Human Gene UBE4B (uc001aqr.2)
  Description: ubiquitination factor E4B isoform 2
RefSeq Summary (NM_001105562): The modification of proteins with ubiquitin is an important cellular mechanism for targeting abnormal or short-lived proteins for degradation. Ubiquitination involves at least three classes of enzymes: ubiquitin-activating enzymes, or E1s, ubiquitin-conjugating enzymes, or E2s, and ubiquitin-protein ligases, or E3s. This gene encodes an additional conjugation factor, E4, which is involved in multiubiquitin chain assembly. This gene is also the strongest candidate in the neuroblastoma tumor suppressor genes. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg18 chr1:10,015,603-10,163,883 Size: 148,281 Total Exon Count: 27 Strand: +
Coding Region
   Position: hg18 chr1:10,016,316-10,162,601 Size: 146,286 Coding Exon Count: 27 

Page IndexSequence and LinksPrimersCTDMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesmRNA DescriptionsPathwaysOther NamesModel Information
Data last updated at UCSC: 2009-03-03

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr1:10,015,603-10,163,883)mRNA (may differ from genome)Protein (1173 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
TreefamUniProtKBBioGrid CRISPR DB

-  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

-  Microarray Expression Data
Expression ratio colors:

GNF Expression Atlas 2 Data from U133A and GNF1H Chips


Affymetrix All Exon Microarrays


-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -303.50713-0.426 Picture PostScript Text
3' UTR -357.161282-0.279 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
  Pfam Domains:
PF04564 - U-box domain

ModBase Predicted Comparative 3D Structure on O95155-2
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 BrowserGenome BrowserGenome BrowserGenome Browser
Gene Details  Gene DetailsGene DetailsGene Details
Gene Sorter  Gene SorterGene SorterGene Sorter
  Protein SequenceProtein SequenceProtein SequenceProtein Sequence

-  Descriptions from all associated GenBank mRNAs
  AB028839 - Homo sapiens HDNB1(homzygously deleted in neuroblastoma-1)/UFD2 mRNA, complete cds.
AB014584 - Homo sapiens KIAA0684 mRNA for KIAA0684 protein.
AK292444 - Homo sapiens cDNA FLJ78424 complete cds, highly similar to Homo sapiens ubiquitination factor E4B (UFD2 homolog, yeast) (UBE4B), mRNA.
BC047890 - Homo sapiens ubiquitination factor E4B (UFD2 homolog, yeast), mRNA (cDNA clone IMAGE:5492405), containing frame-shift errors.
BC093696 - Homo sapiens ubiquitination factor E4B (UFD2 homolog, yeast), mRNA (cDNA clone MGC:120731 IMAGE:7939541), complete cds.
BC143458 - Homo sapiens cDNA clone IMAGE:9051966.
BC143460 - Homo sapiens cDNA clone IMAGE:9051968.
AF043117 - Homo sapiens ubiquitin-fusion degradation protein 2 (UFD2) mRNA, complete cds.
AF331520 - Homo sapiens ubiquitin-fusion degradation protein 2 mRNA, complete cds.
AK304484 - Homo sapiens cDNA FLJ50370 complete cds, highly similar to Ubiquitin conjugation factor E4 B.
JF289274 - Homo sapiens Ufd2a-III/UBE4B-III splice isoform (Ube4B) mRNA, complete cds, alternatively spliced.
LF383929 - JP 2014500723-A/191432: Polycomb-Associated Non-Coding RNAs.
MA619506 - JP 2018138019-A/191432: Polycomb-Associated Non-Coding RNAs.
LF206732 - JP 2014500723-A/14235: Polycomb-Associated Non-Coding RNAs.
LF357423 - JP 2014500723-A/164926: Polycomb-Associated Non-Coding RNAs.
LF357421 - JP 2014500723-A/164924: Polycomb-Associated Non-Coding RNAs.
MA442309 - JP 2018138019-A/14235: Polycomb-Associated Non-Coding RNAs.
MA593000 - JP 2018138019-A/164926: Polycomb-Associated Non-Coding RNAs.
MA592998 - JP 2018138019-A/164924: Polycomb-Associated Non-Coding RNAs.
AK023654 - Homo sapiens cDNA FLJ13592 fis, clone PLACE1009477, highly similar to Homo sapiens ubiquitin-fusion degradation protein 2 (UFD2) mRNA.
AF091093 - Homo sapiens clone 686 unknown mRNA, complete sequence.
JD449846 - Sequence 430870 from Patent EP1572962.
JD473236 - Sequence 454260 from Patent EP1572962.
JD560814 - Sequence 541838 from Patent EP1572962.
JD396363 - Sequence 377387 from Patent EP1572962.
JD554995 - Sequence 536019 from Patent EP1572962.
JD128952 - Sequence 109976 from Patent EP1572962.
JD082320 - Sequence 63344 from Patent EP1572962.
JD232926 - Sequence 213950 from Patent EP1572962.
JD235416 - Sequence 216440 from Patent EP1572962.
JD094626 - Sequence 75650 from Patent EP1572962.
LF357418 - JP 2014500723-A/164921: Polycomb-Associated Non-Coding RNAs.
LF357417 - JP 2014500723-A/164920: Polycomb-Associated Non-Coding RNAs.
MA592995 - JP 2018138019-A/164921: Polycomb-Associated Non-Coding RNAs.
MA592994 - JP 2018138019-A/164920: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04120 - Ubiquitin mediated proteolysis

-  Other Names for This Gene
  Alternate Gene Symbols: HDNB1, KIAA0684, NM_006048, NP_006039, O95155-2, uc001aqr.1, UFD2
UCSC ID: uc001aqr.2
RefSeq Accession: NM_001105562
Protein: O95155-2, splice isoform of O95155 CCDS: CCDS110.1

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_006048.3
exon count: 27CDS single in 3' UTR: no RNA size: 5556
ORF size: 3522CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 7186.00frame shift in genome: no % Coverage: 99.30
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.