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    lark lark [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 38811, updated on 9-Dec-2024

    Summary

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    Official Symbol
    larkprovided by FlyBase
    Official Full Name
    larkprovided by FlyBase
    Primary source
    FLYBASE:FBgn0011640
    Locus tag
    Dmel_CG8597
    See related
    AllianceGenome:FB:FBgn0011640
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Drosophila melanogaster
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
    Also known as
    CG8597; dLARK; Dmel\CG8597; Lark; LARK
    Summary
    Enables RNA binding activity. Involved in several processes, including eclosion rhythm; locomotor rhythm; and negative regulation of eclosion. Located in cytoplasm and nucleus. Part of catalytic step 2 spliceosome and precatalytic spliceosome. Is expressed in several structures, including adult head; adult heart; egg chamber; ganglia; and germline cell. Orthologous to human RBM4 (RNA binding motif protein 4) and RBM4B (RNA binding motif protein 4B). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See lark in Genome Data Viewer
    Location:
    65F5-65F5; 3-20 cM
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 3L NT_037436.4 (7339266..7341893)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 3L NT_037436.3 (7332366..7334993)

    Chromosome 3L - NT_037436.4Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene mutagen-sensitive 312 Neighboring gene wurmchen 1 Neighboring gene wurmchen 2 Neighboring gene Establishment of cohesion Neighboring gene Cln7 Neighboring gene uncharacterized protein Neighboring gene Signal recognition particle 19

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Genetic analysis of functional domains within the Drosophila LARK RNA-binding protein. McNeil GP, et al. Genetics, 2001 Sep. PMID 11560900, Free PMC Article
    2. A new biological rhythm mutant of Drosophila melanogaster that identifies a gene with an essential embryonic function. Newby LM, et al. Genetics, 1993 Dec. PMID 8307324, Free PMC Article
    3. Enteric infection induces Lark-mediated intron retention at the 5' end of Drosophila genes. Bou Sleiman M, et al. Genome Biol, 2020 Jan 17. PMID 31948480, Free PMC Article
    4. Regulation of a specific circadian clock output pathway by lark, a putative RNA-binding protein with repressor activity. Newby LM, et al. J Neurobiol, 1996 Sep. PMID 9120432
    5. The Drosophila FMRP and LARK RNA-binding proteins function together to regulate eye development and circadian behavior. Sofola O, et al. J Neurosci, 2008 Oct 8. PMID 18842880, Free PMC Article

    See all (92) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Enteric infection induces Lark-mediated intron retention at the 5' end of Drosophila genes.
      Title: Enteric infection induces Lark-mediated intron retention at the 5' end of Drosophila genes.
    2. Data suggest that LARK is a conserved G4-binding protein and that the G4 structure may have developed into an elaborate epigenetic mechanism of gene transcription regulation during evolution.
      Title: Identification of LARK as a novel and conserved G-quadruplex binding protein in invertebrates and vertebrates.
    3. LARK influences circadian period.
      Title: Translational regulation of the DOUBLETIME/CKIδ/ε kinase by LARK contributes to circadian period modulation.
    4. LARK is required in the Drosophila circadian system
      Title: Cellular requirements for LARK in the Drosophila circadian system.
    5. Data show that increased LARK expression during development dramatically alters the small LNv class of pigment-dispersing factor (PDF)-containing neurons with no obvious effects on the large LNv cells.
      Title: Altered LARK expression perturbs development and physiology of the Drosophila PDF clock neurons.
    6. Results provide evidence that Dmoe RNA is a target of Lark during oogenesis and that it likely regulates either the splicing or translation of this RNA.
      Title: The Drosophila RNA-binding protein Lark is required for localization of Dmoesin to the oocyte cortex during oogenesis.
    7. dFMRP interacts with a known clock output component, the LARK RNA-binding protein. LARK promotes the stability of dFMRP.
      Title: The Drosophila FMRP and LARK RNA-binding proteins function together to regulate eye development and circadian behavior.
    8. LARK RNA-binding protein selectively regulates the circadian eclosion rhythm by controlling E74 protein expression
      Title: The LARK RNA-binding protein selectively regulates the circadian eclosion rhythm by controlling E74 protein expression.
    9. RBM4 and Lark are the same protein, are localized in speckles and nucleoli, but can redistribute to perinucleolar clusters, consistent with a novel subnuclear pathway
      Title: Lark is the splicing factor RBM4 and exhibits unique subnuclear localization properties.
    10. Lark is required for the organization of the actin cytoskeleton and Hu-li Tai Shao localization during oogenesis.
      Title: The Drosophila RNA-binding protein Lark is required for the organization of the actin cytoskeleton and Hu-li tai shao localization during oogenesis.
    Submit: New GeneRIF Correction

    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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    Homology

    Gene Ontology Provided by FlyBase

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in actin cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in circadian rhythm NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in eclosion TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in eclosion rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in eclosion rhythm NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in eclosion rhythm TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in embryo development ending in birth or egg hatching IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    NOT involved_in locomotion TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in locomotor rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in locomotor rhythm TAS
    Traceable Author Statement
    more info
    		 PubMed 
    involved_in mRNA splicing, via spliceosome IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in mitotic cell cycle HMP PubMed 
    involved_in negative regulation of eclosion IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in ovarian nurse cell to oocyte transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of cytoplasmic translation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein localization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of circadian rhythm IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome HDA PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of precatalytic spliceosome HDA PubMed 

    General protein information

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    Preferred Names
    lark
    Names
    CG8597-PA
    CG8597-PB
    CG8597-PC
    CG8597-PD
    CG8597-PE
    lark-PA
    lark-PB
    lark-PC
    lark-PD
    lark-PE

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NT_037436.4 Reference assembly

      Range
      7339266..7341893
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_168204.3 → NP_729239.1  lark, isoform D [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_729239.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A4V1L0, Q94901
      Related
      FBpp0076555
      Conserved Domains (2) summary
      TIGR01648
      Location:88 → 258
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cd12343
      Location:8 → 73
      RRM1_2_CoAA_like; RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

    2. NM_168205.4 → NP_729240.1  lark, isoform E [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_729240.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A4V1L0, Q94901
      Related
      FBpp0076556
      Conserved Domains (2) summary
      TIGR01648
      Location:88 → 258
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cd12343
      Location:8 → 73
      RRM1_2_CoAA_like; RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

    3. NM_079233.6 → NP_523957.1  lark, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_523957.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A4V1L0, Q94901
      Related
      FBpp0076552
      Conserved Domains (2) summary
      TIGR01648
      Location:88 → 258
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cd12343
      Location:8 → 73
      RRM1_2_CoAA_like; RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

    4. NM_168203.4 → NP_729238.1  lark, isoform C [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_729238.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A4V1L0, Q94901
      Related
      FBpp0076554
      Conserved Domains (2) summary
      TIGR01648
      Location:88 → 258
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cd12343
      Location:8 → 73
      RRM1_2_CoAA_like; RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

    5. NM_168202.3 → NP_729237.1  lark, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_729237.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A4V1L0, Q94901
      Related
      FBpp0076553
      Conserved Domains (2) summary
      TIGR01648
      Location:88 → 258
      hnRNP-R-Q; heterogeneous nuclear ribonucleoprotein R, Q family
      cd12343
      Location:8 → 73
      RRM1_2_CoAA_like; RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RRM-containing coactivator activator/modulator (CoAA) and similar proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q94901.1 Q94901

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