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    Prp39 pre-mRNA processing factor 39 [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 43399, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Prp39provided by FlyBase
    Official Full Name
    pre-mRNA processing factor 39provided by FlyBase
    Primary source
    FLYBASE:FBgn0039600
    Locus tag
    Dmel_CG1646
    See related
    AllianceGenome:FB:FBgn0039600
    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
    CG1646; Dmel\CG1646
    Summary
    Predicted to contribute to pre-mRNA 5'-splice site binding activity. Involved in regulation of alternative mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of U1 snRNP; U2-type prespliceosome; and commitment complex. Is expressed in organism. Orthologous to human PRPF39 (pre-mRNA processing factor 39). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See Prp39 in Genome Data Viewer
    Location:
    98E5-98E5; 3-97 cM
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 3R NT_033777.3 (28812102..28817354)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 3R NT_033777.2 (24637824..24643076)

    Chromosome 3R - NT_033777.3Genomic Context describing neighboring genes Neighboring gene Chemosensory protein A 98a Neighboring gene wings down Neighboring gene ncRNA Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene WASp Neighboring gene APC-like

    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. Control of alternative splicing by signal-dependent degradation of splicing-regulatory proteins. Katzenberger RJ, et al. J Biol Chem, 2009 Apr 17. PMID 19218244, Free PMC Article
    2. mTORC1-chaperonin CCT signaling regulates m(6)A RNA methylation to suppress autophagy. Tang HW, et al. Proc Natl Acad Sci U S A, 2021 Mar 9. PMID 33649236, Free PMC Article
    3. Molecular landscape of modified histones in Drosophila heterochromatic genes and euchromatin-heterochromatin transition zones. Yasuhara JC, et al. PLoS Genet, 2008 Jan. PMID 18208336, Free PMC Article
    4. Identification of alternative splicing regulators by RNA interference in Drosophila. Park JW, et al. Proc Natl Acad Sci U S A, 2004 Nov 9. PMID 15492211, Free PMC Article
    5. Regulation of alternative splicing in Drosophila by 56 RNA binding proteins. Brooks AN, et al. Genome Res, 2015 Nov. PMID 26294686, Free PMC Article

    See all (39) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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
    contributes_to pre-mRNA 5'-splice site binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA 5'-splice site recognition IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mRNA splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    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 U1 snRNP IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U1 snRNP ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    part_of U2-type prespliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of commitment complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IC
    Inferred by Curator
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA processing factor 39
    Names
    CG1646-PA
    CG1646-PB
    CG1646-PC
    CG1646-PE
    CG1646-PH
    Prp39-PA
    Prp39-PB
    Prp39-PC
    Prp39-PE
    Prp39-PH

    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_033777.3 Reference assembly

      Range
      28812102..28817354
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_176576.3 → NP_788753.1  pre-mRNA processing factor 39, isoform C [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_788753.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q7KRW8
      Related
      FBpp0084694
      Conserved Domains (4) summary
      PHA03386
      Location:107 → 185
      P10; fibrous body protein; Provisional
      smart00386
      Location:337 → 368
      HAT; HAT (Half-A-TPR) repeats
      pfam11759
      Location:974 → 1009
      KRTAP; Keratin-associated matrix
      sd00008
      Location:827 → 858
      TPR_YbbN; TPR repeat [structural motif]

    2. NM_143377.4 → NP_651634.1  pre-mRNA processing factor 39, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_651634.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q7KRW8
      Related
      FBpp0084692
      Conserved Domains (4) summary
      PHA03386
      Location:107 → 185
      P10; fibrous body protein; Provisional
      smart00386
      Location:337 → 368
      HAT; HAT (Half-A-TPR) repeats
      pfam11759
      Location:974 → 1009
      KRTAP; Keratin-associated matrix
      sd00008
      Location:827 → 858
      TPR_YbbN; TPR repeat [structural motif]

    3. NM_001104488.3 → NP_001097958.1  pre-mRNA processing factor 39, isoform H [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001097958.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q7KRW8
      Conserved Domains (2) summary
      smart00386
      Location:394 → 425
      HAT; HAT (Half-A-TPR) repeats
      PHA03169
      Location:11 → 269
      PHA03169; hypothetical protein; Provisional

    4. NM_170377.3 → NP_733256.2  pre-mRNA processing factor 39, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_733256.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A8JRF2, A8JRF3, A8JRF4, Q7KRW8, Q86B75, Q9VAT3
      Related
      FBpp0084691
      Conserved Domains (5) summary
      PHA03386
      Location:164 → 242
      P10; fibrous body protein; Provisional
      smart00386
      Location:394 → 425
      HAT; HAT (Half-A-TPR) repeats
      PHA03169
      Location:11 → 269
      PHA03169; hypothetical protein; Provisional
      pfam11759
      Location:1031 → 1066
      KRTAP; Keratin-associated matrix
      sd00008
      Location:884 → 915
      TPR_YbbN; TPR repeat [structural motif]

    5. NM_001104487.2 → NP_001097957.1  pre-mRNA processing factor 39, isoform E [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001097957.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q7KRW8
      Conserved Domains (4) summary
      PHA03386
      Location:107 → 185
      P10; fibrous body protein; Provisional
      smart00386
      Location:337 → 368
      HAT; HAT (Half-A-TPR) repeats
      pfam11759
      Location:974 → 1009
      KRTAP; Keratin-associated matrix
      sd00008
      Location:827 → 858
      TPR_YbbN; TPR repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7KRW8.1 Q7KRW8

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