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Tdrd5 tudor domain containing 5 [ Mus musculus (house mouse) ]

Gene ID: 214575, updated on 5-Mar-2024

Summary

Official Symbol
Tdrd5provided by MGI
Official Full Name
tudor domain containing 5provided by MGI
Primary source
MGI:MGI:2684949
See related
Ensembl:ENSMUSG00000060985 AllianceGenome:MGI:2684949
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
Gm103
Summary
Involved in DNA methylation involved in gamete generation; P granule organization; and spermatid development. Located in chromatoid body and pi-body. Is expressed in genitourinary system. Orthologous to human TDRD5 (tudor domain containing 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 8.7), thymus adult (RPKM 3.7) and 3 other tissues See more
Orthologs
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Genomic context

See Tdrd5 in Genome Data Viewer
Location:
1 G3; 1 67.71 cM
Exon count:
21
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (156082866..156131874, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (156255296..156304304, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_02733 Neighboring gene family with sequence similarity 163, member A Neighboring gene predicted gene, 30472 Neighboring gene STARR-seq mESC enhancer starr_02734 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:158194711-158194894 Neighboring gene STARR-seq mESC enhancer starr_02735 Neighboring gene nephrosis 2, podocin Neighboring gene axonemal dynein light chain domain containing 1 Neighboring gene ribosomal protein L35, retrotransposed

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (3)  1 citation
  • Endonuclease-mediated (1) 

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in P granule organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in P granule organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in germ cell development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in piRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in siRNA-mediated retrotransposon silencing by heterochromatin formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in spermatid development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in spermatogenesis IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within spermatogenesis IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in P granule IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in chromatoid body IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in pi-body 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

Preferred Names
tudor domain-containing protein 5
Names
tudor domain containing protein 5

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_001134741.1NP_001128213.1  tudor domain-containing protein 5 isoform 1

    See identical proteins and their annotated locations for NP_001128213.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AK132674, BC099972, DV655037, DV659775
    Consensus CDS
    CCDS56647.1
    UniProtKB/Swiss-Prot
    A7YQ76, D3YXM4, Q5VCS6
    Related
    ENSMUSP00000137298.2, ENSMUST00000121146.10
    Conserved Domains (5) summary
    cd04508
    Location:537583
    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 ...
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:483602
    TUDOR; Tudor domain
  2. NM_001277730.1NP_001264659.1  tudor domain-containing protein 5 isoform 2

    See identical proteins and their annotated locations for NP_001264659.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, and uses two alternate splice sites that result in the loss of an in-frame segment in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AK132674, BC099972, DV659775
    UniProtKB/Swiss-Prot
    Q5VCS6
    Conserved Domains (3) summary
    cd09976
    Location:197270
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:388507
    TUDOR; Tudor domain

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_000067.7 Reference GRCm39 C57BL/6J

    Range
    156082866..156131874 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006496733.3XP_006496796.1  tudor domain-containing protein 5 isoform X8

    See identical proteins and their annotated locations for XP_006496796.1

    UniProtKB/Swiss-Prot
    Q5VCS6
    Conserved Domains (3) summary
    cd09976
    Location:197270
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:388507
    TUDOR; Tudor domain
  2. XM_006496731.3XP_006496794.1  tudor domain-containing protein 5 isoform X6

    UniProtKB/TrEMBL
    J3QPB7
    Related
    ENSMUSP00000137182.2, ENSMUST00000167528.9
    Conserved Domains (3) summary
    cd09976
    Location:215288
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:406525
    TUDOR; Tudor domain
  3. XM_006496728.3XP_006496791.1  tudor domain-containing protein 5 isoform X3

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:274347
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:465584
    TUDOR; Tudor domain
  4. XM_006496726.4XP_006496789.1  tudor domain-containing protein 5 isoform X1

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:482601
    TUDOR; Tudor domain
  5. XM_006496727.4XP_006496790.1  tudor domain-containing protein 5 isoform X2

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:483602
    TUDOR; Tudor domain
  6. XM_006496729.4XP_006496792.1  tudor domain-containing protein 5 isoform X4

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:483602
    TUDOR; Tudor domain
  7. XM_006496734.1XP_006496797.1  tudor domain-containing protein 5 isoform X9

    Conserved Domains (3) summary
    cd09975
    Location:2493
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:189262
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:380499
    TUDOR; Tudor domain
  8. XM_006496730.3XP_006496793.1  tudor domain-containing protein 5 isoform X5

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:483602
    TUDOR; Tudor domain
  9. XM_006496732.3XP_006496795.1  tudor domain-containing protein 5 isoform X7

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:483602
    TUDOR; Tudor domain
  10. XM_030252864.1XP_030108724.1  tudor domain-containing protein 5 isoform X11

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd20419
    Location:484601
    Tudor_TDRD5; Tudor domain found in Tudor domain-containing protein 5 (TDRD5) and similar proteins
  11. XM_011238780.3XP_011237082.1  tudor domain-containing protein 5 isoform X10

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    pfam00567
    Location:483602
    TUDOR; Tudor domain
  12. XM_036163492.1XP_036019385.1  tudor domain-containing protein 5 isoform X11

    Conserved Domains (4) summary
    cd09975
    Location:127196
    LOTUS_2_TDRD5; The second LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09976
    Location:292365
    LOTUS_3_TDRD5; The third LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd09985
    Location:498
    LOTUS_1_TDRD5; The first LOTUS domain on Tudor-containing protein 5 (TDRD5)
    cd20419
    Location:484601
    Tudor_TDRD5; Tudor domain found in Tudor domain-containing protein 5 (TDRD5) and similar proteins

RNA

  1. XR_004941506.1 RNA Sequence