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Dennd4b DENN domain containing 4B [ Mus musculus (house mouse) ]

Gene ID: 229541, updated on 22-Nov-2022

Summary

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Official Symbol
Dennd4bprovided by MGI
Official Full Name
DENN domain containing 4Bprovided by MGI
Primary source
MGI:MGI:2446201
See related
Ensembl:ENSMUSG00000042404 AllianceGenome:MGI:2446201
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in regulation of Rab protein signal transduction. Predicted to be located in Golgi apparatus and nucleoplasm. Predicted to be active in cytoplasmic vesicle. Orthologous to human DENND4B (DENN domain containing 4B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in spleen adult (RPKM 39.3), thymus adult (RPKM 27.8) and 23 other tissues See more
Orthologs
human all
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Genomic context

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See Dennd4b in Genome Data Viewer
Location:
3; 3 F1
Exon count:
30
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (90172262..90187972)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (90265020..90280665)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene cAMP responsive element binding protein 3-like 4 Neighboring gene solute carrier family 39 (zinc transporter), member 1 Neighboring gene CREB regulated transcription coactivator 2 Neighboring gene microRNA 7012 Neighboring gene GATA zinc finger domain containing 2B Neighboring gene solute carrier family 27 (fatty acid transporter), member 3 Neighboring gene integrator complex subunit 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. DENN domain proteins: regulators of Rab GTPases. Marat AL, et al. J Biol Chem, 2011 Apr 22. PMID 21330364, Free PMC Article
  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. Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Feb 28. PMID 12693553
  4. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
  5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

See all (16) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 

General gene information

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Homology

Clone Names

  • mKIAA0476

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables guanyl-nucleotide exchange factor activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in regulation of Rab protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
involved_in regulation of Rab protein signal transduction ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in Golgi apparatus ISO
Inferred from Sequence Orthology
more info
  
is_active_in cytoplasmic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
DENN domain-containing protein 4B
Names
DENN/MADD domain containing 4B
brain specific protein 4
brain-specific gene 4 protein

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_001356483.1 → NP_001343412.1  DENN domain-containing protein 4B isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC119825
    Consensus CDS
    CCDS89660.1
    UniProtKB/Swiss-Prot
    Q8R0E9
    Related
    ENSMUSP00000117354.2, ENSMUST00000129564.8
    Conserved Domains (5) summary
    smart00801
    Location:563 → 636
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    smart00800
    Location:191 → 279
    uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
    sd00004
    Location:813 → 842
    PPR; PPR repeat [structural motif]
    pfam02141
    Location:313 → 497
    DENN; DENN (AEX-3) domain
    pfam13041
    Location:811 → 851
    PPR_2; PPR repeat family

  2. NM_001405414.1 → NP_001392343.1  DENN domain-containing protein 4B isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC119825
    UniProtKB/Swiss-Prot
    Q8R0E9

  3. NM_001405415.1 → NP_001392344.1  DENN domain-containing protein 4B isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC119825

  4. NM_201407.4 → NP_958809.3  DENN domain-containing protein 4B isoform 1

    See identical proteins and their annotated locations for NP_958809.3

    Status: VALIDATED

    Source sequence(s)
    AC119825, AK155638, BC066102
    Consensus CDS
    CCDS38502.2
    UniProtKB/Swiss-Prot
    Q3U1Y4
    UniProtKB/TrEMBL
    A0A0R4J172
    Related
    ENSMUSP00000096514.4, ENSMUST00000098914.10
    Conserved Domains (5) summary
    smart00801
    Location:574 → 647
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    smart00800
    Location:202 → 290
    uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
    sd00004
    Location:824 → 853
    PPR; PPR repeat [structural motif]
    pfam02141
    Location:324 → 508
    DENN; DENN (AEX-3) domain
    pfam13041
    Location:822 → 862
    PPR_2; PPR repeat family

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000069.7 Reference GRCm39 C57BL/6J

    Range
    90172262..90187972
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501355.5 → XP_006501418.1  DENN domain-containing protein 4B isoform X2

    UniProtKB/Swiss-Prot
    Q3U1Y4
    Conserved Domains (5) summary
    smart00801
    Location:563 → 636
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    smart00800
    Location:191 → 279
    uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
    sd00004
    Location:813 → 842
    PPR; PPR repeat [structural motif]
    pfam02141
    Location:313 → 497
    DENN; DENN (AEX-3) domain
    pfam13041
    Location:811 → 851
    PPR_2; PPR repeat family

  2. XM_036163053.1 → XP_036018946.1  DENN domain-containing protein 4B isoform X3

    Conserved Domains (4) summary
    smart00801
    Location:189 → 262
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    sd00004
    Location:439 → 468
    PPR; PPR repeat [structural motif]
    pfam02141
    Location:1 → 123
    DENN; DENN (AEX-3) domain
    pfam13041
    Location:437 → 477
    PPR_2; PPR repeat family

  3. XM_017319543.2 → XP_017175032.1  DENN domain-containing protein 4B isoform X1

    Conserved Domains (5) summary
    smart00801
    Location:588 → 661
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    smart00800
    Location:216 → 304
    uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
    sd00004
    Location:838 → 867
    PPR; PPR repeat [structural motif]
    pfam02141
    Location:338 → 522
    DENN; DENN (AEX-3) domain
    pfam13041
    Location:836 → 876
    PPR_2; PPR repeat family

  4. XM_036163054.1 → XP_036018947.1  DENN domain-containing protein 4B isoform X4

    Conserved Domains (3) summary
    smart00801
    Location:1 → 63
    dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
    sd00004
    Location:240 → 269
    PPR; PPR repeat [structural motif]
    pfam13041
    Location:238 → 278
    PPR_2; PPR repeat family

RNA

  1. XR_375516.4 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q3U1Y4.2 GenPept UniProtKB/Swiss-Prot:Q3U1Y4

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