Human Gene ARHGAP27 (ENST00000290470.3_6) from GENCODE V47lift37
  Description: Rho GTPase activating protein 27, transcript variant 3 (from RefSeq NM_174919.4)
Gencode Transcript: ENST00000290470.3_6
Gencode Gene: ENSG00000159314.13_15
Transcript (Including UTRs)
   Position: hg19 chr17:43,506,719-43,510,282 Size: 3,564 Total Exon Count: 4 Strand: -
Coding Region
   Position: hg19 chr17:43,506,854-43,507,645 Size: 792 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:43,506,719-43,510,282)mRNA (may differ from genome)Protein (263 aa)
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BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RHG27_HUMAN
DESCRIPTION: RecName: Full=Rho GTPase-activating protein 27; AltName: Full=CIN85-associated multi-domain-containing Rho GTPase-activating protein 1; AltName: Full=Rho-type GTPase-activating protein 27; AltName: Full=SH3 domain-containing protein 20;
FUNCTION: Rho GTPase-activating protein which may be involved in clathrin-mediated endocytosis. GTPase activators for the Rho-type GTPases act by converting them to an inactive GDP-bound state. Has activity toward CDC42 and RAC1 (By similarity).
SUBUNIT: Interacts with SH3KBP1/CIN85 (By similarity).
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Membrane; Peripheral membrane protein (By similarity).
TISSUE SPECIFICITY: Expressed in germinal center B-cell, spleen, chronic lymphocytic leukemia, pancreatic cancer and lung cancer.
SIMILARITY: Contains 1 PH domain.
SIMILARITY: Contains 1 Rho-GAP domain.
SIMILARITY: Contains 1 SH3 domain.
SIMILARITY: Contains 3 WW domains.
CAUTION: According to HGNC, ARHGAP27 and SH3D20 are 2 separate genes, corresponding to isoform 2 and isoform 4, respectively. However, a rat transcript and paralog proteins with a similar domain structure suggest the existence of a single gene encoding for a protein of 889 residues as displayed here.
SEQUENCE CAUTION: Sequence=AAI01389.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAI01390.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAI01391.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 41.44 RPKM in Whole Blood
Total median expression: 452.23 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -221.50449-0.493 Picture PostScript Text
3' UTR -36.10135-0.267 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
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR015767 - Rho_GTPase_activating
IPR008936 - Rho_GTPase_activation_prot
IPR000198 - RhoGAP_dom
IPR001452 - SH3_domain
IPR001202 - WW_Rsp5_WWP

Pfam Domains:
PF14604 - Variant SH3 domain

SCOP Domains:
50044 - SH3-domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3PP2 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q6ZUM4
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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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity
GO:0017124 SH3 domain binding

Biological Process:
GO:0006897 endocytosis
GO:0006898 receptor-mediated endocytosis
GO:0007165 signal transduction
GO:0043547 positive regulation of GTPase activity

Cellular Component:
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  LF209384 - JP 2014500723-A/16887: Polycomb-Associated Non-Coding RNAs.
AK290650 - Homo sapiens cDNA FLJ76025 complete cds.
BC067345 - Homo sapiens SH3 domain containing 20, mRNA (cDNA clone MGC:78393 IMAGE:6084901), complete cds.
AF258593 - Homo sapiens PP905 mRNA, complete cds.
JD338056 - Sequence 319080 from Patent EP1572962.
JD464472 - Sequence 445496 from Patent EP1572962.
JD153192 - Sequence 134216 from Patent EP1572962.
JD099653 - Sequence 80677 from Patent EP1572962.
JD389743 - Sequence 370767 from Patent EP1572962.
JD405775 - Sequence 386799 from Patent EP1572962.
JD462872 - Sequence 443896 from Patent EP1572962.
JD079794 - Sequence 60818 from Patent EP1572962.
JD471229 - Sequence 452253 from Patent EP1572962.
MA444961 - JP 2018138019-A/16887: Polycomb-Associated Non-Coding RNAs.

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

Protein Q6ZUM4 (Reactome details) participates in the following event(s):

R-HSA-194922 GAPs inactivate Rho GTPase:GTP by hydrolysis
R-HSA-194840 Rho GTPase cycle
R-HSA-194315 Signaling by Rho GTPases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A4FU35, A8K3N5, ARHGAP27 , C9JTF3, CAMGAP1, ENST00000290470.1, ENST00000290470.2, NM_174919, PP905, Q494U0, Q6NWZ8, Q6ZUM4, Q8WY58, RHG27_HUMAN, SH3D20 , uc317kve.1, uc317kve.2
UCSC ID: ENST00000290470.3_6
RefSeq Accession: NM_174919.4
Protein: Q6ZUM4 (aka RHG27_HUMAN)

-  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.