Human Gene DEPDC1B (uc003jsh.3) Description and Page Index
  Description: Homo sapiens DEP domain containing 1B (DEPDC1B), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr5:59,892,739-59,995,993 Size: 103,255 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr5:59,893,580-59,995,920 Size: 102,341 Coding Exon Count: 11 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:59,892,739-59,995,993)mRNA (may differ from genome)Protein (529 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: DEP1B_HUMAN
DESCRIPTION: RecName: Full=DEP domain-containing protein 1B; AltName: Full=HBV X-transactivated gene 8 protein; AltName: Full=HBV XAg-transactivated protein 8;
SIMILARITY: Contains 1 DEP domain.
SIMILARITY: Contains 1 Rho-GAP domain.
SEQUENCE CAUTION: Sequence=AAH10904.1; Type=Erroneous initiation; Sequence=BAA91529.1; Type=Erroneous initiation;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.13 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 31.01 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -34.4073-0.471 Picture PostScript Text
3' UTR -186.75841-0.222 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
IPR000591 - DEP_dom
IPR008936 - Rho_GTPase_activation_prot
IPR000198 - RhoGAP_dom
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF00610 - Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP)
PF00620 - RhoGAP domain

SCOP Domains:
48350 - GTPase activation domain, GAP
46785 - "Winged helix" DNA-binding domain

ModBase Predicted Comparative 3D Structure on Q8WUY9
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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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity

Biological Process:
GO:0007165 signal transduction
GO:0016477 cell migration
GO:0030177 positive regulation of Wnt signaling pathway
GO:0035556 intracellular signal transduction
GO:0043547 positive regulation of GTPase activity
GO:0051056 regulation of small GTPase mediated signal transduction

Cellular Component:
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BC019075 - Homo sapiens DEP domain containing 1B, mRNA (cDNA clone MGC:29639 IMAGE:5091386), complete cds.
AK001166 - Homo sapiens cDNA FLJ10304 fis, clone NT2RM2000192.
BC010904 - Homo sapiens DEP domain containing 1B, mRNA (cDNA clone IMAGE:4045265), complete cds.
AF303178 - Homo sapiens BRCC3 mRNA, complete cds.
AK290684 - Homo sapiens cDNA FLJ76268 complete cds, highly similar to Homo sapiens DEP domain containing 1B (DEPDC1B), mRNA.
AK300782 - Homo sapiens cDNA FLJ58329 complete cds, highly similar to Homo sapiens DEP domain containing 1B (DEPDC1B), mRNA.
AK299242 - Homo sapiens cDNA FLJ55356 complete cds, highly similar to Homo sapiens DEP domain containing 1B (DEPDC1B), mRNA.
AF488828 - Homo sapiens HBxAg transactivated protein 1 (XTP1) mRNA, complete cds.
AF490257 - Homo sapiens XTP8 (XTP8) mRNA, complete cds.
KJ904813 - Synthetic construct Homo sapiens clone ccsbBroadEn_14207 DEPDC1B gene, encodes complete protein.
KJ899193 - Synthetic construct Homo sapiens clone ccsbBroadEn_08587 DEPDC1B gene, encodes complete protein.
AK002114 - Homo sapiens cDNA FLJ11252 fis, clone PLACE1008854.
JD219267 - Sequence 200291 from Patent EP1572962.
JD491560 - Sequence 472584 from Patent EP1572962.
JD276035 - Sequence 257059 from Patent EP1572962.
JD145615 - Sequence 126639 from Patent EP1572962.
JD506498 - Sequence 487522 from Patent EP1572962.
JD556240 - Sequence 537264 from Patent EP1572962.

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

Protein Q8WUY9 (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: A8K3R9, B4DUT4, DEP1B_HUMAN, NM_018369, NP_060839, Q86WJ3, Q8IZY6, Q8WUY9, Q9NUN3, Q9NW57, XTP8
UCSC ID: uc003jsh.3
RefSeq Accession: NM_018369
Protein: Q8WUY9 (aka DEP1B_HUMAN)
CCDS: CCDS3977.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_018369.2
exon count: 11CDS single in 3' UTR: no RNA size: 2516
ORF size: 1590CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3380.00frame shift in genome: no % Coverage: 99.52
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.