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    Dennd4a DENN domain containing 4A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315756, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Dennd4aprovided by RGD
    Official Full Name
    DENN domain containing 4Aprovided by RGD
    Primary source
    RGD:1562639
    See related
    EnsemblRapid:ENSRNOG00000011739 AllianceGenome:RGD:1562639
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1562639
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in regulation of Rab protein signal transduction. Predicted to be part of ESCRT I complex. Predicted to be active in cytoplasmic vesicle. Orthologous to human DENND4A (DENN domain containing 4A). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 345.6), Lung (RPKM 131.6) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dennd4a in Genome Data Viewer
    Location:
    8q24
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (74218131..74331543)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (65322920..65436331)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (70293355..70406675)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene thymosin beta-4-like Neighboring gene uncharacterized LOC102548661 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene solute carrier family 24 member 1 Neighboring gene integrator complex subunit 14 Neighboring gene 3-hydroxyacyl-CoA dehydratase 3

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Signal transduction meets vesicle traffic: the software and hardware of GLUT4 translocation. Klip A, et al. Am J Physiol Cell Physiol, 2014 May 15. PMID 24598362
    2. Family-wide characterization of the DENN domain Rab GDP-GTP exchange factors. Yoshimura S, et al. J Cell Biol, 2010 Oct 18. PMID 20937701, Free PMC Article
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables guanyl-nucleotide exchange factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in regulation of Rab protein signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of ESCRT I complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasmic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    C-myc promoter-binding protein
    Names
    DENN/MADD domain containing 4A

    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_001427439.1 → NP_001414368.1  C-myc promoter-binding protein

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/TrEMBL
      D4A518
      Related
      ENSRNOP00000016260.7, ENSRNOT00000016260.10

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      74218131..74331543
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039082818.2 → XP_038938746.1  C-myc promoter-binding protein isoform X1

      UniProtKB/TrEMBL
      D4A518
      Conserved Domains (5) summary
      smart00801
      Location:560 → 633
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:194 → 276
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:811 → 840
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:309 → 493
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:809 → 849
      PPR_2; PPR repeat family

    2. XM_039082817.2 → XP_038938745.1  C-myc promoter-binding protein isoform X1

      UniProtKB/TrEMBL
      D4A518
      Conserved Domains (5) summary
      smart00801
      Location:560 → 633
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:194 → 276
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:811 → 840
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:309 → 493
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:809 → 849
      PPR_2; PPR repeat family

    3. XM_017596072.3 → XP_017451561.1  C-myc promoter-binding protein isoform X2

      UniProtKB/TrEMBL
      A0A8I6GM33
      Related
      ENSRNOP00000096457.1, ENSRNOT00000115936.2

    4. XM_063265512.1 → XP_063121582.1  C-myc promoter-binding protein isoform X3

    5. XM_008766395.4 → XP_008764617.1  C-myc promoter-binding protein isoform X4

      Related
      ENSRNOP00000100007.1, ENSRNOT00000132429.1
      Conserved Domains (5) summary
      smart00801
      Location:560 → 633
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:194 → 276
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:811 → 840
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:309 → 493
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:809 → 849
      PPR_2; PPR repeat family

    6. XM_039082819.2 → XP_038938747.1  C-myc promoter-binding protein isoform X1

      UniProtKB/TrEMBL
      D4A518
      Conserved Domains (5) summary
      smart00801
      Location:560 → 633
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:194 → 276
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:811 → 840
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:309 → 493
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:809 → 849
      PPR_2; PPR repeat family

    7. XM_008766394.4 → XP_008764616.1  C-myc promoter-binding protein isoform X1

      See identical proteins and their annotated locations for XP_008764616.1

      UniProtKB/TrEMBL
      D4A518
      Conserved Domains (5) summary
      smart00801
      Location:560 → 633
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:194 → 276
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:811 → 840
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:309 → 493
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:809 → 849
      PPR_2; PPR repeat family

    8. XM_063265511.1 → XP_063121581.1  C-myc promoter-binding protein isoform X1

      UniProtKB/TrEMBL
      D4A518

    RNA

    1. XR_005488653.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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