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    Dennd4b DENN domain containing 4B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361987, updated on 27-Nov-2024

    Summary

    Official Symbol
    Dennd4bprovided by RGD
    Official Full Name
    DENN domain containing 4Bprovided by RGD
    Primary source
    RGD:1560320
    See related
    EnsemblRapid:ENSRNOG00000022373 AllianceGenome:RGD:1560320
    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
    RGD1560320
    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, Nov 2024]
    Expression
    Biased expression in Spleen (RPKM 131.4), Muscle (RPKM 86.7) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Dennd4b in Genome Data Viewer
    Location:
    2q34
    Exon count:
    31
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (178018095..178034054)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (175720473..175736425)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (189626922..189642732)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene solute carrier family 39 member 1 Neighboring gene CREB regulated transcription coactivator 2 Neighboring gene uncharacterized LOC102551157 Neighboring gene GATA zinc finger domain containing 2B Neighboring gene solute carrier family 27 member 3

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    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
     
    involved_in regulation of Rab protein signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
     
    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
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    DENN domain-containing protein 4B
    Names
    DENN/MADD domain containing 4B

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001427227.1NP_001414156.1  DENN domain-containing protein 4B isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      A0A8I6AH06
      Related
      ENSRNOP00000092125.1, ENSRNOT00000098375.2
    2. NM_001427228.1NP_001414157.1  DENN domain-containing protein 4B isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      F1LTT7
      Related
      ENSRNOP00000048545.5, ENSRNOT00000049810.7

    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_086020.1 Reference GRCr8

      Range
      178018095..178034054
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039103984.2XP_038959912.1  DENN domain-containing protein 4B isoform X2

      Conserved Domains (5) summary
      smart00801
      Location:563636
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:198279
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:813842
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:313497
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:811851
      PPR_2; PPR repeat family
    2. XM_039103985.2XP_038959913.1  DENN domain-containing protein 4B isoform X3

      Conserved Domains (5) summary
      smart00801
      Location:524597
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:159240
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:774803
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:274458
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:772812
      PPR_2; PPR repeat family
    3. XM_008761248.4XP_008759470.1  DENN domain-containing protein 4B isoform X1

      Conserved Domains (5) summary
      smart00801
      Location:574647
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:209290
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:824853
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:324508
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:822862
      PPR_2; PPR repeat family
    4. XM_039103986.2XP_038959914.1  DENN domain-containing protein 4B isoform X3

      Conserved Domains (5) summary
      smart00801
      Location:524597
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:159240
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:774803
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:274458
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:772812
      PPR_2; PPR repeat family
    5. XM_039103988.2XP_038959916.1  DENN domain-containing protein 4B isoform X4

      Conserved Domains (4) summary
      smart00801
      Location:189262
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:439468
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:1123
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:437477
      PPR_2; PPR repeat family
    6. XM_039103989.2XP_038959917.1  DENN domain-containing protein 4B isoform X4

      Conserved Domains (4) summary
      smart00801
      Location:189262
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:439468
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:1123
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:437477
      PPR_2; PPR repeat family
    7. XM_039103987.2XP_038959915.1  DENN domain-containing protein 4B isoform X4

      Conserved Domains (4) summary
      smart00801
      Location:189262
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      sd00004
      Location:439468
      PPR; PPR repeat [structural motif]
      pfam02141
      Location:1123
      DENN; DENN (AEX-3) domain
      pfam13041
      Location:437477
      PPR_2; PPR repeat family