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    LARP1 La ribonucleoprotein 1, translational regulator [ Homo sapiens (human) ]

    Gene ID: 23367, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LARP1provided by HGNC
    Official Full Name
    La ribonucleoprotein 1, translational regulatorprovided by HGNC
    Primary source
    HGNC:HGNC:29531
    See related
    Ensembl:ENSG00000155506 MIM:612059; AllianceGenome:HGNC:29531
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    LARP; Lar1; Lhp1
    Summary
    Enables eukaryotic initiation factor 4E binding activity; nucleic acid binding activity; and ribosomal small subunit binding activity. Involved in several processes, including TORC1 signaling; cellular response to rapamycin; and post-transcriptional regulation of gene expression. Located in TORC1 complex and cytoplasmic stress granule. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 29.3), brain (RPKM 25.2) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See LARP1 in Genome Data Viewer
    Location:
    5q33.2
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (154682979..154817605)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (155216967..155351568)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (154062539..154197165)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83489 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153962321-153962904 Neighboring gene CIR1P1-LARP1 intergenic CAGE-defined high expression enhancer Neighboring gene CIR1 pseudogene 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153983238-153983756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:153983757-153984274 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16544 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:153990742-153991511 Neighboring gene microRNA 3141 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:154026765-154027427 Neighboring gene CRISPRi-validated cis-regulatory element chr5.4044 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16545 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16546 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:154070395-154071038 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr5:154076347-154076858 Neighboring gene microRNA 1303 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:154091948-154092494 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_83490 Neighboring gene RNA, 7SL, cytoplasmic 803, pseudogene Neighboring gene ribosomal protein L21 pseudogene 57 Neighboring gene uncharacterized LOC112267936 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16547 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16548 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16549 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16550 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16551 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23482 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16552 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23483 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16553 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr5:154155175-154155753 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:154161545-154162171 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23485 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23486 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23487 Neighboring gene Sharpr-MPRA regulatory region 2591 Neighboring gene fatty acid hydroxylase domain containing 2 Neighboring gene microRNA 378h Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:154236981-154237482 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:154237483-154237986 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:154237987-154238489 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:154238993-154239495 Neighboring gene CCR4-NOT transcription complex subunit 8

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. LARP1 haploinsufficiency is associated with an autosomal dominant neurodevelopmental disorder. Chettle J, et al. HGG Adv, 2024 Oct 10. PMID 39182167, Free PMC Article
    2. The LARP1 La-Module recognizes both ends of TOP mRNAs. Al-Ashtal HA, et al. RNA Biol, 2021 Feb. PMID 31601159, Free PMC Article
    3. LARP1, an RNA-binding protein, participates in ovarian cancer cell survival by regulating mitochondrial oxidative phosphorylation in response to the influence of the PI3K/mTOR pathway. Ma J, et al. Biochim Biophys Acta Mol Basis Dis, 2024 Dec. PMID 39111634
    4. Enhanced binding of guanylated poly(A) RNA by the LaM domain of LARP1. Kozlov G, et al. RNA Biol, 2024 Jan. PMID 39016322, Free PMC Article
    5. Nuclear trafficking of La protein depends on a newly identified nucleolar localization signal and the ability to bind RNA. Horke S, et al. J Biol Chem, 2004 Jun 18. PMID 15060081

    See all (257) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. LARP1 haploinsufficiency is associated with an autosomal dominant neurodevelopmental disorder.
      Title: LARP1 haploinsufficiency is associated with an autosomal dominant neurodevelopmental disorder.
    2. LARP1, an RNA-binding protein, participates in ovarian cancer cell survival by regulating mitochondrial oxidative phosphorylation in response to the influence of the PI3K/mTOR pathway.
      Title: LARP1, an RNA-binding protein, participates in ovarian cancer cell survival by regulating mitochondrial oxidative phosphorylation in response to the influence of the PI3K/mTOR pathway.
    3. Enhanced binding of guanylated poly(A) RNA by the LaM domain of LARP1.
      Title: Enhanced binding of guanylated poly(A) RNA by the LaM domain of LARP1.
    4. Proximity labeling of host factor ANXA3 in HCV infection reveals a novel LARP1 function in viral entry.
      Title: Proximity labeling of host factor ANXA3 in HCV infection reveals a novel LARP1 function in viral entry.
    5. [1]H, [13]C, and [15]N resonance assignments of the La Motif of the human La-related protein 1.
      Title: (1)H, (13)C, and (15)N resonance assignments of the La Motif of the human La-related protein 1.
    6. O-GlcNAcylated LARP1 positively regulated by circCLNS1A facilitates hepatoblastoma progression through DKK4/beta-catenin signalling.
      Title: O-GlcNAcylated LARP1 positively regulated by circCLNS1A facilitates hepatoblastoma progression through DKK4/β-catenin signalling.
    7. Long non-coding RNA LINC01270 is an onco-promotor in lung adenocarcinoma by upregulating LARP1 via sponging miR-326.
      Title: Long non-coding RNA LINC01270 is an onco-promotor in lung adenocarcinoma by upregulating LARP1 via sponging miR-326.
    8. Global analysis of RNA-binding proteins identifies a positive feedback loop between LARP1 and MYC that promotes tumorigenesis.
      Title: Global analysis of RNA-binding proteins identifies a positive feedback loop between LARP1 and MYC that promotes tumorigenesis.
    9. LARP1 isoform expression in human cancer cell lines.
      Title: LARP1 isoform expression in human cancer cell lines.
    10. The LARP1 La-Module recognizes both ends of TOP mRNAs.
      Title: The LARP1 La-Module recognizes both ends of TOP mRNAs.
    Submit: New GeneRIF Correction See all GeneRIFs (34)

    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)

    HIV-1 interactions

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    Protein interactions

    Protein Gene Interaction Pubs
    Pr55(Gag) gag Cellular biotinylated La ribonucleoprotein domain family, member 1 (LARP1) protein is incorporated into HIV-1 Gag virus-like particles PubMed
    gag Interaction of HIV-1 Gag with La ribonucleoprotein domain family, member 1 (LARP1) is identified in a series of six affinity purification/mass spectrometry screens PubMed

    Go to the HIV-1, Human Interaction Database

    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

    • KIAA0731, MGC19556

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA 7-methylguanosine cap binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding HDA PubMed 
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA cap binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cadherin binding HDA PubMed 
    enables eukaryotic initiation factor 4E binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA 5'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables mRNA 5'-UTR binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ribosomal small subunit binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables translation activator activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables translation initiation factor binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in TOR signaling IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in TORC1 signaling IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell population proliferation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cellular response to rapamycin IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA stabilization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of translational initiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of macroautophagy 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 translational initiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of viral genome replication IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in post-transcriptional regulation of gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to amino acid starvation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in translational initiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of TORC1 complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 TAS
    Traceable Author Statement
    more info
    		  
    located_in membrane HDA PubMed 

    General protein information

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    Preferred Names
    la-related protein 1
    Names
    La ribonucleoprotein domain family member 1

    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_001367713.1 → NP_001354642.1  la-related protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC008379, AC112169
      Consensus CDS
      CCDS93807.1
      UniProtKB/TrEMBL
      A0A8I5KWU3
      Related
      ENSP00000509794.1, ENST00000685946.1

    2. NM_001367714.1 → NP_001354643.1  la-related protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC008379, AC112169
      Consensus CDS
      CCDS93807.1
      UniProtKB/TrEMBL
      A0A8I5KWU3
      Related
      ENSP00000508743.1, ENST00000690816.1

    3. NM_001367715.1 → NP_001354644.1  la-related protein 1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC008379, AC112169

    4. NM_001367716.1 → NP_001354645.1  la-related protein 1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC008379, AC112169
      Consensus CDS
      CCDS93806.1
      UniProtKB/TrEMBL
      A0A8I5KSP1
      Related
      ENSP00000508958.1, ENST00000687700.1

    5. NM_001367717.1 → NP_001354646.1  la-related protein 1 isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC008379, AC112169

    6. NM_001367718.1 → NP_001354647.1  la-related protein 1 isoform 7

      Status: VALIDATED

      Source sequence(s)
      AC112169

    7. NM_001367719.1 → NP_001354648.1  la-related protein 1 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC112169
      Consensus CDS
      CCDS93807.1
      UniProtKB/TrEMBL
      A0A8I5KWU3

    8. NM_015315.6 → NP_056130.2  la-related protein 1 isoform 1

      See identical proteins and their annotated locations for NP_056130.2

      Status: VALIDATED

      Source sequence(s)
      AC008379, AC112169
      Consensus CDS
      CCDS4328.1
      UniProtKB/Swiss-Prot
      Q6PKG0
      Related
      ENSP00000336721.4, ENST00000336314.9
      Conserved Domains (4) summary
      smart00684
      Location:849 → 887
      DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
      cd08037
      Location:327 → 399
      LARP_1; La RNA-binding domain of La-related protein 1
      cl25751
      Location:123 → 535
      DUF4045; Domain of unknown function (DUF4045)
      cl26464
      Location:11 → 251
      Atrophin-1; Atrophin-1 family

    9. NM_033551.3 → NP_291029.2  la-related protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC112169
      UniProtKB/Swiss-Prot
      O94836, Q6PKG0, Q8N4M2, Q8NB73, Q9UFD7
      Related
      ENSP00000428589.2, ENST00000518297.6

    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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      154682979..154817605
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047417041.1 → XP_047272997.1  la-related protein 1 isoform X3

    2. XM_047417045.1 → XP_047273001.1  la-related protein 1 isoform X9

    3. XM_047417040.1 → XP_047272996.1  la-related protein 1 isoform X3

    4. XM_047417042.1 → XP_047272998.1  la-related protein 1 isoform X4

    5. XM_047417044.1 → XP_047273000.1  la-related protein 1 isoform X7

    6. XM_047417043.1 → XP_047272999.1  la-related protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A8I5KSP1

    7. XM_011537614.2 → XP_011535916.1  la-related protein 1 isoform X1

      Conserved Domains (3) summary
      smart00684
      Location:900 → 938
      DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
      cd08037
      Location:378 → 450
      LARP_1; La RNA-binding domain of La-related protein 1
      COG5193
      Location:177 → 529
      LHP1; La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

    8. XM_011537615.2 → XP_011535917.1  la-related protein 1 isoform X2

      Conserved Domains (3) summary
      smart00684
      Location:859 → 897
      DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
      cd08037
      Location:337 → 409
      LARP_1; La RNA-binding domain of La-related protein 1
      COG5193
      Location:211 → 488
      LHP1; La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]

    9. XM_005268408.4 → XP_005268465.1  la-related protein 1 isoform X8

      See identical proteins and their annotated locations for XP_005268465.1

      UniProtKB/TrEMBL
      A0A8I5KWU3
      Conserved Domains (2) summary
      smart00684
      Location:721 → 759
      DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
      cd08037
      Location:199 → 271
      LARP_1; La RNA-binding domain of La-related protein 1

    10. XM_011537617.2 → XP_011535919.1  la-related protein 1 isoform X5

      Conserved Domains (2) summary
      smart00684
      Location:791 → 829
      DM15; Tandem repeat in fly CG14066 (La related protein), human KIAA0731 and worm R144.7. Unknown function
      cd08037
      Location:269 → 341
      LARP_1; La RNA-binding domain of La-related protein 1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      155216967..155351568
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054352239.1 → XP_054208214.1  la-related protein 1 isoform X3

    2. XM_054352244.1 → XP_054208219.1  la-related protein 1 isoform X9

    3. XM_054352238.1 → XP_054208213.1  la-related protein 1 isoform X3

    4. XM_054352240.1 → XP_054208215.1  la-related protein 1 isoform X4

    5. XM_054352243.1 → XP_054208218.1  la-related protein 1 isoform X7

    6. XM_054352242.1 → XP_054208217.1  la-related protein 1 isoform X6

      UniProtKB/TrEMBL
      A0A8I5KSP1

    7. XM_054352236.1 → XP_054208211.1  la-related protein 1 isoform X1

    8. XM_054352237.1 → XP_054208212.1  la-related protein 1 isoform X2

    9. XM_054352241.1 → XP_054208216.1  la-related protein 1 isoform X5

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6PKG0.2 GenPept UniProtKB/Swiss-Prot:Q6PKG0

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