Version 5.4
Mus musculus Gene: Upf1
Summary
InnateDB Gene IDBG-162660.6
Last Modified 2014-10-13 [Report errors or provide feedback]
Gene Symbol Upf1
Gene Name UPF1 regulator of nonsense transcripts homolog (yeast)
Synonyms B430202H16Rik; NORF1; PNORF-1; Rent1; Upflp
Species Mus musculus
Ensembl Gene ENSMUSG00000058301
Encoded Proteins
IDBP-162662
UPF1 regulator of nonsense transcripts homolog (yeast)
Protein Structure
Useful resources Stemformatics EHFPI ImmGen
Entrez Gene
Summary This gene does not have any Entrez summary - the following is the summary from its human ortholog ENSG00000005007:
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 8:70331522-70353273
Strand Reverse strand
Band B3.3
Transcripts
ENSMUST00000075666 ENSMUSP00000075089
Interactions
Number of Interactions This gene and/or its encoded proteins are associated with 13 experimentally validated interaction(s) in this database.
They are also associated with 97 interaction(s) predicted by orthology.
Experimentally validated
Total 13 [view]
Protein-Protein 13 [view]
Protein-DNA 0
Protein-RNA 0
DNA-DNA 0
RNA-RNA 0
DNA-RNA 0
Predicted by orthology
Total 97 [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:0006449 regulation of translational termination
GO:0009048 dosage compensation by inactivation of X chromosome
GO:0071044 histone mRNA catabolic process
Cellular Component
GO:0000785 chromatin
GO:0000932 cytoplasmic mRNA processing body
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0035145 exon-exon junction complex
GO:0044530 supraspliceosomal complex
Orthologs
Species
Homo sapiens
Bos taurus
Gene ID
Gene Order
ENSG00000005007
View Gene Order
ENSBTAG00000020922
Not yet available
Pathways
NETPATH
REACTOME
REACT_198522
Nonsense-Mediated Decay (NMD) pathway
REACT_198528
Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) pathway
REACT_198524
Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) pathway
REACT_233572
Gene Expression pathway
KEGG
mmu03013
RNA transport pathway
mmu03015
mRNA surveillance pathway pathway
INOH
PID NCI
Pathway Predictions based on Human Orthology Data
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 Q9EPU0
TrEMBL
UniProt Splice Variant
Entrez Gene 19704
UniGene Mm.390048 Mm.487063
RefSeq NM_001122829 NM_030680 XM_006509604 XM_006509605
OMIM
CCDS CCDS52572
HPRD
IMGT
MGI ID MGI:107995
MGI Symbol Upf1
EMBL AF182947 AF322655 AK148196 AY597038 AY597039 BC030916 BC052149 BC056442
GenPept AAG42830 AAH30916 AAH52149 AAH56442 AAK08652 AAT46119 BAE28409
RNA Seq Atlas 19704

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