Mouse Gene Rabgap1 (ENSMUST00000066055.9) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus RAB GTPase activating protein 1 (Rabgap1), transcript variant 2, mRNA. (from RefSeq NM_001033960)
Gencode Transcript: ENSMUST00000066055.9
Gencode Gene: ENSMUSG00000035437.15
Transcript (Including UTRs)
   Position: mm10 chr2:37,452,245-37,544,962 Size: 92,718 Total Exon Count: 19 Strand: +
Coding Region
   Position: mm10 chr2:37,469,427-37,543,252 Size: 73,826 Coding Exon Count: 18 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:37,452,245-37,544,962)mRNA (may differ from genome)Protein (809 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: RBGP1_MOUSE
DESCRIPTION: RecName: Full=Rab GTPase-activating protein 1; AltName: Full=GAP and centrosome-associated protein; AltName: Full=Rab6 GTPase-activating protein GAPCenA;
FUNCTION: May act as a GTPase-activating protein of RAB6A. May play a role in microtubule nucleation by centrosome. May participate in a RAB6A-mediated pathway involved in the metaphase- anaphase transition (By similarity).
SUBUNIT: Interacts with RAB6A and tubulin gamma (By similarity).
SUBCELLULAR LOCATION: Cytoplasm, cytosol (By similarity). Cytoplasm, cytoskeleton, centrosome (By similarity). Note=Predominantly cytosolic but also associated with the centrosome (By similarity).
SIMILARITY: Contains 1 PID domain.
SIMILARITY: Contains 1 Rab-GAP TBC domain.
SEQUENCE CAUTION: Sequence=AAH26862.1; Type=Erroneous initiation; Sequence=AAH31714.1; Type=Erroneous initiation; Sequence=BAC34703.1; Type=Erroneous initiation; Sequence=BAD90509.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -37.70107-0.352 Picture PostScript Text
3' UTR -410.901710-0.240 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR022164 - Kinesin-like
IPR011993 - PH_like_dom
IPR006020 - PTyr_interaction_dom
IPR000195 - Rab-GTPase-TBC_dom

Pfam Domains:
PF00566 - Rab-GTPase-TBC domain
PF00640 - Phosphotyrosine interaction domain (PTB/PID)
PF12473 - Kinesin protein

SCOP Domains:
47923 - Ypt/Rab-GAP domain of gyp1p
50729 - PH domain-like

ModBase Predicted Comparative 3D Structure on A2AWA9
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBankRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity
GO:0017137 Rab GTPase binding

Biological Process:
GO:0006886 intracellular protein transport
GO:0007049 cell cycle
GO:0031338 regulation of vesicle fusion
GO:0043087 regulation of GTPase activity
GO:0043547 positive regulation of GTPase activity
GO:0090630 activation of GTPase activity

Cellular Component:
GO:0005622 intracellular
GO:0005737 cytoplasm
GO:0005815 microtubule organizing center
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0012505 endomembrane system


-  Descriptions from all associated GenBank mRNAs
  AK031315 - Mus musculus 13 days embryo male testis cDNA, RIKEN full-length enriched library, clone:6030405K23 product:spermatid perinuclear RNA binding protein, full insert sequence.
AK021286 - Mus musculus 13 days embryo heart cDNA, RIKEN full-length enriched library, clone:D330022O09 product:Rab6 GTPase activating protein, GAPCenA homolog [Homo sapiens], full insert sequence.
BC138337 - Mus musculus RAB GTPase activating protein 1, mRNA (cDNA clone MGC:169962 IMAGE:8861357), complete cds.
AK141284 - Mus musculus 7 days embryo whole body cDNA, RIKEN full-length enriched library, clone:C430019L07 product:Warning: possibly chimeric clone, full insert sequence.
AK044346 - Mus musculus adult retina cDNA, RIKEN full-length enriched library, clone:A930008G12 product:Rab6 GTPase activating protein, GAPCenA homolog [Homo sapiens], full insert sequence.
AK029667 - Mus musculus adult male testis cDNA, RIKEN full-length enriched library, clone:4930439I10 product:RAB6 GTPASE ACTIVATING PROTEIN, GAPCENA homolog [Homo sapiens], full insert sequence.
AK220489 - Mus musculus mRNA for mKIAA4104 protein.
AK081780 - Mus musculus 16 days embryo head cDNA, RIKEN full-length enriched library, clone:C130076I15 product:unclassifiable, full insert sequence.
AK084281 - Mus musculus 12 days embryo eyeball cDNA, RIKEN full-length enriched library, clone:D230017I19 product:unclassifiable, full insert sequence.
AK051644 - Mus musculus 12 days embryo spinal ganglion cDNA, RIKEN full-length enriched library, clone:D130061L04 product:similar to IDN4-GGTR8 PROTEIN [Homo sapiens], full insert sequence.
BC031714 - Mus musculus RAB GTPase activating protein 1, mRNA (cDNA clone IMAGE:4220528), complete cds.
BC026862 - Mus musculus RAB GTPase activating protein 1, mRNA (cDNA clone IMAGE:2645286), complete cds.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein A2AWA9 (Reactome details) participates in the following event(s):

R-MMU-8854303 TBC1D11 binds RAB6
R-MMU-8854214 TBC/RABGAPs
R-MMU-9007101 Rab regulation of trafficking
R-MMU-199991 Membrane Trafficking
R-MMU-5653656 Vesicle-mediated transport

-  Other Names for This Gene
  Alternate Gene Symbols: A2AWA9, Kiaa4104, NM_001033960, Q5DTN1, Q8BQ32, Q8C8W3, Q8CD74, Q8R312, RBGP1_MOUSE, uc008jmy.1, uc008jmy.2
UCSC ID: uc008jmy.2
RefSeq Accession: NM_001033960
Protein: A2AWA9 (aka RBGP1_MOUSE)
CCDS: CCDS16003.1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.