Version 5.4
Homo sapiens Gene: UPF1
Summary
InnateDB Gene IDBG-38885.6
Last Modified 2014-10-13 [Report errors or provide feedback]
Gene Symbol UPF1
Gene Name UPF1 regulator of nonsense transcripts homolog (yeast)
Synonyms HUPF1; NORF1; pNORF1; RENT1; smg-2
Species Homo sapiens
Ensembl Gene ENSG00000005007
Encoded Proteins
IDBP-38887
UPF1 regulator of nonsense transcripts homolog (yeast)
IDBP-761048
Protein Structure
Useful resources Stemformatics EHFPI ImmGen
Entrez Gene
Summary This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein is located only in the cytoplasm. When translation ends, it interacts with the protein that is a functional homolog of yeast Upf2p to trigger mRNA decapping. Use of multiple polyadenylation sites has been noted for this gene. [provided by RefSeq, Jul 2008]
This gene encodes a protein that is part of a post-splicing multiprotein complex involved in both mRNA nuclear export and mRNA surveillance. mRNA surveillance detects exported mRNAs with truncated open reading frames and initiates nonsense-mediated mRNA decay (NMD). When translation ends upstream from the last exon-exon junction, this triggers NMD to degrade mRNAs containing premature stop codons. This protein is located only in the cytoplasm. When translation ends, it interacts with the protein that is a functional homolog of yeast Upf2p to trigger mRNA decapping. Use of multiple polyadenylation sites has been noted for this gene. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2014]
Gene Information
Type Protein coding
Genomic Location Chromosome 19:18831938-18868236
Strand Forward strand
Band p13.11
Transcripts
ENST00000262803 ENSP00000262803
ENST00000600689
ENST00000599848 ENSP00000470142
ENST00000600868
ENST00000594504
ENST00000594243
ENST00000600012
ENST00000601981
ENST00000601689
ENST00000600310
ENST00000598209
ENST00000598471
ENST00000596842
Interactions
Number of Interactions This gene and/or its encoded proteins are associated with 155 experimentally validated interaction(s) in this database.
They are also associated with 1 interaction(s) predicted by orthology.
Experimentally validated
Total 155 [view]
Protein-Protein 153 [view]
Protein-DNA 1 [view]
Protein-RNA 0
DNA-DNA 1 [view]
RNA-RNA 0
DNA-RNA 0
Predicted by orthology
Total 1 [view]
Gene Ontology

Molecular Function
Accession GO Term
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003723 RNA binding
GO:0004004 ATP-dependent RNA helicase activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0044822 poly(A) RNA binding
Biological Process
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay
GO:0000956 nuclear-transcribed mRNA catabolic process
GO:0006200 ATP catabolic process
GO:0006260 DNA replication
GO:0006281 DNA repair
GO:0006406 mRNA export from nucleus
GO:0006449 regulation of translational termination
GO:0009048 dosage compensation by inactivation of X chromosome
GO:0010467 gene expression
GO:0016070 RNA metabolic process
GO:0016071 mRNA metabolic process
GO:0071044 histone mRNA catabolic process
Cellular Component
GO:0000785 chromatin
GO:0000932 cytoplasmic mRNA processing body
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0035145 exon-exon junction complex
GO:0044530 supraspliceosomal complex
Orthologs
Species
Mus musculus
Bos taurus
Gene ID
Gene Order
ENSMUSG00000058301
View Gene Order
ENSBTAG00000020922
Not yet available
Pathways
NETPATH
REACTOME
REACT_75768
Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) pathway
REACT_75822
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) pathway
REACT_75886
Nonsense-Mediated Decay (NMD) pathway
REACT_71
Gene Expression pathway
KEGG
hsa03013
RNA transport pathway
hsa03015
mRNA surveillance pathway pathway
INOH
PID NCI
Cross-References
SwissProt
TrEMBL
UniProt Splice Variant
Entrez Gene
UniGene Hs.515266 Hs.707440
RefSeq NM_001297549 NM_002911 XM_005260015
HUGO
OMIM
CCDS CCDS12386 CCDS74315
HPRD 03254
IMGT
EMBL
GenPept
RNA Seq Atlas

If you use InnateDB for your research, please cite the following publication:

Breuer et al., InnateDB: systems biology of innate immunity and beyond - recent updates and continuing curation. Nucl. Acids Res. (2013) 41 (D1) 

InnateDB is being developed jointly by the Brinkman Laboratory (Simon Fraser University, British Columbia, Canada), the Hancock Laboratory (University of British Columbia, Vancouver, British Columbia) and the Lynn EMBL Australia Group (South Australian Health & Medical Research Institute and Flinders University, Adelaide, Australia).

Funding is currently provided by Allergen and EMBL Australia. Previous funding has been provided by Genome Canada, the Foundation for the National Institutes of Health through the Grand Challenges in Global Health initiative and by Teagasc. InnateDB curated interactions are licensed under the Design Science License. All other data is licensed under the terms of the originating database. Contact: innatedb-mail@sfu.ca