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arhgef39 Rho guanine nucleotide exchange factor (GEF) 39 [ Danio rerio (zebrafish) ]

Gene ID: 492469, updated on 28-Oct-2024

Summary

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Official Symbol
arhgef39provided by ZNC
Official Full Name
Rho guanine nucleotide exchange factor (GEF) 39provided by ZNC
Primary source
ZFIN:ZDB-GENE-041114-28
See related
Ensembl:ENSDARG00000013476 AllianceGenome:ZFIN:ZDB-GENE-041114-28
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:103517
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in positive regulation of cell migration. Predicted to be active in plasma membrane. Orthologous to human ARHGEF39 (Rho guanine nucleotide exchange factor 39). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
human mouse all
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Genomic context

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See arhgef39 in Genome Data Viewer
Location:
chromosome: 4
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 4 NC_007115.7 (12401211..12477226, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 4 NC_007115.6 (12414354..12478375, complement)

Chromosome 4 - NC_007115.7Genomic Context describing neighboring genes Neighboring gene Pim proto-oncogene, serine/threonine kinase, related 169 Neighboring gene RERG/RAS-like a Neighboring gene uncharacterized LOC103910417 Neighboring gene LIM domain only 3

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. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, Free PMC Article
  2. 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
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

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 IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
rho guanine nucleotide exchange factor 39

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_001007341.2 → NP_001007342.2  rho guanine nucleotide exchange factor 39 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL844512
    UniProtKB/TrEMBL
    A0A8M1N381, B0R089
    Related
    ENSDARP00000012708.7, ENSDART00000027756.9

  2. NM_001328589.1 → NP_001315518.1  rho guanine nucleotide exchange factor 39 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction in the 3' end compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.
    Source sequence(s)
    AL844512
    UniProtKB/TrEMBL
    A0A8M1P453, F1QG07
    Related
    ENSDARP00000109555.1, ENSDART00000127150.3
    Conserved Domains (2) summary
    pfam00621
    Location:31 → 200
    RhoGEF; RhoGEF domain
    cl17171
    Location:203 → 291
    PH-like; Pleckstrin homology-like 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
    12401211..12477226 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068219607.1 → XP_068075708.1  rho guanine nucleotide exchange factor 39 isoform X1

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394553.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    37746..101767 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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