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    Lsm14a LSM14A mRNA processing body assembly factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361554, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Lsm14aprovided by RGD
    Official Full Name
    LSM14A mRNA processing body assembly factorprovided by RGD
    Primary source
    RGD:1305695
    See related
    EnsemblRapid:ENSRNOG00000021133 AllianceGenome:RGD:1305695
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1305695
    Summary
    Predicted to enable nucleic acid binding activity. Predicted to be involved in negative regulation of translation and non-membrane-bounded organelle assembly. Predicted to act upstream of or within RIG-I signaling pathway; defense response to virus; and positive regulation of type I interferon-mediated signaling pathway. Predicted to be located in cytoplasmic stress granule; cytosol; and mitotic spindle. Predicted to be active in P-body. Orthologous to human LSM14A (LSM14A mRNA processing body assembly factor). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 208.8), Muscle (RPKM 195.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lsm14a in Genome Data Viewer
    Location:
    1q21
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (96101990..96146578, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (86964800..87009325, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (90200866..90246292, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene granule associated Rac and RHOG effector 1 Neighboring gene ribosomal protein S23, pseudogene 12 Neighboring gene uncharacterized LOC120099790 Neighboring gene uncharacterized LOC120099791 Neighboring gene transfer RNA serine (anticodon AGA) 33 Neighboring gene small ribosomal subunit protein uS5-like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. RNA-associated protein 55 (RAP55) localizes to mRNA processing bodies and stress granules. Yang WH, et al. RNA, 2006 Apr. PMID 16484376, Free PMC Article
    2. RAP55, a cytoplasmic mRNP component, represses translation in Xenopus oocytes. Tanaka KJ, et al. J Biol Chem, 2006 Dec 29. PMID 17074753
    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. Mouse ZAR1-like (XM_359149) colocalizes with mRNA processing components and its dominant-negative mutant caused two-cell-stage embryonic arrest. Hu J, et al. Dev Dyn, 2010 Feb. PMID 20014101
    5. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables double-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables single-stranded RNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic spindle assembly ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 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
    		  

    General protein information

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    Preferred Names
    protein LSM14 homolog A
    Names
    LSM14 homolog A
    LSM14A, SCD6 homolog A

    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_001127552.1 → NP_001121024.1  protein LSM14 homolog A

      See identical proteins and their annotated locations for NP_001121024.1

      Status: PROVISIONAL

      Source sequence(s)
      BC166537
      UniProtKB/TrEMBL
      A0A0G2JUK2, B2GV58
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086019.1 Reference GRCr8

      Range
      96101990..96146578 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006228856.4 → XP_006228918.1  protein LSM14 homolog A isoform X2

      UniProtKB/TrEMBL
      A0A0G2JUK2
      Related
      ENSRNOP00000030800.5, ENSRNOT00000030186.9
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    2. XM_039082056.2 → XP_038937984.1  protein LSM14 homolog A isoform X7

      UniProtKB/TrEMBL
      A0A0G2JUK2
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:232 → 340
      FDF; FDF domain

    3. XM_039082050.2 → XP_038937978.1  protein LSM14 homolog A isoform X5

      UniProtKB/TrEMBL
      A0A0G2JUK2
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 398
      FDF; FDF domain

    4. XM_017589354.3 → XP_017444843.1  protein LSM14 homolog A isoform X8

      UniProtKB/TrEMBL
      A0A0G2JUK2
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:232 → 340
      FDF; FDF domain

    5. XM_039082047.2 → XP_038937975.1  protein LSM14 homolog A isoform X4

      UniProtKB/TrEMBL
      A0A0G2JUK2
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 398
      FDF; FDF domain

    6. XM_006228857.4 → XP_006228919.1  protein LSM14 homolog A isoform X3

      UniProtKB/TrEMBL
      A0A096MJY7, A0A0G2JUK2
      Related
      ENSRNOP00000068311.2, ENSRNOT00000076255.3
      Conserved Domains (2) summary
      cd01736
      Location:4 → 77
      LSm14_N; Like-Sm protein 14, N-terminal domain
      pfam09532
      Location:291 → 399
      FDF; FDF domain

    7. XM_063266532.1 → XP_063122602.1  protein LSM14 homolog A isoform X6

    8. XM_063266518.1 → XP_063122588.1  protein LSM14 homolog A isoform X1

      Related
      ENSRNOP00000069131.3, ENSRNOT00000078585.3
    Nucleotide Protein Strain
    Heading Accession and Version

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