Mouse Gene Arap1 (ENSMUST00000084895.11) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1 (Arap1), transcript variant 1, mRNA. (from RefSeq NM_027180)
Gencode Transcript: ENSMUST00000084895.11
Gencode Gene: ENSMUSG00000032812.18
Transcript (Including UTRs)
   Position: mm10 chr7:101,378,190-101,411,744 Size: 33,555 Total Exon Count: 31 Strand: +
Coding Region
   Position: mm10 chr7:101,385,608-101,411,321 Size: 25,714 Coding Exon Count: 30 

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 (chr7:101,378,190-101,411,744)mRNA (may differ from genome)Protein (1193 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: ARAP1_MOUSE
DESCRIPTION: RecName: Full=Arf-GAP with Rho-GAP domain, ANK repeat and PH domain-containing protein 1; AltName: Full=Centaurin-delta-2; Short=Cnt-d2;
FUNCTION: Phosphatidylinositol 3,4,5-trisphosphate-dependent GTPase-activating protein that modulates actin cytoskeleton remodeling by regulating ARF and RHO family members. Is activated by phosphatidylinositol 3,4,5-trisphosphate (PtdIns(3,4,5)P3) binding. Can be activated by phosphatidylinositol 3,4-bisphosphate (PtdIns(3,4,5)P2) binding, albeit with lower efficiency. Has a preference for ARF1 and ARF5 (By similarity).
SUBUNIT: Interacts with TNFRSF10A (By similarity).
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Golgi apparatus, Golgi stack membrane; Peripheral membrane protein (By similarity). Cell membrane (By similarity).
SIMILARITY: Contains 1 Arf-GAP domain.
SIMILARITY: Contains 4 PH domains.
SIMILARITY: Contains 1 Ras-associating domain.
SIMILARITY: Contains 1 Rho-GAP domain.
SIMILARITY: Contains 1 SAM (sterile alpha motif) domain.

-  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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -116.40399-0.292 Picture PostScript Text
3' UTR -169.10423-0.400 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
IPR001164 - ArfGAP
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR000159 - Ras-assoc
IPR008936 - Rho_GTPase_activation_prot
IPR000198 - RhoGAP_dom
IPR001660 - SAM
IPR013761 - SAM/pointed
IPR021129 - SAM_type1

Pfam Domains:
PF00169 - PH domain
PF00620 - RhoGAP domain
PF00788 - Ras association (RalGDS/AF-6) domain
PF01412 - Putative GTPase activating protein for Arf

SCOP Domains:
48350 - GTPase activation domain, GAP
50729 - PH domain-like
54236 - Ubiquitin-like
48403 - Ankyrin repeat
57863 - ArfGap/RecO-like zinc finger

ModBase Predicted Comparative 3D Structure on Q4LDD4
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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:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005096 GTPase activator activity
GO:0005547 phosphatidylinositol-3,4,5-trisphosphate binding
GO:0008134 transcription factor binding
GO:0031702 type 1 angiotensin receptor binding
GO:0044212 transcription regulatory region DNA binding
GO:0046872 metal ion binding
GO:0070412 R-SMAD binding

Biological Process:
GO:0001921 positive regulation of receptor recycling
GO:0007165 signal transduction
GO:0007179 transforming growth factor beta receptor signaling pathway
GO:0008360 regulation of cell shape
GO:0043547 positive regulation of GTPase activity
GO:0045893 positive regulation of transcription, DNA-templated
GO:0051270 regulation of cellular component movement
GO:0051491 positive regulation of filopodium assembly
GO:0051497 negative regulation of stress fiber assembly
GO:0060395 SMAD protein signal transduction

Cellular Component:
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005802 trans-Golgi network
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0031410 cytoplasmic vesicle
GO:0032580 Golgi cisterna membrane
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  AK172210 - Mus musculus activated spleen cDNA, RIKEN full-length enriched library, clone:F830106A05 product:centaurin, delta 2, full insert sequence.
AK137455 - Mus musculus adult male bone cDNA, RIKEN full-length enriched library, clone:9830004A12 product:centaurin, delta 2, full insert sequence.
AK140646 - Mus musculus 10 days neonate cerebellum cDNA, RIKEN full-length enriched library, clone:B930068K15 product:centaurin, delta 2, full insert sequence.
BC141179 - Mus musculus ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1, mRNA (cDNA clone MGC:176140 IMAGE:9055791), complete cds.
AJ621558 - Mus musculus mRNA for ARAP1 (Centd2 gene).
AK150132 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:G530135H12 product:centaurin, delta 2, full insert sequence.
AK129213 - Mus musculus mRNA for mKIAA0782 protein.
AK210757 - Mus musculus cDNA, clone:Y2G0119H19, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000067758, based on BLAT search.
BC042640 - Mus musculus centaurin, delta 2, mRNA (cDNA clone IMAGE:5370033), with apparent retained intron.
AK052437 - Mus musculus 13 days embryo lung cDNA, RIKEN full-length enriched library, clone:D430022I02 product:SIMILAR TO CENTAURIN, DELTA 2 (FRAGMENT) homolog [Homo sapiens], full insert sequence.
AK199434 - Mus musculus cDNA, clone:Y1G0131D08, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000067758, based on BLAT search.
BC057922 - Mus musculus ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1, mRNA (cDNA clone IMAGE:5101122), partial cds.
BC091762 - Mus musculus ArfGAP with RhoGAP domain, ankyrin repeat and PH domain 1, mRNA (cDNA clone IMAGE:5052745), partial cds.
BC069849 - Mus musculus centaurin, delta 2, mRNA (cDNA clone IMAGE:5148694).
AK010344 - Mus musculus ES cells cDNA, RIKEN full-length enriched library, clone:2410002L19 product:hypothetical protein, full insert sequence.
BC083088 - Mus musculus cDNA clone IMAGE:30293394.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu04144 - Endocytosis

BioCarta from NCI Cancer Genome Anatomy Project
m_arapPathway - ADP-Ribosylation Factor

Reactome (by CSHL, EBI, and GO)

Protein Q4LDD4 (Reactome details) participates in the following event(s):

R-MMU-8848864 PTK6 binds ARAP1
R-MMU-8848873 PTK6 phosphorylates ARAP1
R-MMU-194922 GAPs inactivate Rho GTPase:GTP by hydrolysis
R-MMU-8849469 PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1
R-MMU-8848021 Signaling by PTK6
R-MMU-194840 Rho GTPase cycle
R-MMU-9006927 Signaling by Non-Receptor Tyrosine Kinases
R-MMU-194315 Signaling by Rho GTPases
R-MMU-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: ARAP1_MOUSE, B2RUJ3, Centd2, Kiaa0782, NM_027180, Q3UDD2, Q3US99, Q4LDD4, Q58ET6, Q6PEQ9, Q6ZQ48, uc009iom.1, uc009iom.2
UCSC ID: uc009iom.2
RefSeq Accession: NM_001040112
Protein: Q4LDD4 (aka ARAP1_MOUSE)
CCDS: CCDS21510.1

-  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.