Mouse Gene Ube2b (ENSMUST00000020657.12) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus ubiquitin-conjugating enzyme E2B (Ube2b), transcript variant 2, mRNA. (from RefSeq NM_009458)
Gencode Transcript: ENSMUST00000020657.12
Gencode Gene: ENSMUSG00000020390.12
Transcript (Including UTRs)
   Position: mm10 chr11:51,985,497-52,000,484 Size: 14,988 Total Exon Count: 6 Strand: -
Coding Region
   Position: mm10 chr11:51,986,682-52,000,336 Size: 13,655 Coding Exon Count: 6 

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 (chr11:51,985,497-52,000,484)mRNA (may differ from genome)Protein (152 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
PubMedReactomeSOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: UBE2B_MOUSE
DESCRIPTION: RecName: Full=Ubiquitin-conjugating enzyme E2 B; EC=6.3.2.19; AltName: Full=E214K; AltName: Full=RAD6 homolog B; Short=HR6B; Short=mHR6B; AltName: Full=Ubiquitin carrier protein B; AltName: Full=Ubiquitin-protein ligase B;
FUNCTION: Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In association with the E3 enzyme BRE1 (RNF20 and/or RNF40), it plays a role in transcription regulation by catalyzing the monoubiquitination of histone H2B at 'Lys-120' to form H2BK120ub1. H2BK120ub1 gives a specific tag for epigenetic transcriptional activation, elongation by RNA polymerase II, telomeric silencing, and is also a prerequisite for H3K4me and H3K79me formation. In vitro catalyzes 'Lys-11'-, as well as 'Lys-48'- and 'Lys-63'-linked polyubiquitination. Required for postreplication repair of UV-damaged DNA. Associates to the E3 ligase RAD18 to form the UBE2B-RAD18 ubiquitin ligase complex involved in mono-ubiquitination of DNA-associated PCNA on 'Lys- 164'. May be involved in neurite outgrowth (By similarity).
CATALYTIC ACTIVITY: ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with RAD18, UBR2 and WAC.
SUBCELLULAR LOCATION: Cell membrane (By similarity). Nucleus (By similarity). Note=In peripheral neurons, expressed both at the plasma membrane and in nuclei (By similarity).
SIMILARITY: Belongs to the ubiquitin-conjugating enzyme family.

-  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 -62.70148-0.424 Picture PostScript Text
3' UTR -293.501185-0.248 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
IPR000608 - UBQ-conjugat_E2
IPR023313 - UBQ-conjugating_AS
IPR016135 - UBQ-conjugating_enzyme/RWD

Pfam Domains:
PF00179 - Ubiquitin-conjugating enzyme

SCOP Domains:
54495 - UBC-like

ModBase Predicted Comparative 3D Structure on P63147
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-  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 BrowserNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
GenBank     
Protein Sequence     
Alignment     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016740 transferase activity
GO:0031625 ubiquitin protein ligase binding
GO:0061630 ubiquitin protein ligase activity
GO:0061631 ubiquitin conjugating enzyme activity

Biological Process:
GO:0000209 protein polyubiquitination
GO:0001701 in utero embryonic development
GO:0006281 DNA repair
GO:0006301 postreplication repair
GO:0006344 maintenance of chromatin silencing
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0006513 protein monoubiquitination
GO:0006974 cellular response to DNA damage stimulus
GO:0007283 spermatogenesis
GO:0007288 sperm axoneme assembly
GO:0009411 response to UV
GO:0010845 positive regulation of reciprocal meiotic recombination
GO:0016567 protein ubiquitination
GO:0031056 regulation of histone modification
GO:0033128 negative regulation of histone phosphorylation
GO:0033522 histone H2A ubiquitination
GO:0042493 response to drug
GO:0043066 negative regulation of apoptotic process
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0043951 negative regulation of cAMP-mediated signaling
GO:0045141 meiotic telomere clustering
GO:0050821 protein stabilization
GO:0051026 chiasma assembly
GO:0051865 protein autoubiquitination
GO:0060070 canonical Wnt signaling pathway
GO:0070076 histone lysine demethylation
GO:0070193 synaptonemal complex organization
GO:0070534 protein K63-linked ubiquitination
GO:0070936 protein K48-linked ubiquitination
GO:0070979 protein K11-linked ubiquitination

Cellular Component:
GO:0000785 chromatin
GO:0000790 nuclear chromatin
GO:0001741 XY body
GO:0005634 nucleus
GO:0005657 replication fork
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0033503 HULC complex


-  Descriptions from all associated GenBank mRNAs
  AK147785 - Mus musculus melanocyte cDNA, RIKEN full-length enriched library, clone:G270037A10 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK190260 - Mus musculus cDNA, clone:Y1G0102D17, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020657, based on BLAT search.
AK152316 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830061H19 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK152645 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830081L10 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK153174 - Mus musculus bone marrow macrophage cDNA, RIKEN full-length enriched library, clone:I830126D18 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK169229 - Mus musculus 17 days pregnant adult female amnion cDNA, RIKEN full-length enriched library, clone:I920095C14 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK011363 - Mus musculus 10 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2610009I04 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK206921 - Mus musculus cDNA, clone:Y2G0106F24, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020657, based on BLAT search.
AK202623 - Mus musculus cDNA, clone:Y1G0142D10, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020657, based on BLAT search.
AK204838 - Mus musculus cDNA, clone:Y1G0149M12, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020657, based on BLAT search.
BC132075 - Mus musculus ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), mRNA (cDNA clone MGC:163706 IMAGE:40130352), complete cds.
BC132077 - Mus musculus ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), mRNA (cDNA clone MGC:163708 IMAGE:40130354), complete cds.
X96859 - M.musculus mRNA for ubiquitin-conjugating enzyme.
U57690 - Mus musculus ubiquitin-conjugating enzyme E214K mRNA, complete cds.
AK010432 - Mus musculus ES cells cDNA, RIKEN full-length enriched library, clone:2410006O05 product:UBIQUITIN-CONJUGATING ENZYME E2 B (EC 6.3.2.19) (UBIQUITIN-PROTEIN LIGASE B) (UBIQUITIN CARRIER PROTEIN B) (HR6B) (E2-17 KDA) homolog [Mus musculus], full insert sequence.
AK210213 - Mus musculus cDNA, clone:Y2G0117K21, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000020657, based on BLAT search.
AK135056 - Mus musculus adult male olfactory brain cDNA, RIKEN full-length enriched library, clone:6430560N03 product:hypothetical protein, full insert sequence.
AK161008 - Mus musculus 15 days embryo head cDNA, RIKEN full-length enriched library, clone:4022443B06 product:ubiquitin-conjugating enzyme E2B, RAD6 homology (S. cerevisiae), full insert sequence.
AK011954 - Mus musculus 10 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2610301G21 product:unclassifiable, full insert sequence.
AK011961 - Mus musculus 10 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2610301N02 product:unclassifiable, full insert sequence.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu04120 - Ubiquitin mediated proteolysis

Reactome (by CSHL, EBI, and GO)

Protein P63147 (Reactome details) participates in the following event(s):

R-MMU-983152 Transfer of ubiquitin from E1 to E2
R-MMU-983140 Transfer of Ub from E2 to substrate and release of E2
R-MMU-8852130 UBA1 conjugates ubiquitin to nuclear E2 enzymes
R-MMU-983157 Interaction of E3 with substrate and E2-Ub complex
R-MMU-5652005 RAD18:UBE2B or RBX1:CUL4:DDB1:DTL ubiquitin ligase complex binds PCNA:POLD,POLE:RPA:RFC associated with damaged dsDNA
R-MMU-5652009 RAD18:UBE2B or RBX1:CUL4:DDB1:DTL monoubiquitinates PCNA
R-MMU-8942099 RNF20:RNF40 binds PAF complex, Ubiquitin:UBE2A,B (Ubiquitin:RAD6), WAC and Histone H2B
R-MMU-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-MMU-8866652 Synthesis of active ubiquitin: roles of E1 and E2 enzymes
R-MMU-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-MMU-983169 Class I MHC mediated antigen processing & presentation
R-MMU-110314 Recognition of DNA damage by PCNA-containing replication complex
R-MMU-8852135 Protein ubiquitination
R-MMU-1280218 Adaptive Immune System
R-MMU-73893 DNA Damage Bypass
R-MMU-597592 Post-translational protein modification
R-MMU-168256 Immune System
R-MMU-73894 DNA Repair
R-MMU-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: NM_009458, P23567, P63147, Q3UGS2, Q9D0J6, Rad6b, UBE2B_MOUSE, uc007iut.1, uc007iut.2, uc007iut.3
UCSC ID: uc007iut.3
RefSeq Accession: NM_009458
Protein: P63147 (aka UBE2B_MOUSE or UBC2_MOUSE)
CCDS: CCDS24664.1

-  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.