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

Gene ID: 323528, updated on 2-Nov-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, Nov 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 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

  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

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

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

    UniProtKB/Swiss-Prot
    Q5RJ77, Q6NXD8
    UniProtKB/TrEMBL
    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

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