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

Gene ID: 315756, updated on 10-Jul-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 active in cytoplasmic vesicle. Orthologous to human DENND4A (DENN domain containing 4A). [provided by Alliance of Genome Resources, Apr 2022]
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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