U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 72198, updated on 9-May-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
    See Mtrex in Genome Data Viewer
    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)
    • Endonuclease-mediated (3) 
    • Targeted (1) 

    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