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    Nrde2 nrde-2 necessary for RNA interference, domain containing [ Mus musculus (house mouse) ]

    Gene ID: 217827, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Nrde2provided by MGI
    Official Full Name
    nrde-2 necessary for RNA interference, domain containingprovided by MGI
    Primary source
    MGI:MGI:2670969
    See related
    Ensembl:ENSMUSG00000021179 AllianceGenome:MGI:2670969
    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
    6720454P05Rik
    Summary
    Predicted to be involved in several processes, including RNA splicing; positive regulation of RNA export from nucleus; and regulation of gene expression. Predicted to be located in nuclear speck and nucleolus. Orthologous to human NRDE2 (NRDE-2, necessary for RNA interference, domain containing). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thymus adult (RPKM 4.9), CNS E11.5 (RPKM 3.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Nrde2 in Genome Data Viewer
    Location:
    12; 12 E
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (100091709..100126981, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (100125450..100160414, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene malate dehydrogenase 1, NAD (soluble) pseudogene Neighboring gene STARR-positive B cell enhancer mm9_chr12:101348195-101348496 Neighboring gene protease (prosome, macropain) 26S subunit, ATPase 1 Neighboring gene STARR-positive B cell enhancer ABC_E11523 Neighboring gene STARR-positive B cell enhancer ABC_E5350 Neighboring gene STARR-seq mESC enhancer starr_33033 Neighboring gene predicted gene, 36263 Neighboring gene STARR-positive B cell enhancer ABC_E10772 Neighboring gene CapStarr-seq enhancer MGSCv37_chr12:101425780-101425963 Neighboring gene predicted gene 10433

    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 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. Mouse nuclear RNAi-defective 2 promotes splicing of weak 5' splice sites. Flemr M, et al. RNA, 2023 Aug. PMID 37137667, Free PMC Article
    2. Transcriptome analysis of mouse stem cells and early embryos. Sharov AA, et al. PLoS Biol, 2003 Dec. PMID 14691545, Free PMC Article
    3. Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Piao Y, et al. Genome Res, 2001 Sep. PMID 11544199, Free PMC Article
    4. ATG5 is required for B cell polarization and presentation of particulate antigens. Arbogast F, et al. Autophagy, 2019 Feb. PMID 30196744, Free PMC Article
    5. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Mouse nuclear RNAi-defective 2 promotes splicing of weak 5' splice sites.
      Title: Mouse nuclear RNAi-defective 2 promotes splicing of weak 5' splice sites.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (4) 
    • Targeted (1) 

    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 molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA damage response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in RNA splicing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in RNA splicing ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mRNA stabilization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic cell cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of RNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of RNA export from nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of RNA export from nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulatory ncRNA-mediated heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear speck ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    nuclear exosome regulator NRDE2
    Names
    UPF0614 protein C14orf102 homolog
    protein NRDE2 homolog

    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_001290303.1 → NP_001277232.1  nuclear exosome regulator NRDE2 isoform a

      See identical proteins and their annotated locations for NP_001277232.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a). The exon combination of this variant is inferred based on tiled partial transcript alignments.
      Source sequence(s)
      AC166349, AW989733, BG067060, BM933283, CD546085, CK619854, CN706272, CN710548, DN174402
      Consensus CDS
      CCDS70414.1
      UniProtKB/Swiss-Prot
      E9QKV8, Q80XC6, Q8R3D7, Q99LT9
      Related
      ENSMUSP00000021596.8, ENSMUST00000021596.9
      Conserved Domains (1) summary
      pfam08424
      Location:322 → 654
      NRDE-2; necessary for RNA interference

    2. NM_001377383.1 → NP_001364312.1  nuclear exosome regulator NRDE2 isoform c

      Status: VALIDATED

      Source sequence(s)
      AC166349
      Conserved Domains (2) summary
      pfam08424
      Location:269 → 601
      NRDE-2; necessary for RNA interference
      cd22200
      Location:142 → 213
      NRDE2_MID; MTR4-interacting domain (MID) found in nuclear exosome regulator NRDE2 and similar proteins

    3. NM_183155.3 → NP_898978.2  nuclear exosome regulator NRDE2 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a. The exon combination of this variant is inferred based on tiled partial transcript alignments.
      Source sequence(s)
      AC166349, AW989733, BG067060, BM933283, BU055364, CD546085, CK619854, CN706272, CN710548, DN174402
      Conserved Domains (1) summary
      pfam08424
      Location:317 → 649
      NRDE-2; necessary for RNA interference

    RNA

    1. NR_165260.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC166349

    2. NR_165261.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC166349

    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_000078.7 Reference GRCm39 C57BL/6J

      Range
      100091709..100126981 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011244093.4 → XP_011242395.1  nuclear exosome regulator NRDE2 isoform X1

      Conserved Domains (1) summary
      pfam08424
      Location:83 → 415
      NRDE-2; necessary for RNA interference

    RNA

    1. XR_381516.5 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q80XC6.3 GenPept UniProtKB/Swiss-Prot:Q80XC6

    Gene LinkOut

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

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