_in cytoplasm  
    is_active_in nucleus  
    located_in nucleus  
    located_in nucleus  
    located_in piP-body  
    located_in piP-body  

    General protein information

    Preferred Names
    ATP-dependent RNA helicase TDRD9
    Names
    putative ATP-dependent RNA helicase TDRD9
    tudor domain-containing protein 9
    NP_001406506.1
    XP_008763207.1
    XP_017450003.1
    XP_017450004.1
    XP_017450005.1
    XP_038969315.1
    XP_038969316.1
    XP_038969319.1
    XP_063117861.1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001419577.1NP_001406506.1  ATP-dependent RNA helicase TDRD9

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/Swiss-Prot
      Q3MHU3
      UniProtKB/TrEMBL
      A0A8I6AIH4
      Related
      ENSRNOP00000073728.1, ENSRNOT00000086594.3

    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_086024.1 Reference GRCr8

      Range
      136850797..136966225
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017594515.3XP_017450004.1  ATP-dependent RNA helicase TDRD9 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AIH4
      Conserved Domains (6) summary
      cd04508
      Location:9621009
      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 ...
      smart00487
      Location:146327
      DEXDc; DEAD-like helicases superfamily
      smart00847
      Location:590667
      HA2; Helicase associated domain (HA2) Add an annotation
      cd00046
      Location:151292
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam00271
      Location:385502
      Helicase_C; Helicase conserved C-terminal domain
      pfam00567
      Location:9241026
      TUDOR; Tudor domain
    2. XM_017594516.3XP_017450005.1  ATP-dependent RNA helicase TDRD9 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AIH4
      Conserved Domains (6) summary
      cd04508
      Location:923970
      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 ...
      smart00487
      Location:146327
      DEXDc; DEAD-like helicases superfamily
      smart00847
      Location:590667
      HA2; Helicase associated domain (HA2) Add an annotation
      cd00046
      Location:151292
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam00271
      Location:385502
      Helicase_C; Helicase conserved C-terminal domain
      pfam00567
      Location:885987
      TUDOR; Tudor domain
    3. XM_017594514.3XP_017450003.1  ATP-dependent RNA helicase TDRD9 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AIH4
      Conserved Domains (6) summary
      cd04508
      Location:9621009
      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 ...
      smart00487
      Location:146327
      DEXDc; DEAD-like helicases superfamily
      smart00847
      Location:590667
      HA2; Helicase associated domain (HA2) Add an annotation
      cd00046
      Location:151292
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam00271
      Location:385502
      Helicase_C; Helicase conserved C-terminal domain
      pfam00567
      Location:9241026
      TUDOR; Tudor domain
    4. XM_008764985.3XP_008763207.1  ATP-dependent RNA helicase TDRD9 isoform X3

      See identical proteins and their annotated locations for XP_008763207.1

      UniProtKB/TrEMBL
      A0A8I6AIH4
      Conserved Domains (6) summary
      cd04508
      Location:951998
      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 ...
      smart00487
      Location:146327
      DEXDc; DEAD-like helicases superfamily
      smart00847
      Location:590667
      HA2; Helicase associated domain (HA2) Add an annotation
      cd00046
      Location:151292
      DEXDc; DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
      pfam00271
      Location:385502
      Helicase_C; Helicase conserved C-terminal domain
      pfam00567
      Location:9131015
      TUDOR; Tudor domain
    5. XM_063261791.1XP_063117861.1  ATP-dependent RNA helicase TDRD9 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AIH4
      Related
      ENSRNOP00000111390.1, ENSRNOT00000171820.1
    6. XM_039113391.2XP_038969319.1  ATP-dependent RNA helicase TDRD9 isoform X8

      Conserved Domains (1) summary
      COG1643
      Location:111681
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
    7. XM_039113387.1XP_038969315.1  ATP-dependent RNA helicase TDRD9 isoform X6

      UniProtKB/TrEMBL
      A0A8I6AIH4
      Conserved Domains (2) summary
      COG1643
      Location:1487
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
      cd20431
      Location:688787
      Tudor_TDRD9; Tudor domain found in Tudor domain-containing protein 9 (TDRD9) and similar proteins
    8. XM_039113388.2XP_038969316.1  ATP-dependent RNA helicase TDRD9 isoform X7

      Conserved Domains (2) summary
      COG1643
      Location:13316
      HrpA; HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis]
      cd20431
      Location:517616
      Tudor_TDRD9; Tudor domain found in Tudor domain-containing protein 9 (TDRD9) and similar proteins

    RNA

    1. XR_010052076.1 RNA Sequence

    External link. Please review our privacy policy.