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Rapgef1 Rap guanine nucleotide exchange factor 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 63881, updated on 9-Dec-2024

Summary

Official Symbol
Rapgef1provided by RGD
Official Full Name
Rap guanine nucleotide exchange factor 1provided by RGD
Primary source
RGD:619793
See related
EnsemblRapid:ENSRNOG00000014316 AllianceGenome:RGD:619793
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
C3g; Grf2; C3G-1; C3G-2
Summary
Predicted to enable guanyl-nucleotide exchange factor activity. Involved in positive regulation of Fc receptor mediated stimulatory signaling pathway; positive regulation of cellular component organization; and regulation of MAPK cascade. Located in perinuclear region of cytoplasm and phagocytic vesicle membrane. Part of protein-containing complex. Biomarker of anti-basement membrane glomerulonephritis and mesangial proliferative glomerulonephritis. Orthologous to human RAPGEF1 (Rap guanine nucleotide exchange factor 1). [provided by Alliance of Genome Resources, Dec 2024]
Expression
Biased expression in Lung (RPKM 102.4), Heart (RPKM 94.2) and 9 other tissues See more
Orthologs
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Genomic context

See Rapgef1 in Genome Data Viewer
Location:
3p12
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (33296211..33414119)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (12898349..13016234)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (8189594..8307077)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene netrin G2 Neighboring gene mediator complex subunit 27 Neighboring gene uncharacterized LOC134486065 Neighboring gene uncharacterized LOC134486064 Neighboring gene golgin A2 like 1 Neighboring gene proline rich transmembrane protein 1B

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

General gene information

Gene Ontology Provided by RGD

Items 1 - 25 of 28
Process Evidence Code Pubs
acts_upstream_of ERK1 and ERK2 cascade  
involved_in Rap protein signal transduction  
involved_in Ras protein signal transduction  
acts_upstream_of Ras protein signal transduction  
acts_upstream_of_or_within activation of GTPase activity  
acts_upstream_of_or_within blood vessel development  
acts_upstream_of canonical Wnt signaling pathway  
acts_upstream_of_or_within cell-cell adhesion  
involved_in cellular response to cAMP  
involved_in cellular response to nerve growth factor stimulus  
involved_in establishment of endothelial barrier  
acts_upstream_of_or_within negative regulation of ERK1 and ERK2 cascade  
acts_upstream_of_or_within negative regulation of Ras protein signal transduction  
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway  
acts_upstream_of_or_within negative regulation of neural precursor cell proliferation  
acts_upstream_of_or_within negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
involved_in nerve growth factor signaling pathway  
acts_upstream_of neural precursor cell proliferation  
acts_upstream_of phosphatidylinositol 3-kinase/protein kinase B signal transduction  
acts_upstream_of_or_within platelet-derived growth factor receptor signaling pathway  
involved_in positive regulation of ERK1 and ERK2 cascade PubMed 
involved_in positive regulation of Fc receptor mediated stimulatory signaling pathway PubMed 
involved_in positive regulation of GTPase activity  
involved_in positive regulation of neuron projection development PubMed 
involved_in positive regulation of neuron projection development  
involved_in positive regulation of phagocytosis PubMed 
involved_in regulation of JNK cascade PubMed 
involved_in regulation of cell junction assembly  
Items 1 - 25 of 28
Component Evidence Code Pubs
located_in cytoplasm  
located_in early endosome  
located_in intracellular membrane-bounded organelle  
located_in perinuclear region of cytoplasm PubMed 
located_in phagocytic vesicle membrane PubMed 
is_active_in plasma membrane  
part_of protein-containing complex PubMed 

General protein information

Preferred Names
rap guanine nucleotide exchange factor 1
Names
Rap guanine nucleotide exchange factor (GEF) 1

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_001427397.1NP_001414326.1  rap guanine nucleotide exchange factor 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/TrEMBL
    A0A8I6A6H6
    Related
    ENSRNOP00000088594.1, ENSRNOT00000108449.2

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_086021.1 Reference GRCr8

    Range
    33296211..33414119
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039106160.2XP_038962088.1  rap guanine nucleotide exchange factor 1 isoform X5

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:10151244
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8671008
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:217338
    PHA03247; large tegument protein UL36; Provisional
  2. XM_063284486.1XP_063140556.1  rap guanine nucleotide exchange factor 1 isoform X8

    UniProtKB/TrEMBL
    F1M8L9
    Related
    ENSRNOP00000102988.1, ENSRNOT00000161849.1
  3. XM_063284494.1XP_063140564.1  rap guanine nucleotide exchange factor 1 isoform X27

    UniProtKB/TrEMBL
    A0A8I5ZQV4
    Related
    ENSRNOP00000081072.1, ENSRNOT00000093970.2
  4. XM_039106164.2XP_038962092.1  rap guanine nucleotide exchange factor 1 isoform X12

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:9771206
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:829970
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:179300
    PHA03247; large tegument protein UL36; Provisional
  5. XM_063284487.1XP_063140557.1  rap guanine nucleotide exchange factor 1 isoform X15

    UniProtKB/TrEMBL
    F1M8L9
  6. XM_063284489.1XP_063140559.1  rap guanine nucleotide exchange factor 1 isoform X18

    UniProtKB/TrEMBL
    A0A8I6A6H6
    Related
    ENSRNOP00000082703.2, ENSRNOT00000095571.2
  7. XM_063284488.1XP_063140558.1  rap guanine nucleotide exchange factor 1 isoform X16

    UniProtKB/TrEMBL
    F1M8L9
  8. XM_063284495.1XP_063140565.1  rap guanine nucleotide exchange factor 1 isoform X29

    UniProtKB/TrEMBL
    A0A8I5ZUL6
  9. XM_039106157.2XP_038962085.1  rap guanine nucleotide exchange factor 1 isoform X1

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:10281257
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8801021
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230351
    PHA03247; large tegument protein UL36; Provisional
  10. XM_039106162.2XP_038962090.1  rap guanine nucleotide exchange factor 1 isoform X9

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:9961225
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:848989
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230802
    PHA03247; large tegument protein UL36; Provisional
  11. XM_039106167.2XP_038962095.1  rap guanine nucleotide exchange factor 1 isoform X19

    UniProtKB/TrEMBL
    A0A8I5ZQV4
    Conserved Domains (3) summary
    smart00147
    Location:9101139
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:762903
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230351
    PHA03247; large tegument protein UL36; Provisional
  12. XM_039106158.2XP_038962086.1  rap guanine nucleotide exchange factor 1 isoform X2

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:10271256
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8791020
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230351
    PHA03247; large tegument protein UL36; Provisional
  13. XM_063284490.1XP_063140560.1  rap guanine nucleotide exchange factor 1 isoform X20

    UniProtKB/TrEMBL
    A0A8I5ZQV4
  14. XM_039106165.2XP_038962093.1  rap guanine nucleotide exchange factor 1 isoform X13

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:9761205
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:828969
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230351
    PHA03247; large tegument protein UL36; Provisional
  15. XM_063284491.1XP_063140561.1  rap guanine nucleotide exchange factor 1 isoform X22

    UniProtKB/TrEMBL
    A0A8I5ZQV4
  16. XM_039106168.2XP_038962096.1  rap guanine nucleotide exchange factor 1 isoform X23

    UniProtKB/TrEMBL
    A0A8I5ZRV1
    Conserved Domains (3) summary
    smart00147
    Location:8581087
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:710851
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230351
    PHA03247; large tegument protein UL36; Provisional
  17. XM_039106159.2XP_038962087.1  rap guanine nucleotide exchange factor 1 isoform X4

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:10191248
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8711012
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230342
    PHA03247; large tegument protein UL36; Provisional
  18. XM_063284492.1XP_063140562.1  rap guanine nucleotide exchange factor 1 isoform X24

    UniProtKB/TrEMBL
    A0A8I5ZRV1
  19. XM_017592102.3XP_017447591.1  rap guanine nucleotide exchange factor 1 isoform X3

    UniProtKB/TrEMBL
    F1M8L9
  20. XM_008761683.4XP_008759905.2  rap guanine nucleotide exchange factor 1 isoform X6

    UniProtKB/TrEMBL
    F1M8L9
  21. XM_008761684.4XP_008759906.2  rap guanine nucleotide exchange factor 1 isoform X11

    UniProtKB/TrEMBL
    F1M8L9
  22. XM_039106161.2XP_038962089.1  rap guanine nucleotide exchange factor 1 isoform X7

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:10121241
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8641005
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PRK14950
    Location:219321
    PRK14950; DNA polymerase III subunits gamma and tau; Provisional
  23. XM_017592108.3XP_017447597.1  rap guanine nucleotide exchange factor 1 isoform X21

    UniProtKB/TrEMBL
    A0A8I5ZQV4
  24. XM_006233902.5XP_006233964.1  rap guanine nucleotide exchange factor 1 isoform X25

    See identical proteins and their annotated locations for XP_006233964.1

    UniProtKB/TrEMBL
    A0A8I5ZRV1
    Related
    ENSRNOP00000080887.2, ENSRNOT00000099738.2
    Conserved Domains (2) summary
    smart00147
    Location:8431072
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:695836
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
  25. XM_039106163.2XP_038962091.1  rap guanine nucleotide exchange factor 1 isoform X10

    UniProtKB/TrEMBL
    F1M8L9
    Conserved Domains (3) summary
    smart00147
    Location:9901219
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:842983
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:192313
    PHA03247; large tegument protein UL36; Provisional
  26. XM_008761685.4XP_008759907.2  rap guanine nucleotide exchange factor 1 isoform X14

    UniProtKB/TrEMBL
    F1M8L9
  27. XM_008761686.4XP_008759908.2  rap guanine nucleotide exchange factor 1 isoform X17

    UniProtKB/TrEMBL
    F1M8L9
  28. XM_063284493.1XP_063140563.1  rap guanine nucleotide exchange factor 1 isoform X26

    UniProtKB/TrEMBL
    A0A8I5ZUL6
  29. XM_039106169.2XP_038962097.1  rap guanine nucleotide exchange factor 1 isoform X28

    UniProtKB/TrEMBL
    A0A8I5ZUL6
    Conserved Domains (4) summary
    PLN03209
    Location:191429
    PLN03209; translocon at the inner envelope of chloroplast subunit 62; Provisional
    smart00147
    Location:8051034
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:657798
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:192298
    PHA03247; large tegument protein UL36; Provisional
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