Mouse Gene Dennd3 (ENSMUST00000043414.11) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus DENN/MADD domain containing 3 (Dennd3), transcript variant 1, mRNA. (from RefSeq NM_001081066)
Gencode Transcript: ENSMUST00000043414.11
Gencode Gene: ENSMUSG00000036661.14
Transcript (Including UTRs)
   Position: mm10 chr15:73,512,560-73,572,242 Size: 59,683 Total Exon Count: 23 Strand: +
Coding Region
   Position: mm10 chr15:73,512,746-73,570,954 Size: 58,209 Coding Exon Count: 23 

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 (chr15:73,512,560-73,572,242)mRNA (may differ from genome)Protein (1274 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKB

-  Comments and Description Text from UniProtKB
  ID: DEND3_MOUSE
DESCRIPTION: RecName: Full=DENN domain-containing protein 3;
FUNCTION: Guanine nucleotide exchange factor (GEF) which may activate RAB12. Promotes the exchange of GDP to GTP, converting inactive GDP-bound Rab proteins into their active GTP-bound form (By similarity).
SIMILARITY: Contains 1 dDENN domain.
SIMILARITY: Contains 1 DENN domain.
SIMILARITY: Contains 1 uDENN domain.
SIMILARITY: Contains 3 WD repeats.
SEQUENCE CAUTION: Sequence=BAC35269.1; Type=Erroneous initiation; Sequence=BAD32324.1; 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 -93.20186-0.501 Picture PostScript Text
3' UTR -447.101288-0.347 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
IPR005112 - dDENN_dom
IPR001194 - DENN_dom
IPR005113 - uDENN_dom
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF02141 - DENN (AEX-3) domain

SCOP Domains:
47473 - EF-hand
50952 - Soluble quinoprotein glucose dehydrogenase
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like

ModBase Predicted Comparative 3D Structure on A2RT67
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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
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
 RGDEnsembl   
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005085 guanyl-nucleotide exchange factor activity
GO:0017112 Rab guanyl-nucleotide exchange factor activity

Biological Process:
GO:0008333 endosome to lysosome transport
GO:0044257 cellular protein catabolic process

Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK173046 - Mus musculus mRNA for mKIAA0870 protein.
BC132389 - Mus musculus DENN/MADD domain containing 3, mRNA (cDNA clone MGC:164020 IMAGE:40130666), complete cds.
BC137791 - Mus musculus DENN/MADD domain containing 3, mRNA (cDNA clone MGC:169415 IMAGE:8860810), complete cds.
BC144912 - Mus musculus cDNA clone IMAGE:9053460.
AK053114 - Mus musculus 0 day neonate lung cDNA, RIKEN full-length enriched library, clone:E030003N15 product:hypothetical Trp-Asp repeat (WD-repeat) structure containing protein, full insert sequence.
BC030441 - Mus musculus DENN/MADD domain containing 3, mRNA (cDNA clone IMAGE:5373490), with apparent retained intron.

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

Protein A2RT67 (Reactome details) participates in the following event(s):

R-MMU-8876446 p-ULK1 phosphorylates DENND3
R-MMU-8876454 DENND3 exchanges GTP for GDP on RAB12
R-MMU-8876198 RAB GEFs exchange GTP for GDP on RABs
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: A2RT67, B2RQ75, DEND3_MOUSE, Kiaa0870, NM_001081066, Q69ZX2, Q8C6V5, uc007wce.1
UCSC ID: uc007wce.1
RefSeq Accession: NM_001081066
Protein: A2RT67 (aka DEND3_MOUSE)
CCDS: CCDS37100.1

-  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.