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    Caper [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 33989, updated on 10-May-2024

    Summary

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    Official Symbol
    Caperprovided by FlyBase
    Primary source
    FLYBASE:FBgn0031883
    Locus tag
    Dmel_CG11266
    See related
    AllianceGenome:FB:FBgn0031883
    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
    CAPER; CC1.3; cg11266; CG11266; Dmel\CG11266; HCC1; igru
    Summary
    Predicted to enable mRNA binding activity. Involved in regulation of alternative mRNA splicing, via spliceosome. Located in nucleoplasm. Part of catalytic step 2 spliceosome and precatalytic spliceosome. Is expressed in adult brain cell body rind. Orthologous to several human genes including RBM39 (RNA binding motif protein 39). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See Caper in Genome Data Viewer
    Location:
    27D5-27D5; 2-24 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2L NT_033779.5 (7032721..7037878)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2L NT_033779.4 (7032721..7037878)

    Chromosome 2L - NT_033779.5Genomic Context describing neighboring genes Neighboring gene Mitochondrial Magnesium Exporter 1 Neighboring gene Rab30 Neighboring gene milton Neighboring gene Menin 1 Neighboring gene Male specific transcript 27D Neighboring gene Suppressor of exocyst mutations 1 Neighboring gene Nuf2

    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. Roles for the RNA-Binding Protein Caper in Reproductive Output in Drosophila melanogaster. Tixtha EJ, et al. J Dev Biol, 2022 Dec 23. PMID 36648904, Free PMC Article
    2. The RNA-binding protein caper is required for sensory neuron development in Drosophila melanogaster. Olesnicky EC, et al. Dev Dyn, 2017 Aug. PMID 28543982, Free PMC Article
    3. The conserved alternative splicing factor caper regulates neuromuscular phenotypes during development and aging. Titus MB, et al. Dev Biol, 2021 May. PMID 33508255, Free PMC Article
    4. Coupling of PARP1-mediated chromatin structural changes to transcriptional RNA polymerase II elongation and cotranscriptional splicing. Matveeva EA, et al. Epigenetics Chromatin, 2019 Feb 18. PMID 30777121, Free PMC Article
    5. U2AF homology motifs: protein recognition in the RRM world. Kielkopf CL, et al. Genes Dev, 2004 Jul 1. PMID 15231733, Free PMC Article

    See all (56) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The conserved alternative splicing factor caper regulates neuromuscular phenotypes during development and aging.
      Title: The conserved alternative splicing factor caper regulates neuromuscular phenotypes during development and aging.
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables U1 snRNP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome IC
    Inferred by Curator
    more info
    		 PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome HMP PubMed 
    involved_in regulation of alternative mRNA splicing, via spliceosome IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of catalytic step 2 spliceosome HDA PubMed 
    located_in nucleoplasm HDA PubMed 
    located_in nucleus IC
    Inferred by Curator
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of precatalytic spliceosome HDA PubMed 

    General protein information

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    Preferred Names
    caper
    Names
    CG11266-PA
    CG11266-PB
    CG11266-PH
    CG11266-PI
    CG11266-PJ
    CG11266-PK
    CG11266-PL
    Caper-PA
    Caper-PB
    Caper-PH
    Caper-PI
    Caper-PJ
    Caper-PK
    Caper-PL
    inselgruppe

    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_033779.5 Reference assembly

      Range
      7032721..7037878
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001298774.1 → NP_001285703.1  caper, isoform K [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001285703.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      X2J523

    2. NM_135251.4 → NP_609095.1  caper, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_609095.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VM49
      Related
      FBpp0088579
      Conserved Domains (4) summary
      cd12283
      Location:238 → 310
      RRM1_RBM39_like; RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      cd12284
      Location:337 → 409
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12285
      Location:483 → 567
      RRM3_RBM39_like; RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      pfam15519
      Location:425 → 500
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    3. NM_001298771.1 → NP_001285700.1  caper, isoform H [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001285700.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      X2JDG0

    4. NM_001298772.1 → NP_001285701.1  caper, isoform I [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001285701.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      X2JDG0

    5. NM_001298775.1 → NP_001285704.1  caper, isoform L [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001285704.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      X2J523

    6. NM_164730.2 → NP_723243.1  caper, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_723243.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VM49
      Related
      FBpp0088583
      Conserved Domains (4) summary
      cd12283
      Location:238 → 310
      RRM1_RBM39_like; RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      cd12284
      Location:337 → 409
      RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
      cd12285
      Location:483 → 567
      RRM3_RBM39_like; RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
      pfam15519
      Location:425 → 500
      RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

    7. NM_001298773.1 → NP_001285702.1  caper, isoform J [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001285702.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      X2J9R6
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9VM49 Q9VM49
    X2J523 X2J523
    X2J9R6 X2J9R6
    X2JDG0 X2JDG0

    Gene LinkOut

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