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    Nipped-A Nipped-A [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 35483, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Nipped-Aprovided by FlyBase
    Official Full Name
    Nipped-Aprovided by FlyBase
    Primary source
    FLYBASE:FBgn0053554
    Locus tag
    Dmel_CG33554
    See related
    AllianceGenome:FB:FBgn0053554
    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
    41Ah; CG10549; CG2905; CG33554; Dmel\CG33554; dmTRRAP; DmTrrap; dTra1; dTRRAP; GroupV; l(2)41Ah; l(2)C123; l(2)EMS34-12; Nip-A; NipA; Nipped A; nipped-a; Nipped[A]; Tra-1; tra1; Tra1; TRA1; TRRAP
    Summary
    Involved in DNA repair-dependent chromatin remodeling; regulation of DNA-templated transcription; and wing disc pattern formation. Located in cytoplasm; nucleus; and polytene chromosome puff. Part of NuA4 histone acetyltransferase complex and SAGA complex. Is expressed in adult heart; pole plasm; primordial germ cell; and spermatozoon. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 75. Orthologous to human TRRAP (transformation/transcription domain associated protein). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See Nipped-A in Genome Data Viewer
    Location:
    41E1-41E3; 2-55 cM
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2R NT_033778.4 (5177965..5251022, complement)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2R NT_033778.3 (1065470..1138527, complement)

    Chromosome 2R - NT_033778.4Genomic Context describing neighboring genes Neighboring gene long non-coding RNA:CR43256 Neighboring gene gustavus Neighboring gene Atf6 Neighboring gene long non-coding RNA:CR41443 Neighboring gene d4

    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. New insights into the evolutionary conservation of the sole PIKK pseudokinase Tra1/TRRAP. Elías-Villalobos A, et al. Biochem Soc Trans, 2019 Dec 20. PMID 31769470
    2. The H3K79me3 methyl-transferase Grappa is involved in the establishment and thermal plasticity of abdominal pigmentation in Drosophila melanogaster females. Narbey R, et al. Sci Rep, 2024 Apr 25. PMID 38664546, Free PMC Article
    3. Nipped-A regulates intestinal stem cell proliferation in Drosophila. Tauc HM, et al. Development, 2017 Feb 15. PMID 28196804
    4. Drosophila O-GlcNAc transferase (OGT) is encoded by the Polycomb group (PcG) gene, super sex combs (sxc). Sinclair DA, et al. Proc Natl Acad Sci U S A, 2009 Aug 11. PMID 19666537, Free PMC Article
    5. [Conservative E(y)2/Sus1 protein is the member of SAGA complex and new nuclear pore-associated complex in Drosophila]. Kurshakova MM, et al. Genetika, 2009 Oct. PMID 19947544

    See all (149) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Proteomic analysis of Drosophila CLOCK complexes identifies rhythmic interactions with SAGA and Tip60 complex component NIPPED-A.
      Title: Proteomic analysis of Drosophila CLOCK complexes identifies rhythmic interactions with SAGA and Tip60 complex component NIPPED-A.
    2. Nipped-A seems to be a superordinate regulator of intestinal stem cell (ISC) proliferation, possibly by coordinating different processes including modifying the chromatin landscape of ISCs and progenitors
      Title: Nipped-A regulates intestinal stem cell proliferation in Drosophila.
    3. Nipped-A facilitates assembly of the Notch activator complex and target gene transcription
      Title: Nipped-A, the Tra1/TRRAP subunit of the Drosophila SAGA and Tip60 complexes, has multiple roles in Notch signaling during wing development.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    mobile_element

    • Loc: c5179383-5179049 mobile_element_type = transposon:Cr1a{}2909
    • Loc: c5182816-5182038 mobile_element_type = transposon:mariner2{}628
    • Loc: c5185456-5184992 mobile_element_type = transposon:INE-1{}2449
    • Loc: c5188530-5188439 mobile_element_type = transposon:INE-1{}2450
    • Loc: c5189386-5189046 mobile_element_type = transposon:gypsy8{}3065
    • Loc: c5190595-5190175 mobile_element_type = transposon:INE-1{}2451
    • Loc: c5191081-5190725 mobile_element_type = transposon:INE-1{}2452
    • Loc: c5194850-5194732 mobile_element_type = transposon:INE-1{}2454
    • Loc: c5197219-5196924 mobile_element_type = transposon:INE-1{}2908
    • Loc: c5198423-5198212 mobile_element_type = transposon:INE-1{}2907
    • Loc: c5200030-5199969 mobile_element_type = transposon:INE-1{}2461
    • Loc: c5202328-5202275 mobile_element_type = transposon:INE-1{}2930
    • Loc: c5202942-5202782 mobile_element_type = transposon:INE-1{}2462
    • Loc: c5203654-5203345 mobile_element_type = transposon:INE-1{}2463
    • Loc: c5204730-5204405 mobile_element_type = transposon:INE-1{}2464
    • Loc: c5206879-5206527 mobile_element_type = transposon:Rt1b{}629
    • Loc: c5211468-5211123 mobile_element_type = transposon:INE-1{}2466
    • Loc: c5213646-5213070 mobile_element_type = transposon:INE-1{}2469
    • Loc: c5217299-5217151 mobile_element_type = transposon:INE-1{}2471
    • Loc: c5223226-5222898 mobile_element_type = transposon:INE-1{}2472
    • Loc: c5225486-5224002 mobile_element_type = transposon:invader3{}2599
    • Loc: c5232857-5227783 mobile_element_type = transposon:invader2{}633
    • Loc: c5238895-5237074 mobile_element_type = transposon:rooA{}2889
    • Loc: c5240813-5240591 mobile_element_type = transposon:Doc2{}2887
    • Loc: c5242237-5242125 mobile_element_type = transposon:INE-1{}2477
    • Loc: c5243971-5243700 mobile_element_type = transposon:INE-1{}2885
    • Loc: c5244160-5243998 mobile_element_type = transposon:1360{}2552
    • Loc: c5245541-5245037 mobile_element_type = transposon:F{}2505
    • Loc: c5248321-5243319 mobile_element_type = transposon:diver2{}2884
    • Loc: c5249437-5248574 mobile_element_type = transposon:flea{}2576

    Gene Ontology Provided by FlyBase

    Function Evidence Code Pubs
    NOT enables kinase activity IKR
    Inferred from Key Residues
    more info
    		 PubMed 
    NOT enables kinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA repair-dependent chromatin remodeling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in DNA repair-dependent chromatin remodeling IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in wing disc pattern formation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of NuA4 histone acetyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of NuA4 histone acetyltransferase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of SAGA complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of SAGA complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of histone acetyltransferase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of histone acetyltransferase complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in polytene chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in polytene chromosome puff IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    Nipped-A
    Names
    CG33554-PE
    CG33554-PF
    Nipped-A-PE
    Nipped-A-PF
    NippedA
    lethal(2)41Ah
    nipped
    NP_001097192.2
    • unusual splice

    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_033778.4 Reference assembly

      Range
      5177965..5251022 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001103722.3 → NP_001097192.2  Nipped-A, isoform E [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001097192.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      A0A140SQB4, A8DY44, Q2EZ47, Q8I8U7, Q8T3L7, Q9V9E9
      Conserved Domains (3) summary
      cd05163
      Location:3425 → 3712
      PIKK_TRRAP; Pseudokinase domain of TRansformation/tRanscription domain-Associated Protein
      pfam02259
      Location:2767 → 3102
      FAT; FAT domain
      cl26692
      Location:2568 → 3790
      FRB_dom; FKBP12-rapamycin binding domain

    2. NM_001316406.1 → NP_001303335.1  Nipped-A, isoform F [Drosophila melanogaster]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8I8U7
      Conserved Domains (3) summary
      cd05163
      Location:3376 → 3663
      PIKK_TRRAP; Pseudokinase domain of TRansformation/tRanscription domain-Associated Protein
      pfam02259
      Location:2718 → 3053
      FAT; FAT domain
      pfam02260
      Location:3720 → 3741
      FATC; FATC domain
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8I8U7.4 Q8I8U7

    Gene LinkOut

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