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    rabgef1 RAB guanine nucleotide exchange factor (GEF) 1 [ Danio rerio (zebrafish) ]

    Gene ID: 393816, updated on 12-Sep-2024

    Summary

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    Official Symbol
    rabgef1provided by ZNC
    Official Full Name
    RAB guanine nucleotide exchange factor (GEF) 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1486
    See related
    Ensembl:ENSDARG00000014430 AllianceGenome:ZFIN:ZDB-GENE-040426-1486
    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:65944
    Summary
    Predicted to enable DNA binding activity and zinc ion binding activity. Orthologous to human RABGEF1 (RAB guanine nucleotide exchange factor 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See rabgef1 in Genome Data Viewer
    Location:
    chromosome: 10
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (32856929..32880282, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (32913069..32936477, complement)

    Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene protein phosphatase, Mg2+/Mn2+ dependent, 1E Neighboring gene tripartite motif containing 37 Neighboring gene dnaJ homolog subfamily C member 30, mitochondrial Neighboring gene potassium channel tetramerization domain containing 7

    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. Decrease in levels of the evolutionarily conserved microRNA miR-124 affects oligodendrocyte numbers in Zebrafish, Danio rerio. Morris JK, et al. Invert Neurosci, 2015 Sep. PMID 26159098
    2. A reverse genetic screen in the zebrafish identifies crb2b as a regulator of the glomerular filtration barrier. Ebarasi L, et al. Dev Biol, 2009 Oct 1. PMID 19393641
    3. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC65944, MGC173958

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    enables small GTPase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in endocytic vesicle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    rab5 GDP/GTP exchange factor

    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_200843.1 → NP_957137.1  rab5 GDP/GTP exchange factor

      See identical proteins and their annotated locations for NP_957137.1

      Status: PROVISIONAL

      Source sequence(s)
      BC061953
      UniProtKB/TrEMBL
      A0A8M1PHZ9, Q6P6Y4
      Related
      ENSDARP00000112905.1, ENSDART00000138243.3
      Conserved Domains (2) summary
      pfam01754
      Location:17 → 40
      zf-A20; A20-like zinc finger
      pfam02204
      Location:280 → 380
      VPS9; Vacuolar sorting protein 9 (VPS9) 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_007121.7 Reference GRCz11 Primary Assembly

      Range
      32856929..32880282 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005172645.4 → XP_005172702.1  rab5 GDP/GTP exchange factor isoform X5

      UniProtKB/TrEMBL
      A0A8M2BJU6
      Conserved Domains (2) summary
      pfam01754
      Location:17 → 40
      zf-A20; A20-like zinc finger
      pfam02204
      Location:279 → 379
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    2. XM_009305366.3 → XP_009303641.1  rab5 GDP/GTP exchange factor isoform X4

      UniProtKB/TrEMBL
      A0A8M3B3A9
      Conserved Domains (2) summary
      pfam01754
      Location:17 → 40
      zf-A20; A20-like zinc finger
      pfam02204
      Location:287 → 387
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    3. XM_009305364.3 → XP_009303639.1  rab5 GDP/GTP exchange factor isoform X3

      UniProtKB/TrEMBL
      A0A8M3AWS7
      Conserved Domains (2) summary
      pfam01754
      Location:17 → 40
      zf-A20; A20-like zinc finger
      pfam02204
      Location:325 → 425
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    4. XM_009305363.3 → XP_009303638.1  rab5 GDP/GTP exchange factor isoform X2

      UniProtKB/TrEMBL
      A0A8M3BD17
      Conserved Domains (2) summary
      pfam01754
      Location:17 → 40
      zf-A20; A20-like zinc finger
      pfam02204
      Location:331 → 431
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    5. XM_009305362.3 → XP_009303637.1  rab5 GDP/GTP exchange factor isoform X1

      UniProtKB/TrEMBL
      A0A8M3AWV2
      Conserved Domains (2) summary
      pfam01754
      Location:17 → 40
      zf-A20; A20-like zinc finger
      pfam02204
      Location:332 → 432
      VPS9; Vacuolar sorting protein 9 (VPS9) domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001111191.1: Suppressed sequence

      Description
      NM_001111191.1: This RefSeq was temporarily suppressed because currently there is not sufficient data to support this transcript.
    Nucleotide Protein Strain
    Heading Accession and Version

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