Human Gene UBE3C (ENST00000348165.10_4) from GENCODE V47lift37
  Description: ubiquitin protein ligase E3C (from RefSeq NM_014671.3)
Gencode Transcript: ENST00000348165.10_4
Gencode Gene: ENSG00000009335.19_10
Transcript (Including UTRs)
   Position: hg19 chr7:156,931,620-157,062,064 Size: 130,445 Total Exon Count: 23 Strand: +
Coding Region
   Position: hg19 chr7:156,931,967-157,060,449 Size: 128,483 Coding Exon Count: 23 

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 (chr7:156,931,620-157,062,064)mRNA (may differ from genome)Protein (1083 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: UBE3C_HUMAN
DESCRIPTION: RecName: Full=Ubiquitin-protein ligase E3C; EC=6.3.2.-; AltName: Full=HectH2;
FUNCTION: E3 ubiquitin-protein ligase that accepts ubiquitin from the E2 ubiquitin-conjugating enzyme UBE2D1 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. Can assemble unanchored poly-ubiquitin chains in either 'Lys-29'- or 'Lys-48'-linked polyubiquitin chains. Has preference for 'Lys-48' linkages. It can target itself for ubiquitination in vitro and may promote its own degradation in vivo.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with 26S proteasomes. Interacts (via the N- terminal) with CAND2; the interaction stimulates ubiquitination of CAND2 in vitro. May interact (via the HECT domain) with UBE2D1 and, less efficiently, with UBE2L3.
SUBCELLULAR LOCATION: Nucleus (Potential).
TISSUE SPECIFICITY: Highly expressed in skeletal muscle. Detected at much lower levels in kidney and pancreas.
DOMAIN: The C-terminal is necessary and sufficient for the poly- ubiquitin chain assembly.
MISCELLANEOUS: A cysteine residue is required for ubiquitin- thioester formation.
SIMILARITY: Contains 1 HECT (E6AP-type E3 ubiquitin-protein ligase) domain.
SIMILARITY: Contains 1 IQ domain.
SEQUENCE CAUTION: Sequence=BAA02799.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  Primer design for this transcript
 

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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: 19.98 RPKM in Cells - Cultured fibroblasts
Total median expression: 665.80 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 -206.80347-0.596 Picture PostScript Text
3' UTR -491.701615-0.304 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
IPR000569 - HECT
IPR000048 - IQ_motif_EF-hand-BS

Pfam Domains:
PF00612 - IQ calmodulin-binding motif
PF00632 - HECT-domain (ubiquitin-transferase)

SCOP Domains:
56204 - Hect, E3 ligase catalytic domain

ModBase Predicted Comparative 3D Structure on Q15386
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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 orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0000209 protein polyubiquitination
GO:0016567 protein ubiquitination

Cellular Component:
GO:0000502 proteasome complex
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  D13635 - Homo sapiens KIAA0010 mRNA.
AB385265 - Synthetic construct DNA, clone: pF1KA0010, Homo sapiens UBE3C gene for ubiquitin-protein ligase E3C, complete cds, without stop codon, in Flexi system.
AK295138 - Homo sapiens cDNA FLJ61262 complete cds, highly similar to Ubiquitin-protein ligase E3C (EC 6.3.2.-).
AK127280 - Homo sapiens cDNA FLJ45347 fis, clone BRHIP3011082, highly similar to Homo sapiens ubiquitin-protein isopeptide ligase (E3).
BC026241 - Homo sapiens ubiquitin protein ligase E3C, mRNA (cDNA clone IMAGE:4696496), complete cds.
BC014029 - Homo sapiens ubiquitin protein ligase E3C, mRNA (cDNA clone MGC:19944 IMAGE:4541634), complete cds.
JD129671 - Sequence 110695 from Patent EP1572962.
CU693170 - Synthetic construct Homo sapiens gateway clone IMAGE:100022263 5' read UBE3C mRNA.
CU680748 - Synthetic construct Homo sapiens gateway clone IMAGE:100019980 5' read UBE3C mRNA.
KJ906004 - Synthetic construct Homo sapiens clone ccsbBroadEn_15674 UBE3C gene, encodes complete protein.
KJ902011 - Synthetic construct Homo sapiens clone ccsbBroadEn_11405 UBE3C gene, encodes complete protein.
JD418526 - Sequence 399550 from Patent EP1572962.
JD130111 - Sequence 111135 from Patent EP1572962.
JD324844 - Sequence 305868 from Patent EP1572962.
JD199233 - Sequence 180257 from Patent EP1572962.
JD423029 - Sequence 404053 from Patent EP1572962.
JD304170 - Sequence 285194 from Patent EP1572962.
JD282476 - Sequence 263500 from Patent EP1572962.
JD148177 - Sequence 129201 from Patent EP1572962.
JD249466 - Sequence 230490 from Patent EP1572962.
JD547368 - Sequence 528392 from Patent EP1572962.
JD131215 - Sequence 112239 from Patent EP1572962.
JD540363 - Sequence 521387 from Patent EP1572962.
JD456762 - Sequence 437786 from Patent EP1572962.
JD296181 - Sequence 277205 from Patent EP1572962.
JD226759 - Sequence 207783 from Patent EP1572962.
JD546229 - Sequence 527253 from Patent EP1572962.
JD181229 - Sequence 162253 from Patent EP1572962.
JD173163 - Sequence 154187 from Patent EP1572962.
JD038621 - Sequence 19645 from Patent EP1572962.
JD077184 - Sequence 58208 from Patent EP1572962.
JD360311 - Sequence 341335 from Patent EP1572962.

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

Protein Q15386 (Reactome details) participates in the following event(s):

R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-1280218 Adaptive Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A4D235, A6NCP3, ENST00000348165.1, ENST00000348165.2, ENST00000348165.3, ENST00000348165.4, ENST00000348165.5, ENST00000348165.6, ENST00000348165.7, ENST00000348165.8, ENST00000348165.9, KIAA0010 , KIAA10 , NM_014671, Q15386, Q8TC15, Q96CR4, Q9UDU3, UBE3C , UBE3C_HUMAN, uc317xqe.1, uc317xqe.2
UCSC ID: ENST00000348165.10_4
RefSeq Accession: NM_014671.3
Protein: Q15386 (aka UBE3C_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.