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Rapgef1 Rap guanine nucleotide exchange factor (GEF) 1 [ Mus musculus (house mouse) ]

Gene ID: 107746, updated on 21-Apr-2024

Summary

Official Symbol
Rapgef1provided by MGI
Official Full Name
Rap guanine nucleotide exchange factor (GEF) 1provided by MGI
Primary source
MGI:MGI:104580
See related
Ensembl:ENSMUSG00000039844 AllianceGenome:MGI:104580
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
C3G; Grf2; 4932418O06Rik
Summary
Enables guanyl-nucleotide exchange factor activity. Acts upstream of or within several processes, including activation of GTPase activity; negative regulation of signal transduction; and platelet-derived growth factor receptor signaling pathway. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; brain; cardiovascular system; genitourinary system; and immune system. Orthologous to human RAPGEF1 (Rap guanine nucleotide exchange factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in thymus adult (RPKM 38.9), spleen adult (RPKM 34.8) and 28 other tissues See more
Orthologs
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Genomic context

Location:
2 B; 2 20.32 cM
Exon count:
29
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (29509732..29630376)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (29619720..29740364)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene mediator complex subunit 27 Neighboring gene STARR-seq mESC enhancer starr_04052 Neighboring gene microRNA 133c Neighboring gene STARR-seq mESC enhancer starr_04054 Neighboring gene predicted gene, 30761 Neighboring gene STARR-positive B cell enhancer ABC_E7802 Neighboring gene STARR-seq mESC enhancer starr_04055 Neighboring gene STARR-positive B cell enhancer ABC_E9194 Neighboring gene STARR-positive B cell enhancer ABC_E2607 Neighboring gene STARR-seq mESC enhancer starr_04057 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:29526317-29526500 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:29529743-29529852 Neighboring gene STARR-seq mESC enhancer starr_04064 Neighboring gene STARR-positive B cell enhancer ABC_E9506 Neighboring gene STARR-positive B cell enhancer ABC_E2608 Neighboring gene STARR-seq mESC enhancer starr_04069 Neighboring gene STARR-seq mESC enhancer starr_04071 Neighboring gene proline rich transmembrane protein 1B Neighboring gene predicted gene 13547 Neighboring gene TruB pseudouridine (psi) synthase family member 2

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

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 IDA
Inferred from Direct Assay
more info
PubMed 
enables guanyl-nucleotide exchange factor activity ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of ERK1 and ERK2 cascade IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in Rap protein signal transduction ISO
Inferred from Sequence Orthology
more info
 
involved_in Ras protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of Ras protein signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within activation of GTPase activity IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within blood vessel development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of canonical Wnt signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cell-cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular response to cAMP ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to nerve growth factor stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in establishment of endothelial barrier ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of ERK1 and ERK2 cascade IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within negative regulation of Ras protein signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within negative regulation of neural precursor cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in nerve growth factor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of neural precursor cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of phosphatidylinositol 3-kinase/protein kinase B signal transduction IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within platelet-derived growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of ERK1 and ERK2 cascade ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of Fc-gamma receptor signaling pathway involved in phagocytosis ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of GTPase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of JNK cascade ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cell junction assembly ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol TAS
Traceable Author Statement
more info
 
located_in early endosome ISO
Inferred from Sequence Orthology
more info
 
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
 
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in phagocytic vesicle membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
rap guanine nucleotide exchange factor 1
Names
guanine nucleotide releasing factor 2

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_001039086.1NP_001034175.1  rap guanine nucleotide exchange factor 1 isoform 2

    See identical proteins and their annotated locations for NP_001034175.1

    Status: VALIDATED

    Source sequence(s)
    AK077034, AK147470, AK147696
    Consensus CDS
    CCDS38092.1
    UniProtKB/TrEMBL
    Q3UGX8
    Related
    ENSMUSP00000088680.6, ENSMUST00000091146.12
    Conserved Domains (2) 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
  2. NM_001039087.2NP_001034176.1  rap guanine nucleotide exchange factor 1 isoform 1

    See identical proteins and their annotated locations for NP_001034176.1

    Status: VALIDATED

    Source sequence(s)
    AL845323
    Consensus CDS
    CCDS38091.1
    UniProtKB/TrEMBL
    Q3UHC1
    Related
    ENSMUSP00000092703.5, ENSMUST00000095087.11
    Conserved Domains (2) summary
    smart00147
    Location:9831212
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:835976
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
  3. NM_001362702.1NP_001349631.1  rap guanine nucleotide exchange factor 1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AK077034, AK147468, BC129881
    Consensus CDS
    CCDS89458.1
    UniProtKB/TrEMBL
    A1L338, E0CXV1
    Related
    ENSMUSP00000121615.4, ENSMUST00000147755.10
    Conserved Domains (4) summary
    smart00147
    Location:9441173
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:796937
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    cl26464
    Location:188298
    Atrophin-1; Atrophin-1 family
    cl27601
    Location:663778
    Pectinesterase; Pectinesterase
  4. NM_054050.2NP_473391.1  rap guanine nucleotide exchange factor 1 isoform 3

    See identical proteins and their annotated locations for NP_473391.1

    Status: VALIDATED

    Source sequence(s)
    AF348669, AK077034, AK147470
    Consensus CDS
    CCDS15854.1
    UniProtKB/TrEMBL
    Q91ZZ2
    Related
    ENSMUSP00000099936.5, ENSMUST00000102872.11
    Conserved Domains (2) summary
    smart00147
    Location:8451074
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:697838
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    29509732..29630376
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006497583.2XP_006497646.1  rap guanine nucleotide exchange factor 1 isoform X2

    Conserved Domains (4) 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:226336
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:677877
    PHA03307; transcriptional regulator ICP4; Provisional
  2. XM_030246484.1XP_030102344.1  rap guanine nucleotide exchange factor 1 isoform X17

    Conserved Domains (3) summary
    smart00147
    Location:8971126
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:749890
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:226336
    PHA03247; large tegument protein UL36; Provisional
  3. XM_036157277.1XP_036013170.1  rap guanine nucleotide exchange factor 1 isoform X4

    Conserved Domains (4) summary
    smart00147
    Location:10141243
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8661007
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:226336
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:676876
    PHA03307; transcriptional regulator ICP4; Provisional
  4. XM_036157284.1XP_036013177.1  rap guanine nucleotide exchange factor 1 isoform X8

    Conserved Domains (4) summary
    smart00147
    Location:9821211
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:834975
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PLN02217
    Location:701816
    PLN02217; probable pectinesterase/pectinesterase inhibitor
    PHA03247
    Location:226336
    PHA03247; large tegument protein UL36; Provisional
  5. XM_036157298.1XP_036013191.1  rap guanine nucleotide exchange factor 1 isoform X13

    Conserved Domains (3) summary
    smart00147
    Location:9451174
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:797938
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:191751
    PHA03247; large tegument protein UL36; Provisional
  6. XM_030246482.1XP_030102342.1  rap guanine nucleotide exchange factor 1 isoform X11

    Conserved Domains (4) 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:188298
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:638838
    PHA03307; transcriptional regulator ICP4; Provisional
  7. XM_030246487.1XP_030102347.1  rap guanine nucleotide exchange factor 1 isoform X22

    Conserved Domains (3) summary
    smart00147
    Location:8071036
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:659800
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:188298
    PHA03247; large tegument protein UL36; Provisional
  8. XM_030246485.2XP_030102345.1  rap guanine nucleotide exchange factor 1 isoform X19

    Conserved Domains (4) summary
    smart00147
    Location:8861115
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:738879
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:97207
    PHA03247; large tegument protein UL36; Provisional
    pfam05110
    Location:566704
    AF-4; AF-4 proto-oncoprotein
  9. XM_030246488.2XP_030102348.1  rap guanine nucleotide exchange factor 1 isoform X23

    Conserved Domains (3) summary
    smart00147
    Location:768997
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:620761
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:97207
    PHA03247; large tegument protein UL36; Provisional
  10. XM_036157280.1XP_036013173.1  rap guanine nucleotide exchange factor 1 isoform X6

    Conserved Domains (4) summary
    smart00147
    Location:9841213
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:836977
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:195305
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:646846
    PHA03307; transcriptional regulator ICP4; Provisional
  11. XM_006497582.4XP_006497645.1  rap guanine nucleotide exchange factor 1 isoform X1

    Conserved Domains (4) summary
    smart00147
    Location:10161245
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:8681009
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:227337
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:678878
    PHA03307; transcriptional regulator ICP4; Provisional
  12. XM_006497585.5XP_006497648.1  rap guanine nucleotide exchange factor 1 isoform X5

    Conserved Domains (3) summary
    smart00147
    Location:9841213
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:836977
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:230790
    PHA03247; large tegument protein UL36; Provisional
  13. XM_006497589.4XP_006497652.1  rap guanine nucleotide exchange factor 1 isoform X16

    Conserved Domains (3) summary
    smart00147
    Location:8981127
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:750891
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:227337
    PHA03247; large tegument protein UL36; Provisional
  14. XM_006497584.4XP_006497647.1  rap guanine nucleotide exchange factor 1 isoform X3

    Conserved Domains (4) 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:227337
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:677877
    PHA03307; transcriptional regulator ICP4; Provisional
  15. XM_030246481.2XP_030102341.1  rap guanine nucleotide exchange factor 1 isoform X7

    Conserved Domains (4) summary
    smart00147
    Location:9831212
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:835976
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PLN02217
    Location:702817
    PLN02217; probable pectinesterase/pectinesterase inhibitor
    PHA03247
    Location:227337
    PHA03247; large tegument protein UL36; Provisional
  16. XM_006497590.4XP_006497653.1  rap guanine nucleotide exchange factor 1 isoform X18

    Conserved Domains (3) summary
    smart00147
    Location:8971126
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:749890
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:227337
    PHA03247; large tegument protein UL36; Provisional
  17. XM_006497587.5XP_006497650.1  rap guanine nucleotide exchange factor 1 isoform X12

    Conserved Domains (4) summary
    smart00147
    Location:9641193
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:816957
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:227337
    PHA03247; large tegument protein UL36; Provisional
    pfam05110
    Location:644782
    AF-4; AF-4 proto-oncoprotein
  18. XM_036157299.1XP_036013192.1  rap guanine nucleotide exchange factor 1 isoform X15

    Conserved Domains (3) summary
    smart00147
    Location:9321161
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:784925
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:228738
    PHA03247; large tegument protein UL36; Provisional
  19. XM_006497592.4XP_006497655.1  rap guanine nucleotide exchange factor 1 isoform X20

    UniProtKB/TrEMBL
    A0A5F8MPI9
    Related
    ENSMUSP00000158995.2, ENSMUST00000238899.2
    Conserved Domains (3) summary
    smart00147
    Location:8461075
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:698839
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:227337
    PHA03247; large tegument protein UL36; Provisional
  20. XM_006497586.5XP_006497649.1  rap guanine nucleotide exchange factor 1 isoform X9

    Conserved Domains (4) summary
    smart00147
    Location:9781207
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:830971
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:189299
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:640840
    PHA03307; transcriptional regulator ICP4; Provisional
  21. XM_036157288.1XP_036013181.1  rap guanine nucleotide exchange factor 1 isoform X10

    Conserved Domains (4) 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:189299
    PHA03247; large tegument protein UL36; Provisional
    PHA03307
    Location:639839
    PHA03307; transcriptional regulator ICP4; Provisional
  22. XM_030246483.2XP_030102343.1  rap guanine nucleotide exchange factor 1 isoform X14

    Conserved Domains (4) summary
    smart00147
    Location:9451174
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:797938
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PLN02217
    Location:664779
    PLN02217; probable pectinesterase/pectinesterase inhibitor
    PHA03247
    Location:189299
    PHA03247; large tegument protein UL36; Provisional
  23. XM_036157304.1XP_036013197.1  rap guanine nucleotide exchange factor 1 isoform X21

    Conserved Domains (3) summary
    smart00147
    Location:8081037
    RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases
    smart00229
    Location:660801
    RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
    PHA03247
    Location:189299
    PHA03247; large tegument protein UL36; Provisional