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Dennd4a DENN domain containing 4A [ Mus musculus (house mouse) ]

Gene ID: 102442, updated on 5-Mar-2024

Summary

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Official Symbol
Dennd4aprovided by MGI
Official Full Name
DENN domain containing 4Aprovided by MGI
Primary source
MGI:MGI:2142979
See related
Ensembl:ENSMUSG00000053641 AllianceGenome:MGI:2142979
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
Also known as
F730015K02Rik
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. Is expressed in liver left lobe and liver right lobe. Orthologous to human DENND4A (DENN domain containing 4A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in liver E14 (RPKM 9.5), liver E14.5 (RPKM 9.1) and 24 other tissues See more
Orthologs
human all
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Genomic context

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Location:
9 C; 9 34.93 cM
Exon count:
38
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (64713408..64826949)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (64806124..64919667)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E2294 Neighboring gene nuclear encoded tRNA glutamine 9 (anticodon CTG) Neighboring gene STARR-positive B cell enhancer mm9_chr9:64616787-64617087 Neighboring gene CapStarr-seq enhancer MGSCv37_chr9:64627530-64627713 Neighboring gene predicted gene, 36365 Neighboring gene STARR-positive B cell enhancer ABC_E2893 Neighboring gene STARR-positive B cell enhancer ABC_E1116 Neighboring gene predicted gene, 36459 Neighboring gene predicted gene, 24347 Neighboring gene solute carrier family 24 (sodium/potassium/calcium exchanger), member 1 Neighboring gene predicted gene, 39361 Neighboring gene STARR-positive B cell enhancer ABC_E1789 Neighboring gene integrator complex subunit 14 Neighboring gene predicted gene, 25640

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. A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome. Mural RJ, et al. Science, 2002 May 31. PMID 12040188
  2. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  3. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
  4. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

See all (13) citations in PubMed

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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Markers

Homology

Clone Names

  • MGC198792

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
  
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
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_001162917.2 → NP_001156389.1  C-myc promoter-binding protein

    See identical proteins and their annotated locations for NP_001156389.1

    Status: VALIDATED

    Source sequence(s)
    AC140243
    Consensus CDS
    CCDS52834.1
    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    64713408..64826949
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006510743.4 → XP_006510806.1  C-myc promoter-binding protein isoform X1

    See identical proteins and their annotated locations for XP_006510806.1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  2. XM_006510741.4 → XP_006510804.1  C-myc promoter-binding protein isoform X1

    See identical proteins and their annotated locations for XP_006510804.1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  3. XM_006510745.4 → XP_006510808.1  C-myc promoter-binding protein isoform X1

    See identical proteins and their annotated locations for XP_006510808.1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  4. XM_011242654.3 → XP_011240956.1  C-myc promoter-binding protein isoform X2

    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  5. XM_006510744.4 → XP_006510807.1  C-myc promoter-binding protein isoform X1

    See identical proteins and their annotated locations for XP_006510807.1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  6. XM_030243937.2 → XP_030099797.1  C-myc promoter-binding protein isoform X1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  7. XM_011242651.4 → XP_011240953.1  C-myc promoter-binding protein isoform X1

    See identical proteins and their annotated locations for XP_011240953.1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  8. XM_030243938.2 → XP_030099798.1  C-myc promoter-binding protein isoform X1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

  9. XM_006510742.3 → XP_006510805.1  C-myc promoter-binding protein isoform X1

    See identical proteins and their annotated locations for XP_006510805.1

    UniProtKB/TrEMBL
    E9Q8V6
    Conserved Domains (6) 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
    pfam10240
    Location:44 → 207
    DUF2464; Multivesicular body subunit 12
    pfam13041
    Location:809 → 849
    PPR_2; PPR repeat family

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_176935.3: Suppressed sequence

    Description
    NM_176935.3: This RefSeq was temporarily suppressed because the CDS was partial.
Nucleotide Protein Strain
Heading Accession and Version

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