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    Dennd1a DENN domain containing 1A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 311913, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Dennd1aprovided by RGD
    Official Full Name
    DENN domain containing 1Aprovided by RGD
    Primary source
    RGD:1307927
    See related
    Ensembl:ENSRNOG00000010526 AllianceGenome:RGD:1307927
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1307927
    Summary
    Predicted to enable several functions, including SH3 domain binding activity; guanyl-nucleotide exchange factor activity; and phosphatidylinositol-3-phosphate binding activity. Predicted to be involved in several processes, including endocytic recycling; positive regulation of GTPase activity; and regulation of Rab protein signal transduction. Predicted to act upstream of or within synaptic vesicle endocytosis. Predicted to be located in several cellular components, including clathrin-coated vesicle membrane; dendrite; and neuronal cell body. Predicted to be active in clathrin-coated vesicle and cytosol. Orthologous to human DENND1A (DENN domain containing 1A). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 59.6), Spleen (RPKM 45.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dennd1a in Genome Data Viewer
    Location:
    3q11-q12
    Exon count:
    33
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (41974502..42461816, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (21564749..22052057, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (22061120..22501502, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene U6 spliceosomal RNA Neighboring gene crumbs cell polarity complex component 2 Neighboring gene LIM homeobox 2 Neighboring gene uncharacterized LOC120101538 Neighboring gene double PHD fingers 3 like 1

    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. The Connecdenn DENN domain: a GEF for Rab35 mediating cargo-specific exit from early endosomes. Allaire PD, et al. Mol Cell, 2010 Feb 12. PMID 20159556, Free PMC Article
    2. Connecdenn, a novel DENN domain-containing protein of neuronal clathrin-coated vesicles functioning in synaptic vesicle endocytosis. Allaire PD, et al. J Neurosci, 2006 Dec 20. PMID 17182770, Free PMC Article
    3. The NECAP PHear domain increases clathrin accessory protein binding potential. Ritter B, et al. EMBO J, 2007 Sep 19. PMID 17762867, Free PMC Article
    4. 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
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SH3 domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables guanyl-nucleotide exchange factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphatidylinositol phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-3-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables small GTPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in endocytic recycling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endocytic recycling ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of Rab protein signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within synaptic vesicle endocytosis ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in clathrin-coated vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in clathrin-coated vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in clathrin-coated vesicle membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendrite ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in neuronal cell body ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in presynapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in synapse ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DENN domain-containing protein 1A
    Names
    DENN/MADD domain containing 1A

    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_001191747.1 → NP_001178676.1  DENN domain-containing protein 1A

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      A0A8I6GKQ9
      Related
      ENSRNOP00000025443.5, ENSRNOT00000025443.5
      Conserved Domains (3) summary
      smart00801
      Location:306 → 372
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:96 → 274
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:10 → 92
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    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_086021.1 Reference GRCr8

      Range
      41974502..42461816 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039105292.2 → XP_038961220.1  DENN domain-containing protein 1A isoform X14

      UniProtKB/TrEMBL
      A0A8I6GKQ9
      Conserved Domains (4) summary
      smart00801
      Location:357 → 423
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:147 → 325
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:61 → 143
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      PHA03247
      Location:696 → 1030
      PHA03247; large tegument protein UL36; Provisional

    2. XM_039105287.2 → XP_038961215.1  DENN domain-containing protein 1A isoform X8

      UniProtKB/TrEMBL
      A0A8I5ZKB0
      Related
      ENSRNOP00000077456.1
      Conserved Domains (4) summary
      smart00801
      Location:357 → 423
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:147 → 325
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:61 → 143
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      PHA03247
      Location:739 → 1073
      PHA03247; large tegument protein UL36; Provisional

    3. XM_039105285.2 → XP_038961213.1  DENN domain-containing protein 1A isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZKB0
      Conserved Domains (4) summary
      smart00801
      Location:357 → 423
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:147 → 325
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:61 → 143
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      PHA03247
      Location:758 → 1092
      PHA03247; large tegument protein UL36; Provisional

    4. XM_063283988.1 → XP_063140058.1  DENN domain-containing protein 1A isoform X17

      UniProtKB/TrEMBL
      A0A8I6A7I2, A0A8I6GKQ9

    5. XM_063283984.1 → XP_063140054.1  DENN domain-containing protein 1A isoform X12

      UniProtKB/TrEMBL
      A0A8I5ZKB0

    6. XM_039105281.2 → XP_038961209.1  DENN domain-containing protein 1A isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZKB0
      Conserved Domains (4) summary
      smart00801
      Location:387 → 475
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:177 → 355
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:61 → 173
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      PHA03247
      Location:810 → 1144
      PHA03247; large tegument protein UL36; Provisional

    7. XM_063283977.1 → XP_063140047.1  DENN domain-containing protein 1A isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZKB0

    8. XM_063283985.1 → XP_063140055.1  DENN domain-containing protein 1A isoform X13

      UniProtKB/TrEMBL
      A0A8I5ZKB0

    9. XM_063283986.1 → XP_063140056.1  DENN domain-containing protein 1A isoform X15

      UniProtKB/TrEMBL
      A0A8I5ZKB0

    10. XM_039105289.2 → XP_038961217.1  DENN domain-containing protein 1A isoform X10

      UniProtKB/TrEMBL
      A0A8I5ZKB0
      Conserved Domains (4) summary
      smart00801
      Location:307 → 395
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:97 → 275
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:46 → 93
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      PHA03247
      Location:730 → 1064
      PHA03247; large tegument protein UL36; Provisional

    11. XM_063283980.1 → XP_063140050.1  DENN domain-containing protein 1A isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZKB0

    12. XM_039105290.2 → XP_038961218.1  DENN domain-containing protein 1A isoform X11

      UniProtKB/TrEMBL
      A0A8I5ZKB0
      Conserved Domains (4) summary
      smart00801
      Location:305 → 393
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:95 → 273
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 91
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      PHA03247
      Location:728 → 1062
      PHA03247; large tegument protein UL36; Provisional

    13. XM_063283987.1 → XP_063140057.1  DENN domain-containing protein 1A isoform X16

      UniProtKB/TrEMBL
      A0A8I6GKQ9

    14. XM_063283989.1 → XP_063140059.1  DENN domain-containing protein 1A isoform X18

      UniProtKB/TrEMBL
      A0A8I6GKQ9, F1M241

    15. XM_063283990.1 → XP_063140060.1  DENN domain-containing protein 1A isoform X19

      UniProtKB/TrEMBL
      A6JEU1

    16. XM_063283981.1 → XP_063140051.1  DENN domain-containing protein 1A isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZKB0

    17. XM_063283978.1 → XP_063140048.1  DENN domain-containing protein 1A isoform X3

      UniProtKB/TrEMBL
      A0A8I6GKQ9

    18. XM_063283979.1 → XP_063140049.1  DENN domain-containing protein 1A isoform X5

      UniProtKB/TrEMBL
      A0A8I6GKQ9

    19. XM_063283982.1 → XP_063140052.1  DENN domain-containing protein 1A isoform X9

      UniProtKB/TrEMBL
      A0A8I6GKQ9

    20. XM_063283991.1 → XP_063140061.1  DENN domain-containing protein 1A isoform X19

      UniProtKB/TrEMBL
      A6JEU1

    21. XM_063283992.1 → XP_063140062.1  DENN domain-containing protein 1A isoform X20

      UniProtKB/TrEMBL
      A6JEU1

    22. XM_063283993.1 → XP_063140063.1  DENN domain-containing protein 1A isoform X21

      UniProtKB/TrEMBL
      A6JEU1

    23. XM_063283995.1 → XP_063140065.1  DENN domain-containing protein 1A isoform X23

    24. XM_063283998.1 → XP_063140068.1  DENN domain-containing protein 1A isoform X26

    25. XM_063283994.1 → XP_063140064.1  DENN domain-containing protein 1A isoform X22

    26. XM_063283996.1 → XP_063140066.1  DENN domain-containing protein 1A isoform X24

    27. XM_063283997.1 → XP_063140067.1  DENN domain-containing protein 1A isoform X25

    Nucleotide Protein Strain
    Heading Accession and Version

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