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

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

    Summary

    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 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, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 24.1), limb E14.5 (RPKM 17.8) and 28 other tissues See more
    Orthologs
    NEW
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    Genomic context

    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

    Expression

    • 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

    Variation

    Alleles

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    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
     
    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
     
    acts_upstream_of_or_within multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of type I interferon-mediated signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within regulation of translation IEA
    Inferred from Electronic Annotation
    more info
     
    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 cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    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 cytoskeleton 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
     
    part_of ribonucleoprotein complex IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    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_001360654.1NP_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:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290398
      FDF; FDF domain
    2. NM_001360655.1NP_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:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290397
      FDF; FDF domain
    3. NM_001360656.1NP_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:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:231339
      FDF; FDF domain
    4. NM_025948.3NP_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:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290398
      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_030242918.2XP_030098778.1  protein LSM14 homolog A isoform X1

      Conserved Domains (2) summary
      cd01736
      Location:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:290397
      FDF; FDF domain
    2. XM_017312254.3XP_017167743.1  protein LSM14 homolog A isoform X3

      Conserved Domains (2) summary
      cd01736
      Location:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:231339
      FDF; FDF domain
    3. XM_036153375.1XP_036009268.1  protein LSM14 homolog A isoform X4

      Conserved Domains (2) summary
      cd01736
      Location:477
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:231338
      FDF; FDF domain
    4. XM_011250679.4XP_011248981.1  protein LSM14 homolog A isoform X2

      Conserved Domains (2) summary
      pfam09532
      Location:254362
      FDF; FDF domain
      cl00259
      Location:441
      Sm_like; Sm and related proteins
    5. XM_011250681.4XP_011248983.1  protein LSM14 homolog A isoform X5

      Conserved Domains (2) summary
      pfam09532
      Location:195303
      FDF; FDF domain
      cl00259
      Location:441
      Sm_like; Sm and related proteins