Human Gene ARHGDIB (ENST00000228945.9_7) from GENCODE V47lift37
  Description: Rho GDP dissociation inhibitor beta, transcript variant 3 (from RefSeq NM_001321421.2)
Gencode Transcript: ENST00000228945.9_7
Gencode Gene: ENSG00000111348.9_13
Transcript (Including UTRs)
   Position: hg19 chr12:15,094,965-15,114,535 Size: 19,571 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr12:15,095,456-15,103,646 Size: 8,191 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:15,094,965-15,114,535)mRNA (may differ from genome)Protein (201 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GDIR2_HUMAN
DESCRIPTION: RecName: Full=Rho GDP-dissociation inhibitor 2; Short=Rho GDI 2; AltName: Full=Ly-GDI; AltName: Full=Rho-GDI beta;
FUNCTION: Regulates the GDP/GTP exchange reaction of the Rho proteins by inhibiting the dissociation of GDP from them, and the subsequent binding of GTP to them.
SUBCELLULAR LOCATION: Cytoplasm.
SIMILARITY: Belongs to the Rho GDI family.

-  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: 658.07 RPKM in Whole Blood
Total median expression: 2730.78 RPKM



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

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -9.5077-0.123 Picture PostScript Text
3' UTR -97.90491-0.199 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
IPR014756 - Ig_E-set
IPR000406 - Rho_GDI
IPR024792 - RhoGDI_domain

Pfam Domains:
PF02115 - RHO protein GDP dissociation inhibitor

SCOP Domains:
81296 - E set domains

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1DS6 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P52566
FrontTopSide
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    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003924 GTPase activity
GO:0005094 Rho GDP-dissociation inhibitor activity
GO:0005096 GTPase activator activity
GO:0005515 protein binding
GO:0048365 Rac GTPase binding

Biological Process:
GO:0007162 negative regulation of cell adhesion
GO:0007275 multicellular organism development
GO:0035023 regulation of Rho protein signal transduction
GO:0043547 positive regulation of GTPase activity
GO:0050790 regulation of catalytic activity
GO:0051056 regulation of small GTPase mediated signal transduction
GO:0071461 cellular response to redox state
GO:1901164 negative regulation of trophoblast cell migration
GO:2000249 regulation of actin cytoskeleton reorganization

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0016020 membrane
GO:0031410 cytoplasmic vesicle
GO:0070062 extracellular exosome


-  Descriptions from all associated GenBank mRNAs
  LF207446 - JP 2014500723-A/14949: Polycomb-Associated Non-Coding RNAs.
BC009200 - Homo sapiens Rho GDP dissociation inhibitor (GDI) beta, mRNA (cDNA clone MGC:15348 IMAGE:3621138), complete cds.
X69549 - H.sapiens mRNA for rho GDP-dissociation Inhibitor 2.
L07916 - Human mRNA sequence with homology to GDP-dissociation inhibitor.
L20688 - Human GDP-dissociation inhibitor protein (Ly-GDI) mRNA, complete cds.
JD374601 - Sequence 355625 from Patent EP1572962.
JD423618 - Sequence 404642 from Patent EP1572962.
JD502000 - Sequence 483024 from Patent EP1572962.
LF366257 - JP 2014500723-A/173760: Polycomb-Associated Non-Coding RNAs.
LF366258 - JP 2014500723-A/173761: Polycomb-Associated Non-Coding RNAs.
JD206295 - Sequence 187319 from Patent EP1572962.
AF498927 - Homo sapiens Rho GDP dissociation inhibitor beta (ARHGDIB) mRNA, complete cds.
AK311807 - Homo sapiens cDNA, FLJ92068, highly similar to Homo sapiens Rho GDP dissociation inhibitor (GDI) beta (ARHGDIB),mRNA.
AB451315 - Homo sapiens ARHGDIB mRNA for Rho GDP-dissociation inhibitor 2, complete cds, clone: FLJ08179AAAN.
DQ893303 - Synthetic construct clone IMAGE:100005933; FLH194655.01X; RZPDo839D0880D Rho GDP dissociation inhibitor (GDI) beta (ARHGDIB) gene, encodes complete protein.
DQ896476 - Synthetic construct Homo sapiens clone IMAGE:100010936; FLH194651.01L; RZPDo839D0870D Rho GDP dissociation inhibitor (GDI) beta (ARHGDIB) gene, encodes complete protein.
AB451445 - Homo sapiens ARHGDIB mRNA for Rho GDP-dissociation inhibitor 2, partial cds, clone: FLJ08179AAAF.
AB464153 - Synthetic construct DNA, clone: pF1KB6880, Homo sapiens ARHGDIB gene for Rho GDP dissociation inhibitor (GDI) beta, without stop codon, in Flexi system.
AK125625 - Homo sapiens cDNA FLJ43637 fis, clone SPLEN2039672.
LF366261 - JP 2014500723-A/173764: Polycomb-Associated Non-Coding RNAs.
LF366262 - JP 2014500723-A/173765: Polycomb-Associated Non-Coding RNAs.
JD026155 - Sequence 7179 from Patent EP1572962.
JD063266 - Sequence 44290 from Patent EP1572962.
JD368781 - Sequence 349805 from Patent EP1572962.
JD330741 - Sequence 311765 from Patent EP1572962.
MA601834 - JP 2018138019-A/173760: Polycomb-Associated Non-Coding RNAs.
MA601835 - JP 2018138019-A/173761: Polycomb-Associated Non-Coding RNAs.
MA601838 - JP 2018138019-A/173764: Polycomb-Associated Non-Coding RNAs.
MA601839 - JP 2018138019-A/173765: Polycomb-Associated Non-Coding RNAs.
MA443023 - JP 2018138019-A/14949: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_fasPathway - FAS signaling pathway ( CD95 )
h_HivnefPathway - HIV-I Nef: negative effector of Fas and TNF
h_tnfr1Pathway - TNFR1 Signaling Pathway
h_caspasePathway - Caspase Cascade in Apoptosis
h_d4gdiPathway - D4-GDI Signaling Pathway

Reactome (by CSHL, EBI, and GO)

Protein P52566 (Reactome details) participates in the following event(s):

R-HSA-194854 GDIs block activation of Rho GTPase:GDP
R-HSA-195146 Dissociation of Rho GTP:GDP from GDI complex
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: B5BU79, ENST00000228945.1, ENST00000228945.2, ENST00000228945.3, ENST00000228945.4, ENST00000228945.5, ENST00000228945.6, ENST00000228945.7, ENST00000228945.8, GDIA2, GDID4, GDIR2_HUMAN, NM_001321421, P52566, RAP1GN1, uc317dpi.1, uc317dpi.2
UCSC ID: ENST00000228945.9_7
RefSeq Accession: NM_001175.7
Protein: P52566 (aka GDIR2_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.