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

Summary

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: Enables ATP hydrolysis activity. Involved in several processes, including male meiosis I; regulatory ncRNA-mediated gene silencing; and spermatogenesis. Acts upstream of or within retrotransposon silencing. Located in nucleus and piP-body. Is expressed in germ cell of testis and primary oocyte. 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: Restricted expression toward testis adult (RPKM 20.7) See more
Orthologs: human all
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Genomic context

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_000078.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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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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 ATP-dependent H2AZ histone chaperone activity	IEA Inferred from Electronic Annotation more info
enables ATP-dependent H3-H4 histone complex chaperone activity	IEA Inferred from Electronic Annotation more info
enables DNA clamp loader activity	IEA Inferred from Electronic Annotation more info
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA helicase activity	IEA Inferred from Electronic Annotation more info
enables chromatin extrusion motor activity	IEA Inferred from Electronic Annotation more info
enables cohesin loader 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 chromatin looping	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 spermatogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in spermatogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within transposable element silencing	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
involved_in transposable element silencing by piRNA-mediated heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed

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

EC 3.6.4.13

XP_006516379.1

EC 3.6.4.13

XP_006516380.1

EC 3.6.4.13

XP_006516382.1

EC 3.6.4.13

XP_006516383.1

EC 3.6.4.13

XP_006516384.1

EC 3.6.4.13

XP_006516385.1

EC 3.6.4.13

XP_017170707.1

EC 3.6.4.13

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)

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

NC_000078.7 Reference GRCm39 C57BL/6J

Range

111937922..112035288

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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]
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
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
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
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
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
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