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

Gene ID: 393816, updated on 4-Jan-2025

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; guanyl-nucleotide exchange factor activity; and zinc ion binding activity. Predicted to act upstream of or within vesicle-mediated transport. Orthologous to human RABGEF1 (RAB guanine nucleotide exchange factor 1). [provided by Alliance of Genome Resources, Jan 2025]
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
  • 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 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 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
  

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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