U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Mtrex Mtr4 exosome RNA helicase [ Mus musculus (house mouse) ]

Gene ID: 72198, updated on 5-Mar-2024

Summary

Go to the top of the page Help
Official Symbol
Mtrexprovided by MGI
Official Full Name
Mtr4 exosome RNA helicaseprovided by MGI
Primary source
MGI:MGI:1919448
See related
Ensembl:ENSMUSG00000016018 AllianceGenome:MGI:1919448
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Skiv2l2; mKIAA0052; 2610528A15Rik
Summary
Predicted to enable ATP binding activity and RNA helicase activity. Predicted to be involved in RNA catabolic process; cellular response to DNA damage stimulus; and maturation of 5.8S rRNA. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleoplasm. Predicted to be part of TRAMP complex; catalytic step 2 spliceosome; and nuclear exosome (RNase complex). Predicted to be active in nucleus. Orthologous to human MTREX (Mtr4 exosome RNA helicase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 25.7), CNS E14 (RPKM 16.5) and 24 other tissues See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
13 D2.2; 13 63.93 cM
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (113004306..113063914, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (112867780..112927380, complement)

Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 38, member 9 Neighboring gene heterogeneous nuclear ribonucleoprotein R pseudogene Neighboring gene STARR-seq mESC enhancer starr_35698 Neighboring gene STARR-seq mESC enhancer starr_35701 Neighboring gene predicted gene, 41067 Neighboring gene STARR-seq mESC enhancer starr_35702 Neighboring gene phospholipid phosphatase 1 Neighboring gene STARR-positive B cell enhancer ABC_E7290 Neighboring gene STARR-positive B cell enhancer ABC_E1469 Neighboring gene DExH-box helicase 29 Neighboring gene 40S ribosomal protein S13-like Neighboring gene cyclin O

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Loss of the RNA helicase SKIV2L2 impairs mitotic progression and replication-dependent histone mRNA turnover in murine cell lines. Onderak AM, et al. RNA, 2017 Jun. PMID 28351885, Free PMC Article
  2. Certain adenylated non-coding RNAs, including 5' leader sequences of primary microRNA transcripts, accumulate in mouse cells following depletion of the RNA helicase MTR4. Dorweiler JE, et al. PLoS One, 2014. PMID 24926684, Free PMC Article
  3. Localization of a novel RNA-binding protein, SKIV2L2, to the nucleus in the round spermatids of mice. Osman BA, et al. J Reprod Dev, 2011 Sep. PMID 21467735
  4. Nuclear Proximity of Mtr4 to RNA Exosome Restricts DNA Mutational Asymmetry. Lim J, et al. Cell, 2017 Apr 20. PMID 28431250, Free PMC Article
  5. Identification of a role for TRIM29 in the control of innate immunity in the respiratory tract. Xing J, et al. Nat Immunol, 2016 Dec. PMID 27695001, Free PMC Article

See all (33) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Skiv2l2 knockdown cells accumulated replication-dependent histone mRNAs, among other RNAs, that could impede mitotic progression and indirectly trigger differentiation.
    Title: Loss of the RNA helicase SKIV2L2 impairs mitotic progression and replication-dependent histone mRNA turnover in murine cell lines.
  2. Study reports that the noncoding RNA processing activity of RNA exosome, a 3'-5' RNA exonuclease, controls sense and antisense strand DNA mutagenesis, and prevents an increased asymmetric mutagenesis burden using a mechanism that relies on the unexpected DNA/RNA hybrid unwinding activities of the Mtr4 and senataxin RNA helicases.
    Title: Nuclear Proximity of Mtr4 to RNA Exosome Restricts DNA Mutational Asymmetry.
  3. Results identify novel role for Mtr4 in targeting the 5' leader sequences of microRNAs for degradation.
    Title: Certain adenylated non-coding RNAs, including 5' leader sequences of primary microRNA transcripts, accumulate in mouse cells following depletion of the RNA helicase MTR4.
  4. SKIV2L2 is an RNA-binding protein localized to the nucleus in the round spermatids of mice
    Title: Localization of a novel RNA-binding protein, SKIV2L2, to the nucleus in the round spermatids of mice.
Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

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

Pathways from PubChem

Go to the top of the page

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding ISO
Inferred from Sequence Orthology
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA helicase activity ISO
Inferred from Sequence Orthology
more info
  
enables helicase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in RNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in RNA catabolic process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in maturation of 5.8S rRNA IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in maturation of 5.8S rRNA ISO
Inferred from Sequence Orthology
more info
  
involved_in rRNA processing ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of TRAMP complex ISO
Inferred from Sequence Orthology
more info
  
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
  
part_of exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
  
part_of nuclear exosome (RNase complex) ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
exosome RNA helicase MTR4
Names
ATP-dependent helicase SKIV2L2
TRAMP-like complex helicase
superkiller viralicidic activity 2-like 2
NP_082427.1
XP_036014071.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

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_028151.2 → NP_082427.1  exosome RNA helicase MTR4

    See identical proteins and their annotated locations for NP_082427.1

    Status: PROVISIONAL

    Source sequence(s)
    AC165265
    Consensus CDS
    CCDS26778.1
    UniProtKB/Swiss-Prot
    Q9CZU3
    UniProtKB/TrEMBL
    Q8BTX6
    Related
    ENSMUSP00000022281.4, ENSMUST00000022281.5
    Conserved Domains (5) summary
    COG4581
    Location:92 → 1040
    Dob10; Superfamily II RNA helicase [Replication, recombination and repair]
    cd00079
    Location:372 → 536
    HELICc; Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may ...
    pfam00270
    Location:142 → 285
    DEAD; DEAD/DEAH box helicase
    pfam08148
    Location:866 → 1033
    DSHCT; DSHCT (NUC185) domain
    pfam13234
    Location:582 → 838
    rRNA_proc-arch; rRNA-processing arch 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_000079.7 Reference GRCm39 C57BL/6J

    Range
    113004306..113063914 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036158178.1 → XP_036014071.1  exosome RNA helicase MTR4 isoform X1

    UniProtKB/TrEMBL
    Q91YT4
    Conserved Domains (1) summary
    COG4581
    Location:16 → 696
    Dob10; Superfamily II RNA helicase [Replication, recombination and repair]
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9CZU3.1 GenPept UniProtKB/Swiss-Prot:Q9CZU3

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous