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    LARP4B La ribonucleoprotein 4B [ Homo sapiens (human) ]

    Gene ID: 23185, updated on 7-Apr-2024

    Summary

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    Official Symbol
    LARP4Bprovided by HGNC
    Official Full Name
    La ribonucleoprotein 4Bprovided by HGNC
    Primary source
    HGNC:HGNC:28987
    See related
    Ensembl:ENSG00000107929 MIM:616513; AllianceGenome:HGNC:28987
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LARP5; KIAA0217
    Summary
    This gene encodes a member of an evolutionarily conserved protein family implicated in RNA metabolism and translation. Members of this family are characterized by the presence of an La motif, which is often located adjacent to one or more RNA recognition motifs (RRM). Together, the two motifs constitute the functional region of the protein and enable its interaction with the RNA substrate. This protein family is divided into five sub-families: the genuine La proteins and four La-related protein (LARP) sub-families. The protein encoded by this gene belongs to LARP sub-family 4. It is a cytoplasmic protein that may play a stimulatory role in translation. [provided by RefSeq, Oct 2012]
    Expression
    Ubiquitous expression in thyroid (RPKM 6.7), testis (RPKM 6.0) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LARP4B in Genome Data Viewer
    Location:
    10p15.3
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (806914..988341, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (804686..932709, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (852854..977645, complement)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene disco interacting protein 2 homolog C Neighboring gene uncharacterized LOC124902361 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:696476-697298 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:709923-710450 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:717375-717875 Neighboring gene DIP2C antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:735983-736918 Neighboring gene microRNA 5699 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:745902-746402 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:746403-746903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:771745-772245 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:791683-792184 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:792185-792684 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:805871-806370 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:833618-834539 Neighboring gene HNF4 motif-containing MPRA enhancer 225 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:855234-855734 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:855735-856235 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:860152-860652 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:860653-861153 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:879525-879763 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_17861 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:908856-909700 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2059 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2060 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2061 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2062 Neighboring gene keratinocyte proline-rich protein-like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2063 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:989167-989668 Neighboring gene LARP4B divergent transcript Neighboring gene Sharpr-MPRA regulatory region 2332 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:1036121-1037016 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:1050745-1051244 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:1054558-1055058 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:1055059-1055559 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2894 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2893 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:1088961-1090160 Neighboring gene GTP binding protein 4 Neighboring gene IDI2 antisense RNA 1 Neighboring gene isopentenyl-diphosphate delta isomerase 2 Neighboring gene isopentenyl-diphosphate delta isomerase 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Expression of La Ribonucleoprotein Domain Family Member 4B (LARP4B) in Liver Cancer and Their Clinical and Prognostic Significance. Li Y, et al. Dis Markers, 2019. PMID 31772683, Free PMC Article
    2. Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma. Koso H, et al. Cancer Res, 2016 Apr 15. PMID 26933087
    3. La-related protein 4B maintains murine MLL-AF9 leukemia stem cell self-renewal by regulating cell cycle progression. Zhang Y, et al. Exp Hematol, 2015 Apr. PMID 25534202
    4. Conserved and divergent features of the structure and function of La and La-related proteins (LARPs). Bayfield MA, et al. Biochim Biophys Acta, 2010 May-Jun. PMID 20138158, Free PMC Article
    5. A comprehensive analysis of the La-motif protein superfamily. Bousquet-Antonelli C, et al. RNA, 2009 May. PMID 19299548, Free PMC Article

    See all (99) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Increased LARP4B expression was related to poor overall survival in liver cancer.
      Title: Expression of La Ribonucleoprotein Domain Family Member 4B (LARP4B) in Liver Cancer and Their Clinical and Prognostic Significance.
    2. miR-106b functions as an oncogene and regulates tumor viability and metastasis by targeting LARP4B in prostate cancer.
      Title: MicroRNA‑106b functions as an oncogene and regulates tumor viability and metastasis by targeting LARP4B in prostate cancer.
    3. data provide strong evidence that LARP4B serves as a tumor-suppressor gene in glioma, encouraging further exploration of the RNA targets potentially involved in LARP4B-mediatd growth inhibition
      Title: Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma.
    4. data identify LARP4B as a component of the mRNP code that influences the expression of its mRNA targets by affecting their stability
      Title: LARP4B is an AU-rich sequence associated factor that promotes mRNA accumulation and translation.
    5. demonstrate that LARP4B plays an important role in the maintenance of LSCs and suggest that LARP4B may regulate the cell cycle of LSCs via suppressing the expression of cell cycle inhibitors
      Title: La-related protein 4B maintains murine MLL-AF9 leukemia stem cell self-renewal by regulating cell cycle progression.
    6. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
      Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • DKFZp686M23113

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in positive regulation of 3'-UTR-mediated mRNA stabilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasmic stress granule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasmic stress granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in membrane HDA PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		  

    General protein information

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    Preferred Names
    la-related protein 4B
    Names
    La ribonucleoprotein domain family member 4B
    La ribonucleoprotein domain family, member 5
    la-related protein 5

    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_001351277.2 → NP_001338206.1  la-related protein 4B isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The encoded isoform (2) is longer than isoform 1.
      Source sequence(s)
      AL157709, AU132926, BC152443, BM684990, HY013410
      UniProtKB/TrEMBL
      A0A8I5KWN8
      Conserved Domains (2) summary
      cd08036
      Location:157 → 231
      LARP_5; La RNA-binding domain of La-related protein 5
      cd12706
      Location:236 → 312
      RRM_LARP5; RNA recognition motif in vertebrate La-related protein 5 (LARP5 or LARP4B)

    2. NM_015155.3 → NP_055970.1  la-related protein 4B isoform 1

      See identical proteins and their annotated locations for NP_055970.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the shorter isoform (1).
      Source sequence(s)
      AL157709, AL359878
      Consensus CDS
      CCDS31131.1
      UniProtKB/Swiss-Prot
      A7MD20, Q5T3R3, Q5T3R4, Q5T3R5, Q68CY4, Q92615
      UniProtKB/TrEMBL
      A0A8I5KWN8
      Related
      ENSP00000326128.3, ENST00000316157.8
      Conserved Domains (2) summary
      cd08036
      Location:157 → 231
      LARP_5; La RNA-binding domain of La-related protein 5
      cd12706
      Location:236 → 312
      RRM_LARP5; RNA recognition motif in vertebrate La-related protein 5 (LARP5 or LARP4B)

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      806914..988341 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047424897.1 → XP_047280853.1  la-related protein 4B isoform X5

      UniProtKB/Swiss-Prot
      A7MD20, Q5T3R3, Q5T3R4, Q5T3R5, Q68CY4, Q92615
      Related
      ENSP00000509705.1, ENST00000688365.1

    2. XM_047424894.1 → XP_047280850.1  la-related protein 4B isoform X4

    3. XM_047424893.1 → XP_047280849.1  la-related protein 4B isoform X4

    4. XM_047424896.1 → XP_047280852.1  la-related protein 4B isoform X5

      UniProtKB/Swiss-Prot
      A7MD20, Q5T3R3, Q5T3R4, Q5T3R5, Q68CY4, Q92615

    5. XM_047424892.1 → XP_047280848.1  la-related protein 4B isoform X4

    6. XM_047424895.1 → XP_047280851.1  la-related protein 4B isoform X4

    7. XM_017015990.2 → XP_016871479.1  la-related protein 4B isoform X4

      UniProtKB/TrEMBL
      A0A8I5KWN8
      Conserved Domains (2) summary
      cd08036
      Location:157 → 231
      LARP_5; La RNA-binding domain of La-related protein 5
      cd12706
      Location:236 → 312
      RRM_LARP5; RNA recognition motif in vertebrate La-related protein 5 (LARP5 or LARP4B)

    8. XM_017015988.2 → XP_016871477.1  la-related protein 4B isoform X2

    9. XM_017015987.2 → XP_016871476.1  la-related protein 4B isoform X1

    10. XM_017015992.2 → XP_016871481.1  la-related protein 4B isoform X9

      UniProtKB/TrEMBL
      A0A8I5KWN8
      Conserved Domains (2) summary
      cd12706
      Location:79 → 155
      RRM_LARP5; RNA recognition motif in vertebrate La-related protein 5 (LARP5 or LARP4B)
      cl02755
      Location:26 → 74
      LAM; LA motif RNA-binding domain

    11. XM_047424902.1 → XP_047280858.1  la-related protein 4B isoform X10

    12. XM_047424901.1 → XP_047280857.1  la-related protein 4B isoform X8

    13. XM_047424898.1 → XP_047280854.1  la-related protein 4B isoform X6

    14. XM_047424899.1 → XP_047280855.1  la-related protein 4B isoform X6

    15. XM_017015989.2 → XP_016871478.1  la-related protein 4B isoform X3

    16. XM_047424900.1 → XP_047280856.1  la-related protein 4B isoform X7

    17. XM_017015995.2 → XP_016871484.1  la-related protein 4B isoform X11

    RNA

    1. XR_001747069.2 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      804686..932709 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054365328.1 → XP_054221303.1  la-related protein 4B isoform X5

    2. XM_054365325.1 → XP_054221300.1  la-related protein 4B isoform X4

    3. XM_054365327.1 → XP_054221302.1  la-related protein 4B isoform X5

    4. XM_054365324.1 → XP_054221299.1  la-related protein 4B isoform X4

    5. XM_054365326.1 → XP_054221301.1  la-related protein 4B isoform X4

    6. XM_054365323.1 → XP_054221298.1  la-related protein 4B isoform X4

    7. XM_054365320.1 → XP_054221295.1  la-related protein 4B isoform X1

    8. XM_054365321.1 → XP_054221296.1  la-related protein 4B isoform X2

    9. XM_054365333.1 → XP_054221308.1  la-related protein 4B isoform X9

    10. XM_054365334.1 → XP_054221309.1  la-related protein 4B isoform X10

    11. XM_054365332.1 → XP_054221307.1  la-related protein 4B isoform X8

    12. XM_054365329.1 → XP_054221304.1  la-related protein 4B isoform X6

    13. XM_054365330.1 → XP_054221305.1  la-related protein 4B isoform X6

    14. XM_054365322.1 → XP_054221297.1  la-related protein 4B isoform X3

    15. XM_054365331.1 → XP_054221306.1  la-related protein 4B isoform X7

    16. XM_054365335.1 → XP_054221310.1  la-related protein 4B isoform X11

    RNA

    1. XR_008488184.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q92615.3 GenPept UniProtKB/Swiss-Prot:Q92615

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