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    Lsm14a LSM14A mRNA processing body assembly factor [ Mus musculus (house mouse) ]

    Gene ID: 67070, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Lsm14aprovided by MGI
    Official Full Name
    LSM14A mRNA processing body assembly factorprovided by MGI
    Primary source
    MGI:MGI:1914320
    See related
    Ensembl:ENSMUSG00000066568 AllianceGenome:MGI:1914320
    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
    Tral; mRAP55A; 2700023B17Rik
    Summary
    Enables double-stranded DNA binding activity; double-stranded RNA binding activity; and single-stranded RNA binding activity. Acts upstream of or within RIG-I signaling pathway; defense response to virus; and positive regulation of type I interferon-mediated signaling pathway. Located in P-body. Is expressed in several structures, including gonad. Orthologous to human LSM14A (LSM14A mRNA processing body assembly factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 24.1), limb E14.5 (RPKM 17.8) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Lsm14a in Genome Data Viewer
    Location:
    7 B1; 7 19.56 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (34043569..34089134, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (34344144..34390026, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_18586 Neighboring gene predicted gene 12762 Neighboring gene predicted gene 12758 Neighboring gene granule associated Rac and RHOG effector 1 Neighboring gene VISTA enhancer mm1379 Neighboring gene STARR-seq mESC enhancer starr_18591 Neighboring gene 39S ribosomal protein L27, mitochondrial pseudogene Neighboring gene predicted gene 12764 Neighboring gene predicted gene, 35297 Neighboring gene predicted gene 12784

    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
    • 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 oocytes within germ cell cysts and primordial follicles contain a Balbiani body. Pepling ME, et al. Proc Natl Acad Sci U S A, 2007 Jan 2. PMID 17189423, Free PMC Article
    2. Friend of Prmt1, a novel chromatin target of protein arginine methyltransferases. van Dijk TB, et al. Mol Cell Biol, 2010 Jan. PMID 19858291, Free PMC Article
    3. LSm14A is a processing body-associated sensor of viral nucleic acids that initiates cellular antiviral response in the early phase of viral infection. Li Y, et al. Proc Natl Acad Sci U S A, 2012 Jul 17. PMID 22745163, Free PMC Article
    4. LSm14A Plays a Critical Role in Antiviral Immune Responses by Regulating MITA Level in a Cell-Specific Manner. Liu TT, et al. J Immunol, 2016 Jun 15. PMID 27183626
    5. Variegated gene expression caused by cell-specific long-range DNA interactions. Noordermeer D, et al. Nat Cell Biol, 2011 Jun 26. PMID 21706023, Free PMC Article

    See all (36) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. results suggest that LSm14A plays an important role in antiviral innate and adaptive immune responses by modulating MITA level in a cell type-specific manner
      Title: LSm14A Plays a Critical Role in Antiviral Immune Responses by Regulating MITA Level in a Cell-Specific Manner.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 
    • Targeted (2) 

    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 double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables double-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables single-stranded RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in P-body assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in P-body assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in P-body assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within RIG-I signaling pathway IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within defense response to virus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mitotic spindle assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic spindle assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of translation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within positive regulation of type I interferon-mediated signaling pathway IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in stress granule assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in P-body IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in P-body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in P-body ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasmic ribonucleoprotein granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasmic stress granule ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitotic spindle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitotic spindle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of ribonucleoprotein complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein LSM14 homolog A
    Names
    LSM14 homolog A
    RNA-associated protein 55A

    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_001360654.1 → NP_001347583.1  protein LSM14 homolog A isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 3' end compared to variant 1. The resulting isoform (2) is the same length but has a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      BX537302, BX539342
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290 → 398
      FDF; FDF domain

    2. NM_001360655.1 → NP_001347584.1  protein LSM14 homolog A isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (3) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.
      Source sequence(s)
      BX537302, BX539342
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290 → 397
      FDF; FDF domain

    3. NM_001360656.1 → NP_001347585.1  protein LSM14 homolog A isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (4) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      BX537302, BX539342
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:231 → 339
      FDF; FDF domain

    4. NM_025948.3 → NP_080224.1  protein LSM14 homolog A isoform 1

      See identical proteins and their annotated locations for NP_080224.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      BX537302, BX539342
      Consensus CDS
      CCDS21140.1
      UniProtKB/Swiss-Prot
      Q8K2F8, Q9CTG8
      Related
      ENSMUSP00000082723.6, ENSMUST00000085585.12
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290 → 398
      FDF; FDF 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_000073.7 Reference GRCm39 C57BL/6J

      Range
      34043569..34089134 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030242918.2 → XP_030098778.1  protein LSM14 homolog A isoform X1

      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290 → 397
      FDF; FDF domain

    2. XM_017312254.3 → XP_017167743.1  protein LSM14 homolog A isoform X3

      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:231 → 339
      FDF; FDF domain

    3. XM_036153375.1 → XP_036009268.1  protein LSM14 homolog A isoform X4

      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:231 → 338
      FDF; FDF domain

    4. XM_011250679.4 → XP_011248981.1  protein LSM14 homolog A isoform X2

      Conserved Domains (2) summary
      pfam09532
      Location:254 → 362
      FDF; FDF domain
      cl00259
      Location:4 → 41
      Sm_like; Sm and related proteins

    5. XM_011250681.4 → XP_011248983.1  protein LSM14 homolog A isoform X5

      Conserved Domains (2) summary
      pfam09532
      Location:195 → 303
      FDF; FDF domain
      cl00259
      Location:4 → 41
      Sm_like; Sm and related proteins
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K2F8.1 GenPept UniProtKB/Swiss-Prot:Q8K2F8

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