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    dennd5b DENN/MADD domain containing 5B [ Danio rerio (zebrafish) ]

    Gene ID: 323528, updated on 9-Dec-2024

    Summary

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    Official Symbol
    dennd5bprovided by ZNC
    Official Full Name
    DENN/MADD domain containing 5Bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-2248
    See related
    Ensembl:ENSDARG00000003789 AllianceGenome:ZFIN:ZDB-GENE-030131-2248
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:77218; id:ibd5082; wu:fc01g04
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity and small GTPase binding activity. Predicted to be located in membrane. Is expressed in neural plate and tail bud. Orthologous to human DENND5B (DENN domain containing 5B). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See dennd5b in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 4 NC_007115.7 (16649542..16707007, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 4 NC_007115.6 (16660566..16718082, complement)

    Chromosome 4 - NC_007115.7Genomic Context describing neighboring genes Neighboring gene caprin family member 2 Neighboring gene SIN3-HDAC complex associated factor Neighboring gene plakophilin 2 Neighboring gene t-complex 11, testis-specific-like 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Nuclear Organization during Hepatogenesis in Zebrafish Requires Uhrf1. Madakashira BP, et al. Genes (Basel), 2021 Jul 16. PMID 34356097, Free PMC Article
    2. Brain Proteome and Behavioural Analysis in Wild Type, BDNF(+/-) and BDNF(-/-) Adult Zebrafish (Danio rerio) Exposed to Two Different Temperatures. Maffioli E, et al. Int J Mol Sci, 2022 May 17. PMID 35628418, Free PMC Article
    3. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
    4. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables guanyl-nucleotide exchange factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables guanyl-nucleotide exchange factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables small GTPase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables small GTPase binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    DENN domain-containing protein 5B
    Names
    RAB6IP1-like 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_212644.1 → NP_997809.1  DENN domain-containing protein 5B

      See identical proteins and their annotated locations for NP_997809.1

      Status: PROVISIONAL

      Source sequence(s)
      BC067136
      UniProtKB/Swiss-Prot
      Q5RJ77, Q6NXD8
      Related
      ENSDARP00000032722.4, ENSDART00000033053.6
      Conserved Domains (6) summary
      smart00801
      Location:537 → 612
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:12 → 134
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      cd01757
      Location:973 → 1081
      PLAT_RAB6IP1; PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed ...
      pfam02141
      Location:213 → 401
      DENN; DENN (AEX-3) domain
      pfam02759
      Location:1164 → 1305
      RUN; RUN domain
      cl02689
      Location:817 → 961
      RUN; RUN domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007115.7 Reference GRCz11 Primary Assembly

      Range
      16649542..16707007 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068219521.1 → XP_068075622.1  DENN domain-containing protein 5B isoform X3

      UniProtKB/TrEMBL
      A0A8M2BC03

    2. XM_005164711.5 → XP_005164768.1  DENN domain-containing protein 5B isoform X4

      UniProtKB/Swiss-Prot
      Q5RJ77, Q6NXD8
      UniProtKB/TrEMBL
      A0A8M2BBV9, F1QQ55
      Related
      ENSDARP00000073917.4, ENSDART00000079461.7
      Conserved Domains (6) summary
      smart00801
      Location:537 → 612
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:12 → 134
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      cd01757
      Location:973 → 1095
      PLAT_RAB6IP1; PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed ...
      pfam02141
      Location:213 → 401
      DENN; DENN (AEX-3) domain
      pfam02759
      Location:1178 → 1319
      RUN; RUN domain
      cl02689
      Location:817 → 961
      RUN; RUN domain

    3. XM_068219520.1 → XP_068075621.1  DENN domain-containing protein 5B isoform X2

      UniProtKB/Swiss-Prot
      Q5RJ77, Q6NXD8

    4. XM_068219519.1 → XP_068075620.1  DENN domain-containing protein 5B isoform X1

      UniProtKB/Swiss-Prot
      Q5RJ77, Q6NXD8

    5. XM_009300252.4 → XP_009298527.1  DENN domain-containing protein 5B isoform X5

      UniProtKB/TrEMBL
      A0A8M2BC03, A0A8M3B1P5, Z4YIY0
      Related
      ENSDARP00000119547.1, ENSDART00000140510.3
      Conserved Domains (6) summary
      smart00801
      Location:517 → 592
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00800
      Location:12 → 114
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins
      cd01757
      Location:953 → 1061
      PLAT_RAB6IP1; PLAT/LH2 domain present in RAB6 interacting protein 1 (Rab6IP1)_like family. PLAT/LH2 domains consists of an eight stranded beta-barrel. In RabIP1 this domain may participate in lipid-mediated modulation of Rab6IP1's function via it's generally proposed ...
      pfam02141
      Location:193 → 381
      DENN; DENN (AEX-3) domain
      pfam02759
      Location:1144 → 1285
      RUN; RUN domain
      cl02689
      Location:797 → 941
      RUN; RUN domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6NXD8.2 GenPept UniProtKB/Swiss-Prot:Q6NXD8

    Gene LinkOut

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