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Tdrd1 tudor domain containing 1 [ Mus musculus (house mouse) ]

Gene ID: 83561, updated on 27-Nov-2024

Summary

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Official Symbol
Tdrd1provided by MGI
Official Full Name
tudor domain containing 1provided by MGI
Primary source
MGI:MGI:1933218
See related
Ensembl:ENSMUSG00000025081 AllianceGenome:MGI:1933218
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
MTR-1
Summary
Predicted to enable metal ion binding activity. Involved in germ cell development; regulatory ncRNA-mediated gene silencing; and spermatogenesis. Located in chromatoid body and pi-body. Part of ribonucleoprotein complex. Is active in synapse. Is expressed in several structures, including reproductive system. Orthologous to human TDRD1 (tudor domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in testis adult (RPKM 23.7) and limb E14.5 (RPKM 0.9) See more
Orthologs
human all
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Genomic context

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See Tdrd1 in Genome Data Viewer
Location:
19 D2; 19 52.0 cM
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (56814603..56858444)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (56826171..56870012)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 32718 Neighboring gene rp1 MIF pseudogene Neighboring gene coiled-coil domain containing 186 Neighboring gene STARR-positive B cell enhancer ABC_E5712 Neighboring gene von Willebrand factor A domain containing 2 Neighboring gene STARR-seq mESC enhancer starr_46534 Neighboring gene actin filament associated protein 1-like 2 Neighboring gene STARR-seq mESC enhancer starr_46535 Neighboring gene predicted gene, 38597

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
  • 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 multiple Tudor domain-containing protein TDRD1 is a molecular scaffold for mouse Piwi proteins and piRNA biogenesis factors. Mathioudakis N, et al. RNA, 2012 Nov. PMID 22996915, Free PMC Article
  2. Tdrd1/Mtr-1, a tudor-related gene, is essential for male germ-cell differentiation and nuage/germinal granule formation in mice. Chuma S, et al. Proc Natl Acad Sci U S A, 2006 Oct 24. PMID 17038506, Free PMC Article
  3. Associations between PIWI proteins and TDRD1/MTR-1 are critical for integrated subcellular localization in murine male germ cells. Kojima K, et al. Genes Cells, 2009 Oct. PMID 19735482
  4. Mouse Tudor Repeat-1 (MTR-1) is a novel component of chromatoid bodies/nuages in male germ cells and forms a complex with snRNPs. Chuma S, et al. Mech Dev, 2003 Sep. PMID 14550528
  5. Loss of the Mili-interacting Tudor domain-containing protein-1 activates transposons and alters the Mili-associated small RNA profile. Reuter M, et al. Nat Struct Mol Biol, 2009 Jun. PMID 19465913

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. TDRD1 can accommodate different peptides from different proteins, and can therefore act as a scaffold protein for complex assembly in the piRNA pathway.
    Title: The multiple Tudor domain-containing protein TDRD1 is a molecular scaffold for mouse Piwi proteins and piRNA biogenesis factors.
  2. Data suggest that the formation of complexes between MILI, MIWI and TDRD1/MTR-1 is critical for the integrated subcellular localizations of these proteins, and is presumably essential for spermatogenesis.
    Title: Associations between PIWI proteins and TDRD1/MTR-1 are critical for integrated subcellular localization in murine male germ cells.
  3. Tdrd1 ensures the entry of correct transcripts into the normal piRNA pool.
    Title: Loss of the Mili-interacting Tudor domain-containing protein-1 activates transposons and alters the Mili-associated small RNA profile.
  4. Results suggest that Mili interacts with Tdrd1 in the nuage and chromatoid body, and that this interaction does not contribute to piRNA biogenesis but represents a regulatory mechanism that is critical for spermatogenesis.
    Title: Mili interacts with tudor domain-containing protein 1 in regulating spermatogenesis.
  5. targeted mutation in Tudor domain containing 1/mouse tudor repeat 1 (Tdrd1/Mtr-1), a tudor-related gene in mice, leads to male sterility because of postnatal spermatogenic defects
    Title: Tdrd1/Mtr-1, a tudor-related gene, is essential for male germ-cell differentiation and nuage/germinal granule formation in mice.
  6. isolated Mouse tudor repeat-1 (Mtr-1) which encodes a MYND domain and four copies of the tudor domain. Mtr-1 is expressed in germ-line cells and is most abundant in fetal prospermatogonia and postnatal primary spermatocytes.
    Title: Mouse Tudor Repeat-1 (MTR-1) is a novel component of chromatoid bodies/nuages in male germ cells and forms a complex with snRNPs.
  7. Tudor-related proteins, which contain multiple repeats of the Tudor domain, constitute an evolutionarily conserved class of nuage components in the germ-line, and their localization or accumulation to nuage is likely conferred by a Tudor domain structure
    Title: Tudor-related proteins TDRD1/MTR-1, TDRD6 and TDRD7/TRAP: domain composition, intracellular localization, and function in male germ cells in mice.
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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables metal ion 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 P granule organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in germ cell development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in meiotic cell cycle IEA
Inferred from Electronic Annotation
more info
  
involved_in piRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in piRNA processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in spermatogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in spermatogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in transposable element silencing by piRNA-mediated DNA methylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in P granule IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in P granule IDA
Inferred from Direct Assay
more info
 PubMed 
located_in chromatoid body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in pi-body IDA
Inferred from Direct Assay
more info
 PubMed 
part_of ribonucleoprotein complex IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in synapse EXP
Inferred from Experiment
more info
 PubMed 
is_active_in synapse IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
tudor domain-containing protein 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_001002238.2 → NP_001002238.1  tudor domain-containing protein 1

    See identical proteins and their annotated locations for NP_001002238.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 3. All four variants encode the same protein.
    Source sequence(s)
    AC125150, AC158549
    Consensus CDS
    CCDS29922.1
    UniProtKB/Swiss-Prot
    A2VDG6, Q6F3G0, Q8CDN7, Q8K1G3, Q99MV1
    Related
    ENSMUSP00000107233.2, ENSMUST00000111606.8
    Conserved Domains (3) summary
    cd04508
    Location:760 → 805
    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 ...
    pfam00567
    Location:487 → 606
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  2. NM_001002240.2 → NP_001002240.1  tudor domain-containing protein 1

    See identical proteins and their annotated locations for NP_001002240.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 3. All four variants encode the same protein.
    Source sequence(s)
    AC125150, AC158549
    Consensus CDS
    CCDS29922.1
    UniProtKB/Swiss-Prot
    A2VDG6, Q6F3G0, Q8CDN7, Q8K1G3, Q99MV1
    Related
    ENSMUSP00000077785.5, ENSMUST00000078723.11
    Conserved Domains (3) summary
    cd04508
    Location:760 → 805
    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 ...
    pfam00567
    Location:487 → 606
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  3. NM_001002241.2 → NP_001002241.1  tudor domain-containing protein 1

    See identical proteins and their annotated locations for NP_001002241.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript. All four variants encode the same protein.
    Source sequence(s)
    AC125150, AC158549
    Consensus CDS
    CCDS29922.1
    UniProtKB/Swiss-Prot
    A2VDG6, Q6F3G0, Q8CDN7, Q8K1G3, Q99MV1
    Related
    ENSMUSP00000107231.2, ENSMUST00000111604.2
    Conserved Domains (3) summary
    cd04508
    Location:760 → 805
    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 ...
    pfam00567
    Location:487 → 606
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  4. NM_031387.3 → NP_113564.2  tudor domain-containing protein 1

    See identical proteins and their annotated locations for NP_113564.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 3. All four variants encode the same protein.
    Source sequence(s)
    AC125150, AK029806
    Consensus CDS
    CCDS29922.1
    UniProtKB/Swiss-Prot
    A2VDG6, Q6F3G0, Q8CDN7, Q8K1G3, Q99MV1
    Related
    ENSMUSP00000112786.2, ENSMUST00000121249.8
    Conserved Domains (3) summary
    cd04508
    Location:760 → 805
    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 ...
    pfam00567
    Location:487 → 606
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

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_000085.7 Reference GRCm39 C57BL/6J

    Range
    56814603..56858444
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006527473.1 → XP_006527536.1  tudor domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006527536.1

    Conserved Domains (2) summary
    pfam00567
    Location:718 → 825
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  2. XM_006527478.1 → XP_006527541.1  tudor domain-containing protein 1 isoform X2

    Conserved Domains (2) summary
    pfam00567
    Location:718 → 825
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  3. XM_006527475.4 → XP_006527538.1  tudor domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006527538.1

    Conserved Domains (2) summary
    pfam00567
    Location:718 → 825
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  4. XM_006527474.1 → XP_006527537.1  tudor domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006527537.1

    Conserved Domains (2) summary
    pfam00567
    Location:718 → 825
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  5. XM_006527476.2 → XP_006527539.1  tudor domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006527539.1

    Conserved Domains (2) summary
    pfam00567
    Location:718 → 825
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  6. XM_006527477.4 → XP_006527540.1  tudor domain-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_006527540.1

    Conserved Domains (2) summary
    pfam00567
    Location:718 → 825
    TUDOR; Tudor domain
    pfam01753
    Location:163 → 199
    zf-MYND; MYND finger

  7. XM_006527479.3 → XP_006527542.1  tudor domain-containing protein 1 isoform X3

    Conserved Domains (2) summary
    pfam00567
    Location:613 → 720
    TUDOR; Tudor domain
    pfam01753
    Location:58 → 94
    zf-MYND; MYND finger
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q99MV1.2 GenPept UniProtKB/Swiss-Prot:Q99MV1

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