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    Larp4 La ribonucleoprotein 4 [ Mus musculus (house mouse) ]

    Gene ID: 207214, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Larp4provided by MGI
    Official Full Name
    La ribonucleoprotein 4provided by MGI
    Primary source
    MGI:MGI:2443114
    See related
    Ensembl:ENSMUSG00000023025 AllianceGenome:MGI:2443114
    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
    DXErtd793; DXErtd793e
    Summary
    Predicted to enable mRNA 3'-UTR binding activity and poly(A) binding activity. Predicted to be involved in cytoskeleton organization; positive regulation of translation; and regulation of cell morphogenesis. Predicted to be part of cytosolic small ribosomal subunit. Predicted to be active in cytoplasmic stress granule and cytosol. Orthologous to human LARP4 (La ribonucleoprotein 4). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 11.6), CNS E11.5 (RPKM 5.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Larp4 in Genome Data Viewer
    Location:
    15 F1; 15 56.13 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (99867946..99914239)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (99970065..100016358)

    Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 1700121M21 gene Neighboring gene ribosomal protein S10 pseudogene Neighboring gene family with sequence similarity 186, member A Neighboring gene predicted gene, 21917 Neighboring gene RIKEN cDNA 2310068J16 gene Neighboring gene STARR-positive B cell enhancer ABC_E3157 Neighboring gene STARR-seq mESC enhancer starr_39735 Neighboring gene STARR-positive B cell enhancer mm9_chr15:99890852-99891153 Neighboring gene disco interacting protein 2 homolog B Neighboring gene STARR-seq mESC enhancer starr_39737 Neighboring gene STARR-seq mESC enhancer starr_39738 Neighboring gene STARR-seq mESC enhancer starr_39739 Neighboring gene STARR-seq mESC enhancer starr_39742 Neighboring gene activating transcription factor 1

    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. LARP4 mRNA codon-tRNA match contributes to LARP4 activity for ribosomal protein mRNA poly(A) tail length protection. Mattijssen S, et al. Elife, 2017 Sep 12. PMID 28895529, Free PMC Article
    2. Transcriptome-wide stability analysis uncovers LARP4-mediated NFκB1 mRNA stabilization during T cell activation. Tian Y, et al. Nucleic Acids Res, 2020 Sep 4. PMID 32735645, Free PMC Article
    3. LARP4 Is Regulated by Tumor Necrosis Factor Alpha in a Tristetraprolin-Dependent Manner. Mattijssen S, et al. Mol Cell Biol, 2016 Feb 15. PMID 26644407, Free PMC Article
    4. TRIM8 interacts with KIF11 and KIFC1 and controls bipolar spindle formation and chromosomal stability. Venuto S, et al. Cancer Lett, 2020 Mar 31. PMID 31904480
    5. Integrative genomics positions MKRN1 as a novel ribonucleoprotein within the embryonic stem cell gene regulatory network. Cassar PA, et al. EMBO Rep, 2015 Oct. PMID 26265008, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Transcriptome-wide stability analysis uncovers LARP4-mediated NFkappaB1 mRNA stabilization during T cell activation.
      Title: Transcriptome-wide stability analysis uncovers LARP4-mediated NFκB1 mRNA stabilization during T cell activation.
    2. Mouse LARP4 is regulated by TNF-alpha in a TTP-dependent manner.
      Title: LARP4 Is Regulated by Tumor Necrosis Factor Alpha in a Tristetraprolin-Dependent Manner.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (2)  1 citation

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • C530046N12, D330037H05Rik

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA 3'-UTR binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables poly(A) binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cytoskeleton organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cytoskeleton organization ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in post-transcriptional regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of cell morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasmic stress granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic stress granule IEA
    Inferred from Electronic Annotation
    more info
    		  
    colocalizes_with cytoplasmic stress granule ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of cytosolic small ribosomal subunit ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    la-related protein 4
    Names
    La ribonucleoprotein domain family, member 4

    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_001024526.2 → NP_001019697.2  la-related protein 4 isoform 1

      See identical proteins and their annotated locations for NP_001019697.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform (1).
      Source sequence(s)
      AC133868, AK049756, AK139909, BP757308, CJ080411
      Consensus CDS
      CCDS37208.1
      UniProtKB/Swiss-Prot
      Q3UR69, Q8BWW4
      UniProtKB/TrEMBL
      G3X9Q6
      Related
      ENSMUSP00000097780.3, ENSMUST00000100206.4
      Conserved Domains (2) summary
      cd08035
      Location:116 → 190
      LARP_4; La RNA-binding domain of La-related protein 4
      cd12707
      Location:195 → 271
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)

    2. NM_001080948.2 → NP_001074417.1  la-related protein 4 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate 5'-terminal exon, initiates translation at an alternate start codon, and uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) has a shorter and distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AI853685, AK052358, AK139636, AK139909, AK141743, BE951991, CJ083603
      Consensus CDS
      CCDS49730.1
      UniProtKB/Swiss-Prot
      Q3UR69, Q8BWW4
      UniProtKB/TrEMBL
      E9Q066
      Related
      ENSMUSP00000086964.6, ENSMUST00000057632.16
      Conserved Domains (2) summary
      cd08035
      Location:115 → 189
      LARP_4; La RNA-binding domain of La-related protein 4
      cd12707
      Location:194 → 270
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)

    3. NM_001284521.1 → NP_001271450.1  la-related protein 4 isoform 3

      See identical proteins and their annotated locations for NP_001271450.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in its 5' UTR and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AI853685, AK052358, AK139636, AK139909, AK141743, BE951991, CJ080411
      Consensus CDS
      CCDS88842.1
      UniProtKB/TrEMBL
      A0A2R8VKL5, Q3UT02
      Related
      ENSMUSP00000155661.2, ENSMUST00000231160.2
      Conserved Domains (3) summary
      cd08035
      Location:57 → 131
      LARP_4; La RNA-binding domain of La-related protein 4
      PHA03247
      Location:260 → 657
      PHA03247; large tegument protein UL36; Provisional
      cd12707
      Location:136 → 212
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)

    4. NM_001284522.1 → NP_001271451.1  la-related protein 4 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) contains an alternate 5'-terminal exon and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (4) has a shorter and distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AI853685, AK052358, AK139636, AK139909, AK141743, BE951991, CJ083603
      UniProtKB/Swiss-Prot
      Q3UR69, Q8BWW4
      Conserved Domains (2) summary
      cd08035
      Location:114 → 188
      LARP_4; La RNA-binding domain of La-related protein 4
      cd12707
      Location:193 → 269
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)

    5. NM_001284523.1 → NP_001271452.1  la-related protein 4 isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (5) is longer, compared to isoform 1.
      Source sequence(s)
      AI853685, AK052358, AK139636, AK139909, AK141743, BE951991, CJ080411
      UniProtKB/Swiss-Prot
      Q3UR69, Q8BWW4
      Related
      ENSMUSP00000155601.2, ENSMUST00000230956.2
      Conserved Domains (2) summary
      cd08035
      Location:117 → 191
      LARP_4; La RNA-binding domain of La-related protein 4
      cd12707
      Location:196 → 272
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)

    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_000081.7 Reference GRCm39 C57BL/6J

      Range
      99867946..99914239
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006520675.1 → XP_006520738.1  la-related protein 4 isoform X1

      See identical proteins and their annotated locations for XP_006520738.1

      UniProtKB/TrEMBL
      A0A2R8VKL5, Q3UT02
      Conserved Domains (3) summary
      cd08035
      Location:57 → 131
      LARP_4; La RNA-binding domain of La-related protein 4
      PHA03247
      Location:260 → 657
      PHA03247; large tegument protein UL36; Provisional
      cd12707
      Location:136 → 212
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)

    2. XM_017316524.1 → XP_017172013.1  la-related protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A2R8VKL5, Q3UT02
      Conserved Domains (3) summary
      cd08035
      Location:57 → 131
      LARP_4; La RNA-binding domain of La-related protein 4
      PHA03247
      Location:260 → 657
      PHA03247; large tegument protein UL36; Provisional
      cd12707
      Location:136 → 212
      RRM_LARP4; RNA recognition motif in vertebrate La-related protein 4 (LARP4)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BWW4.2 GenPept UniProtKB/Swiss-Prot:Q8BWW4

    Gene LinkOut

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

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