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

Gene ID: 23185, updated on 27-Nov-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
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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_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (806914..988341, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (804686..932709, complement)
RS_2024_09 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. Identification of RNA-Binding Protein LARP4B as a Tumor Suppressor in Glioma. Koso H, et al. Cancer Res, 2016 Apr 15. PMID 26933087
  2. 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
  3. A comprehensive analysis of the La-motif protein superfamily. Bousquet-Antonelli C, et al. RNA, 2009 May. PMID 19299548, Free PMC Article
  4. 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
  5. 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

See all (109) 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)

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_2024_08

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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