Mouse Gene Grtp1 (ENSMUST00000165605.3) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus GH regulated TBC protein 1 (Grtp1), transcript variant 2, mRNA. (from RefSeq NM_001368858)
Gencode Transcript: ENSMUST00000165605.3
Gencode Gene: ENSMUSG00000038515.10
Transcript (Including UTRs)
   Position: mm10 chr8:13,176,870-13,200,535 Size: 23,666 Total Exon Count: 9 Strand: -
Coding Region
   Position: mm10 chr8:13,177,053-13,200,527 Size: 23,475 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel Information
Methods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:13,176,870-13,200,535)mRNA (may differ from genome)Protein (359 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: GRTP1_MOUSE
DESCRIPTION: RecName: Full=Growth hormone-regulated TBC protein 1; AltName: Full=TBC1 domain family member 6;
FUNCTION: May act as a GTPase-activating protein for Rab family protein(s).
TISSUE SPECIFICITY: Highly expressed in testes, expression greatly increased at postnatal day 20 and remained high up to day 90. Moderately expressed in kidney and liver, weakly expressed in intestine, lung, ovaries and stomach. Expression of Growth hormone increased the expression in testis but decreased expression in liver and kidney.
DEVELOPMENTAL STAGE: Weakly expressed in the testis of the embryo and neonate.
SIMILARITY: Contains 1 Rab-GAP TBC 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           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -24.60183-0.134 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
IPR000195 - Rab-GTPase-TBC_dom

Pfam Domains:
PF00566 - Rab-GTPase-TBC domain

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

ModBase Predicted Comparative 3D Structure on Q9D3N8
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.
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:0031338 regulation of vesicle fusion
GO:0090630 activation of GTPase activity

Cellular Component:
GO:0005622 intracellular
GO:0012505 endomembrane system


-  Descriptions from all associated GenBank mRNAs
  AK044437 - Mus musculus adult retina cDNA, RIKEN full-length enriched library, clone:A930013B19 product:GH REGULATED TBC PROTEIN-1 homolog [Mus musculus], full insert sequence.
AK149322 - Mus musculus adult retina cDNA, RIKEN full-length enriched library, clone:A930024N17 product:GH regulated TBC protein 1, full insert sequence.
AK017251 - Mus musculus 6 days neonate head cDNA, RIKEN full-length enriched library, clone:5430401C05 product:GH REGULATED TBC PROTEIN-1, full insert sequence.
AK017197 - Mus musculus 11 days pregnant adult female ovary and uterus cDNA, RIKEN full-length enriched library, clone:5033427E10 product:GH REGULATED TBC PROTEIN-1, full insert sequence.
AK007905 - Mus musculus 10 day old male pancreas cDNA, RIKEN full-length enriched library, clone:1810059F03 product:GH REGULATED TBC PROTEIN-1, full insert sequence.
AK082863 - Mus musculus ES cells cDNA, RIKEN full-length enriched library, clone:C330045E03 product:GH REGULATED TBC PROTEIN-1, full insert sequence.
AF329833 - Mus musculus GH regulated TBC protein-1 mRNA, complete cds.

-  Other Names for This Gene
  Alternate Gene Symbols: GRTP1_MOUSE, NM_001368858, Q8BUR0, Q8VI03, Q9D3N8, Q9D3Q5, Q9D8L8, Tbc1d6, uc012fzv.1, uc012fzv.2
UCSC ID: uc012fzv.2
RefSeq Accession: NM_001368858
Protein: Q9D3N8 (aka GRTP1_MOUSE)
CCDS: CCDS22107.1

-  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.