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Rapgef6 Rap guanine nucleotide exchange factor 6 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303141, updated on 9-Dec-2024

Summary

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Official Symbol
Rapgef6provided by RGD
Official Full Name
Rap guanine nucleotide exchange factor 6provided by RGD
Primary source
RGD:1307645
See related
EnsemblRapid:ENSRNOG00000009995 AllianceGenome:RGD:1307645
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable several functions, including GTP-dependent protein binding activity; guanyl-nucleotide exchange factor activity; and phosphatidic acid binding activity. Predicted to be involved in several processes, including Ras protein signal transduction; microvillus assembly; and positive regulation of GTPase activity. Predicted to be located in centrosome and cytosol. Predicted to be active in apical plasma membrane and endocytic vesicle. Orthologous to human RAPGEF6 (Rap guanine nucleotide exchange factor 6). [provided by Alliance of Genome Resources, Dec 2024]
Expression
Biased expression in Thymus (RPKM 243.6), Spleen (RPKM 199.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Rapgef6 in Genome Data Viewer
Location:
10q22
Exon count:
33
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (39156573..39324947)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (38655854..38824227)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (39875322..40039929)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene meiotic kinetochore factor Neighboring gene U6 spliceosomal RNA Neighboring gene folliculin interacting protein 1 Neighboring gene uncharacterized LOC134480793 Neighboring gene CDC42 small effector 2 Neighboring gene uncharacterized LOC120095101

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Identification and characterization of RA-GEF-2, a Rap guanine nucleotide exchange factor that serves as a downstream target of M-Ras. Gao X, et al. J Biol Chem, 2001 Nov 9. PMID 11524421
  2. JAM-A associates with ZO-2, afadin, and PDZ-GEF1 to activate Rap2c and regulate epithelial barrier function. Monteiro AC, et al. Mol Biol Cell, 2013 Sep. PMID 23885123, Free PMC Article
  3. Rap2A links intestinal cell polarity to brush border formation. Gloerich M, et al. Nat Cell Biol, 2012 Aug. PMID 22797597
  4. 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
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables GTP-dependent protein binding ISO
Inferred from Sequence Orthology
more info
  
enables guanyl-nucleotide exchange factor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables guanyl-nucleotide exchange factor activity ISO
Inferred from Sequence Orthology
more info
  
enables phosphatidic acid binding ISO
Inferred from Sequence Orthology
more info
  
enables small GTPase binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in Ras protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
NOT involved_in establishment of endothelial intestinal barrier ISO
Inferred from Sequence Orthology
more info
  
involved_in microvillus assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of GTPase activity ISO
Inferred from Sequence Orthology
more info
  
involved_in protein localization to plasma membrane ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in apical plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in apical plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
is_active_in endocytic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endocytic vesicle ISO
Inferred from Sequence Orthology
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
rap guanine nucleotide exchange factor 6
Names
Rap guanine nucleotide exchange factor (GEF) 6

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_001107003.1 → NP_001100473.1  rap guanine nucleotide exchange factor 6

    See identical proteins and their annotated locations for NP_001100473.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473948
    UniProtKB/TrEMBL
    A0A8I5YCN5, A6HEI1
    Conserved Domains (7) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:274 → 448
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:857 → 1067
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl00047
    Location:37 → 82
    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 ...
    cl00155
    Location:749 → 833
    UBQ; Ubiquitin-like proteins

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    39156573..39324947
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017597259.3 → XP_017452748.1  rap guanine nucleotide exchange factor 6 isoform X1

    UniProtKB/TrEMBL
    A0A8I5YCN5

  2. XM_006246279.4 → XP_006246341.1  rap guanine nucleotide exchange factor 6 isoform X5

    UniProtKB/TrEMBL
    A0A8I5YCN5
    Related
    ENSRNOP00000096908.2, ENSRNOT00000109709.2
    Conserved Domains (7) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:274 → 448
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:862 → 1086
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl00047
    Location:37 → 82
    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 ...
    cl00155
    Location:754 → 838
    UBQ; Ubiquitin-like proteins

  3. XM_006246278.4 → XP_006246340.1  rap guanine nucleotide exchange factor 6 isoform X3

    UniProtKB/TrEMBL
    A0A8I5YCN5, D3ZTL8
    Related
    ENSRNOP00000090336.2, ENSRNOT00000099767.2
    Conserved Domains (7) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:274 → 448
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:862 → 1072
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl00047
    Location:37 → 82
    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 ...
    cl00155
    Location:754 → 838
    UBQ; Ubiquitin-like proteins

  4. XM_063268981.1 → XP_063125051.1  rap guanine nucleotide exchange factor 6 isoform X7

    UniProtKB/TrEMBL
    A0A8I5YCN5

  5. XM_006246277.5 → XP_006246339.1  rap guanine nucleotide exchange factor 6 isoform X2

    UniProtKB/TrEMBL
    A0A8I5YCN5, A0A8I6GLT7
    Related
    ENSRNOP00000090946.2, ENSRNOT00000110844.2
    Conserved Domains (7) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:274 → 448
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:857 → 1081
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl00047
    Location:37 → 82
    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 ...
    cl00155
    Location:749 → 833
    UBQ; Ubiquitin-like proteins

  6. XM_006246280.4 → XP_006246342.1  rap guanine nucleotide exchange factor 6 isoform X6

    UniProtKB/TrEMBL
    A0A8I5YCN5
    Conserved Domains (7) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    COG0664
    Location:274 → 448
    Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:857 → 1081
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cl00047
    Location:37 → 82
    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 ...
    cl00155
    Location:749 → 833
    UBQ; Ubiquitin-like proteins

  7. XM_039085934.2 → XP_038941862.1  rap guanine nucleotide exchange factor 6 isoform X11

    Related
    ENSRNOP00000078181.2, ENSRNOT00000102938.2
    Conserved Domains (6) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:862 → 1086
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cd01785
    Location:756 → 838
    RA_PDZ-GEF1; Ras-associating (RA) domain found in PDZ domain-containing guanine nucleotide exchange factor 1 (PDZ-GEF1) and similar proteins
    cl00047
    Location:37 → 82
    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 ...

  8. XM_039085935.2 → XP_038941863.1  rap guanine nucleotide exchange factor 6 isoform X12

    Conserved Domains (6) summary
    smart00229
    Location:412 → 525
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    cd00038
    Location:280 → 380
    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 ...
    cd00155
    Location:857 → 1067
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:529 → 609
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cd01785
    Location:751 → 833
    RA_PDZ-GEF1; Ras-associating (RA) domain found in PDZ domain-containing guanine nucleotide exchange factor 1 (PDZ-GEF1) and similar proteins
    cl00047
    Location:37 → 82
    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 ...

  9. XM_017597260.2 → XP_017452749.1  rap guanine nucleotide exchange factor 6 isoform X4

    UniProtKB/TrEMBL
    A0A8I6AM01
    Related
    ENSRNOP00000094611.1, ENSRNOT00000113485.2

  10. XM_017597262.3 → XP_017452751.1  rap guanine nucleotide exchange factor 6 isoform X10

    UniProtKB/TrEMBL
    A0A8I5ZU25

  11. XM_017597261.3 → XP_017452750.1  rap guanine nucleotide exchange factor 6 isoform X8

    UniProtKB/TrEMBL
    A0A8I5ZU25

  12. XM_039085933.2 → XP_038941861.1  rap guanine nucleotide exchange factor 6 isoform X9

    UniProtKB/TrEMBL
    A0A8I5ZU25
    Conserved Domains (5) summary
    smart00229
    Location:265 → 378
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    cd00038
    Location:133 → 233
    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 ...
    cd00155
    Location:710 → 934
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases. Small GTP-binding proteins of the Ras superfamily function as molecular switches in fundamental events such as signal transduction, cytoskeleton dynamics and intracellular trafficking. ...
    cd00992
    Location:382 → 462
    PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
    cd01785
    Location:604 → 686
    RA_PDZ-GEF1; Ras-associating (RA) domain found in PDZ domain-containing guanine nucleotide exchange factor 1 (PDZ-GEF1) and similar proteins

RNA

  1. XR_001840077.3 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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