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    Tdrd7 tudor domain containing 7 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 85425, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Tdrd7provided by RGD
    Official Full Name
    tudor domain containing 7provided by RGD
    Primary source
    RGD:619724
    See related
    EnsemblRapid:ENSRNOG00000055779 AllianceGenome:RGD:619724
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Pctaire2bp
    Summary
    Predicted to enable mRNA binding activity. Predicted to be involved in several processes, including P granule organization; lens development in camera-type eye; and regulation of gene expression. Predicted to act upstream of or within germ cell development. Predicted to be located in chromatoid body. Predicted to be part of ribonucleoprotein complex. Predicted to be active in P granule. Human ortholog(s) of this gene implicated in cataract 36. Orthologous to human TDRD7 (tudor domain containing 7). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Testes (RPKM 329.0), Lung (RPKM 101.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tdrd7 in Genome Data Viewer
    Location:
    5q22
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (65034317..65108165)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (60238742..60312548)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (61557909..61631719)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene STRA6-like Neighboring gene coiled-coil domain containing 180 Neighboring gene uncharacterized LOC120102865 Neighboring gene uncharacterized LOC120102866 Neighboring gene tropomodulin 1 Neighboring gene thiosulfate sulfurtransferase like domain containing 2 Neighboring gene nuclear cap binding protein subunit 1 Neighboring gene XPA, DNA damage recognition and repair factor

    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 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. Identification of tudor repeat associator with PCTAIRE 2 (Trap). A novel protein that interacts with the N-terminal domain of PCTAIRE 2 in rat brain. Hirose T, et al. Eur J Biochem, 2000 Apr. PMID 10727952
    2. 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
    3. Mutations in the RNA granule component TDRD7 cause cataract and glaucoma. Lachke SA, et al. Science, 2011 Mar 25. PMID 21436445, 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

    Clone Names

    • MGC93175

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in P granule organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within germ cell development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lens fiber cell differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lens fiber cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lens fiber cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lens fiber cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in lens morphogenesis in camera-type eye IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lens morphogenesis in camera-type eye IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lens morphogenesis in camera-type eye ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in lens morphogenesis in camera-type eye ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in piRNA processing IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in post-transcriptional regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in post-transcriptional regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in post-transcriptional regulation of gene expression ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in spermatogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in spermatogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spermatogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in spermatogenesis ISS
    Inferred from Sequence or Structural Similarity
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of ribonucleoprotein complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ribonucleoprotein granule IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ribonucleoprotein granule ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    tudor domain-containing protein 7
    Names
    PCTAIRE2-binding protein
    trap
    tudor repeat associator with PCTAIRE-2

    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_138871.2 → NP_620226.1  tudor domain-containing protein 7

      See identical proteins and their annotated locations for NP_620226.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/Swiss-Prot
      Q5FVD0, Q9R1R4
      UniProtKB/TrEMBL
      A0A8L2R2S9, A6IJA7
      Conserved Domains (5) summary
      cd04508
      Location:722 → 767
      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 ...
      cd09973
      Location:250 → 316
      LOTUS_2_TDRD7; The second LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09974
      Location:355 → 419
      LOTUS_3_TDRD7; The third LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09986
      Location:5 → 91
      LOTUS_1_TDRD7; The first LOTUS domain on Tudor-containing protein 7 (TDRD7)
      pfam00567
      Location:924 → 1041
      TUDOR; Tudor domain

    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_086023.1 Reference GRCr8

      Range
      65034317..65108165
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238108.4 → XP_006238170.1  tudor domain-containing protein 7 isoform X2

      UniProtKB/TrEMBL
      A0A8L2R2S9, A0A8L2R3M8
      Related
      ENSRNOP00000070639.2, ENSRNOT00000090186.3
      Conserved Domains (5) summary
      cd04508
      Location:728 → 773
      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 ...
      cd09973
      Location:256 → 322
      LOTUS_2_TDRD7; The second LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09974
      Location:361 → 425
      LOTUS_3_TDRD7; The third LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09986
      Location:38 → 124
      LOTUS_1_TDRD7; The first LOTUS domain on Tudor-containing protein 7 (TDRD7)
      pfam00567
      Location:930 → 1047
      TUDOR; Tudor domain

    2. XM_006238107.4 → XP_006238169.1  tudor domain-containing protein 7 isoform X1

      UniProtKB/TrEMBL
      A0A8L2R2S9
      Conserved Domains (5) summary
      cd04508
      Location:755 → 800
      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 ...
      cd09973
      Location:283 → 349
      LOTUS_2_TDRD7; The second LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09974
      Location:388 → 452
      LOTUS_3_TDRD7; The third LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09986
      Location:38 → 124
      LOTUS_1_TDRD7; The first LOTUS domain on Tudor-containing protein 7 (TDRD7)
      pfam00567
      Location:957 → 1074
      TUDOR; Tudor domain

    3. XM_008763704.1 → XP_008761926.1  tudor domain-containing protein 7 isoform X4

      See identical proteins and their annotated locations for XP_008761926.1

      UniProtKB/TrEMBL
      A0A8L2R2S9
      Related
      ENSRNOP00000070634.3, ENSRNOT00000089938.3
      Conserved Domains (5) summary
      cd04508
      Location:695 → 740
      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 ...
      cd09973
      Location:223 → 289
      LOTUS_2_TDRD7; The second LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09974
      Location:328 → 392
      LOTUS_3_TDRD7; The third LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09986
      Location:5 → 91
      LOTUS_1_TDRD7; The first LOTUS domain on Tudor-containing protein 7 (TDRD7)
      pfam00567
      Location:897 → 1014
      TUDOR; Tudor domain

    4. XM_017593667.3 → XP_017449156.1  tudor domain-containing protein 7 isoform X3

      UniProtKB/Swiss-Prot
      Q5FVD0, Q9R1R4
      UniProtKB/TrEMBL
      A0A8L2R2S9, A6IJA7
      Related
      ENSRNOP00000068568.1, ENSRNOT00000085738.3
      Conserved Domains (5) summary
      cd04508
      Location:722 → 767
      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 ...
      cd09973
      Location:250 → 316
      LOTUS_2_TDRD7; The second LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09974
      Location:355 → 419
      LOTUS_3_TDRD7; The third LOTUS domain on Tudor-containing protein 7 (TDRD7)
      cd09986
      Location:5 → 91
      LOTUS_1_TDRD7; The first LOTUS domain on Tudor-containing protein 7 (TDRD7)
      pfam00567
      Location:924 → 1041
      TUDOR; Tudor domain

    5. XM_063288514.1 → XP_063144584.1  tudor domain-containing protein 7 isoform X5

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9R1R4.1 GenPept UniProtKB/Swiss-Prot:Q9R1R4

    Gene LinkOut

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