Human Gene UBTD2 (ENST00000393792.3) from GENCODE V44
  Description: Homo sapiens ubiquitin domain containing 2 (UBTD2), mRNA. (from RefSeq NM_152277)
Gencode Transcript: ENST00000393792.3
Gencode Gene: ENSG00000168246.6
Transcript (Including UTRs)
   Position: hg38 chr5:172,209,646-172,283,764 Size: 74,119 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg38 chr5:172,211,830-172,283,665 Size: 71,836 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:172,209,646-172,283,764)mRNA (may differ from genome)Protein (234 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UBTD2_HUMAN
DESCRIPTION: RecName: Full=Ubiquitin domain-containing protein 2; AltName: Full=Dendritic cell-derived ubiquitin-like protein; Short=DC-UbP; AltName: Full=Ubiquitin-like protein SB72;
SUBCELLULAR LOCATION: Cytoplasm.
TISSUE SPECIFICITY: Detected in dendritic cells. Highly expressed in tumor cell lines, but not detectable in most tissues.
SIMILARITY: Contains 1 ubiquitin-like domain.
SEQUENCE CAUTION: Sequence=AAH19910.1; Type=Erroneous initiation; Sequence=AAL99389.1; 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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 42.18 RPKM in Testis
Total median expression: 418.60 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 -57.3099-0.579 Picture PostScript Text
3' UTR -526.902184-0.241 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
IPR000626 - Ubiquitin
IPR019955 - Ubiquitin_supergroup

Pfam Domains:
PF00240 - Ubiquitin family

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1TTN - NMR MuPIT 2KSN - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q8WUN7
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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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsemblEnsembl  
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  
AlignmentAlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC019910 - Homo sapiens ubiquitin domain containing 2, mRNA (cDNA clone MGC:30022 IMAGE:4402070), complete cds.
AK313274 - Homo sapiens cDNA, FLJ93786, Homo sapiens dendritic cell-derived ubiquitin-like protein(DC-UbP), mRNA.
KJ903582 - Synthetic construct Homo sapiens clone ccsbBroadEn_12976 UBTD2 gene, encodes complete protein.
AK022894 - Homo sapiens cDNA FLJ12832 fis, clone NT2RP2003137, highly similar to Ubiquitin domain-containing protein 2.
JD087400 - Sequence 68424 from Patent EP1572962.
JD304392 - Sequence 285416 from Patent EP1572962.
AF251700 - Homo sapiens ubiquitin-like protein SB72 mRNA, complete cds.
JD086125 - Sequence 67149 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: DCUBP, ENST00000393792.1, ENST00000393792.2, NM_152277, Q8TDQ3, Q8WUN7, SB72, UBTD2_HUMAN, uc003mbp.1, uc003mbp.2, uc003mbp.3
UCSC ID: ENST00000393792.3
RefSeq Accession: NM_152277
Protein: Q8WUN7 (aka UBTD2_HUMAN)
CCDS: CCDS4379.2

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.