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rapgef3 Rap guanine nucleotide exchange factor (GEF) 3 [ Danio rerio (zebrafish) ]

Gene ID: 101886094, updated on 28-Oct-2024

Summary

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Official Symbol
rapgef3provided by ZNC
Official Full Name
Rap guanine nucleotide exchange factor (GEF) 3provided by ZNC
Primary source
ZFIN:ZDB-GENE-090312-38
See related
Ensembl:ENSDARG00000079291 AllianceGenome:ZFIN:ZDB-GENE-090312-38
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:dkey-27m20.2
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in Ras protein signal transduction. Predicted to act upstream of or within small GTPase-mediated signal transduction. Predicted to be active in plasma membrane. Is expressed in neuromast. Orthologous to human RAPGEF3 (Rap guanine nucleotide exchange factor 3). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
all
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Genomic context

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See rapgef3 in Genome Data Viewer
Location:
chromosome: 23
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (33367842..33446124)
105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (33441347..33519592)

Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene si:ch211-226m16.2 Neighboring gene solute carrier family 48 member 1a Neighboring gene uncharacterized LOC137489139 Neighboring gene integrin, alpha 5 (fibronectin receptor, alpha polypeptide) Neighboring gene uncharacterized LOC137489140

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. The guanine nucleotide exchange factor Net1 facilitates the specification of dorsal cell fates in zebrafish embryos by promoting maternal β-catenin activation. Wei S, et al. Cell Res, 2017 Feb. PMID 27910850, Free PMC Article
  2. Deconvoluting Wavelengths Leading to Fluorescent Light Induced Inflammation and Cellular Stress in Zebrafish (Danio rerio). Boswell M, et al. Sci Rep, 2020 Feb 24. PMID 32094353, Free PMC Article
  3. Gene-expression analysis of hair cell regeneration in the zebrafish lateral line. Jiang L, et al. Proc Natl Acad Sci U S A, 2014 Apr 8. PMID 24706903, Free PMC Article
  4. Global analysis of the haematopoietic and endothelial transcriptome during zebrafish development. Cannon JE, et al. Mech Dev, 2013 Feb. PMID 23072875, Free PMC Article
  5. Temporal pattern of loss/persistence of duplicate genes involved in signal transduction and metabolic pathways after teleost-specific genome duplication. Sato Y, et al. BMC Evol Biol, 2009 Jun 5. PMID 19500364, Free PMC Article

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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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
  
Process Evidence Code Pubs
involved_in Ras protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within intracellular signal transduction IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within small GTPase-mediated signal transduction IEA
Inferred from Electronic Annotation
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
rap guanine nucleotide exchange factor 3

NCBI Reference Sequences (RefSeq)

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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_007134.7 Reference GRCz11 Primary Assembly

    Range
    33367842..33446124
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009297025.4 → XP_009295300.1  rap guanine nucleotide exchange factor 3 isoform X4

    UniProtKB/TrEMBL
    A0A8M3ANW0
    Conserved Domains (5) summary
    smart00147
    Location:591 → 855
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:324 → 456
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:212 → 292
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:193 → 302
    CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
    cd04437
    Location:42 → 169
    DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

  2. XM_005162353.5 → XP_005162410.1  rap guanine nucleotide exchange factor 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B9K2
    Conserved Domains (5) summary
    smart00147
    Location:620 → 884
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:353 → 485
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:241 → 321
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:222 → 331
    CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
    cd04437
    Location:71 → 198
    DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

  3. XM_009297024.4 → XP_009295299.1  rap guanine nucleotide exchange factor 3 isoform X3

    UniProtKB/TrEMBL
    A0A8M3B6B9
    Conserved Domains (5) summary
    smart00147
    Location:620 → 860
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:353 → 485
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:241 → 321
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:222 → 331
    CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
    cd04437
    Location:71 → 198
    DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

  4. XM_009297023.4 → XP_009295298.1  rap guanine nucleotide exchange factor 3 isoform X2

    UniProtKB/TrEMBL
    A0A8M3AN61, E7FDC9
    Related
    ENSDARP00000098662.3, ENSDART00000114423.5
    Conserved Domains (5) summary
    smart00147
    Location:602 → 866
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:335 → 467
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:223 → 303
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:204 → 313
    CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
    cd04437
    Location:53 → 180
    DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...
Nucleotide Protein Strain
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