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Tbio
UPF3B
Regulator of nonsense transcripts 3B

Protein Summary
Description
Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with the nuclear exon junction complex (EJC) and serving as link between the EJC core and NMD machinery. Recruits UPF2 at the cytoplasmic side of the nuclear envelope and the subsequent formation of an UPF1-UPF2-UPF3 surveillance complex (including UPF1 bound to release factors at the stalled ribosome) is believed to activate NMD. In cooperation with UPF2 stimulates both ATPase and RNA helicase activities of UPF1. Binds spliced mRNA upstream of exon-exon junctions. In vitro, stimulates translation; the function is independent of association with UPF2 and components of the EJC core. This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. The encoded protein is one of two functional homologs to yeast Upf3p. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-me ...more
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000276201
  • ENSP00000276201
  • ENSG00000125351
  • ENST00000345865
  • ENSP00000245418

Symbol
  • RENT3B
  • UPF3X
  • MRX62
  • UPF3X
  • HUPF3B
  • MRXS14
  • RENT3B
  • UPF3BP1
  • UPF3BP2
  • UPF3BP3
  • Upf3p-X
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
histone modification site profile
0.89
biological process
0.73
disease perturbation
0.68
tissue
0.63
pathway
0.6


Related Tools
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 31.5   (req: < 5)
Gene RIFs: 19   (req: <= 3)
Antibodies: 91   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 31.5   (req: >= 5)
Gene RIFs: 19   (req: > 3)
Antibodies: 91   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 9
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
Orthologs (12)
1 – 5 of 12
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
UPF3B, regulator of nonsense mediated mRNA decay
VGNC:14820
465954
Macaque
UPF3B, regulator of nonsense mediated mRNA decay
694247
Mouse
MGI:1915384
68134
Rat
RGD:1560264
313449
Dog
UPF3B, regulator of nonsense mediated mRNA decay
VGNC:48153
481031
Species
Name
OMA
EggNOG
Inparanoid
Chimp
UPF3B, regulator of nonsense mediated mRNA decay
Macaque
UPF3B, regulator of nonsense mediated mRNA decay
Mouse
Rat
Dog
UPF3B, regulator of nonsense mediated mRNA decay
Protein Structure (2 Structures, 1 AlphaFold Model)
RepresentationColor Scheme

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q9BZI7-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 2 of 2
PDB Structure Id
Ligand
Method
Resolution (Å)
Residues
Fraction of Total Protein
Pub Year
Title
PDB Structure Id
Fraction of Total Protein
Resolution
Pub Year
Pathways (18)
Axon guidance (R-HSA-422475)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 16
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Axon guidance
Reactome
Developmental Biology
Reactome
Gene expression (Transcription)
Reactome
Metabolism of RNA
Reactome
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
Name
Explore in Pharos
Explore in Source
Axon guidance
Developmental Biology
Gene expression (Transcription)
Metabolism of RNA
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)
Gene Ontology Terms (16)
Items per page:
10
1 – 3 of 3
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from High Throughput Direct Assay (HDA)
UniProtKB
Non-traceable Author Statement (NAS)
UniProtKB
Protein-Protein Interactions (373)
1 – 10 of 373
DEFA5
Tbio
Novelty: 0.00863727
p_int: 0.967946434
p_ni: 0.032053566
Data Source: BioPlex
CCDC60
Tdark
Novelty: 0.62801145
p_int: 0.93875187
p_ni: 0.06124813
Score: 0.199
Data Source: BioPlex,STRINGDB
SLC4A8
Tbio
Family: Transporter
Novelty: 0.01606111
p_int: 0.786246994
p_ni: 0.213752606
p_wrong: 4e-7
Score: 0.179
Data Source: BioPlex,STRINGDB
FADS3
Tbio
Family: Enzyme
Novelty: 0.02899077
p_int: 0.763504799
p_ni: 0.236495146
p_wrong: 5.5e-8
Data Source: BioPlex
ZNF280A
Tdark
Novelty: 0.20436014
p_int: 0.751866874
p_ni: 0.247668008
p_wrong: 0.000465117
Score: 0.376
Data Source: BioPlex,STRINGDB
RLIM
Tbio
Family: Enzyme
Novelty: 0.02267745
p_int: 0.750994888
p_ni: 0.24900504
p_wrong: 7.2e-8
Score: 0.474
Data Source: BioPlex,STRINGDB
NXF1
Tbio
Novelty: 0.00642439
Score: 0.999
Data Source: STRINGDB
SMG1
Tchem
Family: Kinase
Novelty: 0.00854339
Score: 0.999
Data Source: STRINGDB
UPF1
Tbio
Novelty: 0.00311006
Score: 0.999
Data Source: STRINGDB
EIF4A3
Tbio
Novelty: 0.00981496
Score: 0.999
Data Source: Reactome,STRINGDB
Publication Statistics
PubMed Score  31.50

PubMed score by year
PubTator Score  25.52

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
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