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Dennd3 DENN domain containing 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 315055, updated on 2-Nov-2024

Summary

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Official Symbol
Dennd3provided by RGD
Official Full Name
DENN domain containing 3provided by RGD
Primary source
RGD:1311559
See related
EnsemblRapid:ENSRNOG00000010794 AllianceGenome:RGD:1311559
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
RGD1311559
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in endosome to lysosome transport; protein catabolic process; and regulation of Rab protein signal transduction. Predicted to be active in cytoplasmic vesicle. Orthologous to human DENND3 (DENN domain containing 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Kidney (RPKM 130.2), Lung (RPKM 129.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Dennd3 in Genome Data Viewer
Location:
7q34
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (107304860..107362573)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (105415870..105473583)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (114724644..114812471)

Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene protein tyrosine kinase 2 Neighboring gene small nucleolar RNA SNORA8 Neighboring gene ribosomal protein L36 like 1 Neighboring gene solute carrier family 45, member 4 Neighboring gene uncharacterized LOC134479924

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 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. Small GTPase Rab12 regulates constitutive degradation of transferrin receptor. Matsui T, et al. Traffic, 2011 Oct. PMID 21718402
  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 endosome to lysosome transport ISO
Inferred from Sequence Orthology
more info
  
involved_in protein catabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of Rab protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasmic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
DENN domain-containing protein 3
Names
DENN/MADD domain containing 3

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_001427258.1 → NP_001414187.1  DENN domain-containing protein 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000007
    Related
    ENSRNOP00000078310.2, ENSRNOT00000097499.2

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_086025.1 Reference GRCr8

    Range
    107304860..107362573
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063263576.1 → XP_063119646.1  DENN domain-containing protein 3 isoform X3

  2. XM_017595246.3 → XP_017450735.1  DENN domain-containing protein 3 isoform X2

    UniProtKB/TrEMBL
    D4A2H4

  3. XM_006241738.4 → XP_006241800.2  DENN domain-containing protein 3 isoform X1

    UniProtKB/TrEMBL
    D4A2H4

  4. XM_039080223.1 → XP_038936151.1  DENN domain-containing protein 3 isoform X4

    UniProtKB/TrEMBL
    A0A8I6G2K6
    Conserved Domains (4) summary
    smart00801
    Location:187 → 249
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    COG2319
    Location:749 → 1028
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:781 → 816
    7WD40; WD40 repeat [structural motif]
    cl11519
    Location:7 → 121
    DENN; DENN (AEX-3) domain

  5. XM_039080224.1 → XP_038936152.1  DENN domain-containing protein 3 isoform X5

    Conserved Domains (4) summary
    smart00801
    Location:127 → 189
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    COG2319
    Location:689 → 968
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:721 → 756
    7WD40; WD40 repeat [structural motif]
    cl11519
    Location:1 → 61
    DENN; DENN (AEX-3) domain

  6. XM_039080225.2 → XP_038936153.1  DENN domain-containing protein 3 isoform X6

    UniProtKB/TrEMBL
    A6HRV6
    Conserved Domains (2) summary
    COG2319
    Location:509 → 788
    WD40; WD40 repeat [General function prediction only]
    sd00039
    Location:541 → 576
    7WD40; WD40 repeat [structural motif]
Nucleotide Protein Strain
Heading Accession and Version

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