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

    Gene ID: 102442, updated on 9-Dec-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, Dec 2024]
    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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    See Dennd4a in Genome Data Viewer
    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
      Related
      ENSMUSP00000037915.6, ENSMUST00000038890.6
      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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