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Upf1 UPF1 regulator of nonsense transcripts homolog (yeast) [ Mus musculus (house mouse) ]

Gene ID: 19704, updated on 31-Jan-2019

Summary

Official Symbol
Upf1provided by MGI
Official Full Name
UPF1 regulator of nonsense transcripts homolog (yeast)provided by MGI
Primary source
MGI:MGI:107995
See related
Ensembl:ENSMUSG00000058301
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
NORF1; Rent1; Upflp; PNORF-1; B430202H16Rik
Expression
Ubiquitous expression in thymus adult (RPKM 29.6), adrenal adult (RPKM 22.9) and 28 other tissues See more
Orthologs

Genomic context

See Upf1 in Genome Data Viewer
Location:
8 B3.3; 8 34.15 cM
Exon count:
24
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 8 NC_000074.6 (70331522..70353422, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (72855421..72877172, complement)

Chromosome 8 - NC_000074.6Genomic Context describing neighboring genes Neighboring gene homer scaffolding protein 3 Neighboring gene DEAD (Asp-Glu-Ala-Asp) box polypeptide 49 Neighboring gene coatomer protein complex, subunit epsilon Neighboring gene ceramide synthase 1 Neighboring gene growth differentiation factor 1 Neighboring gene cartilage oligomeric matrix protein Neighboring gene CREB regulated transcription coactivator 1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
ATP-dependent RNA helicase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
ATP-dependent RNA helicase activity ISO
Inferred from Sequence Orthology
more info
 
DNA binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding ISO
Inferred from Sequence Orthology
more info
 
chromatin binding ISO
Inferred from Sequence Orthology
more info
 
helicase activity IEA
Inferred from Electronic Annotation
more info
 
hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
3'-UTR-mediated mRNA destabilization ISO
Inferred from Sequence Orthology
more info
 
DNA repair ISO
Inferred from Sequence Orthology
more info
 
DNA replication ISO
Inferred from Sequence Orthology
more info
 
cell cycle phase transition ISO
Inferred from Sequence Orthology
more info
 
cellular response to interleukin-1 ISO
Inferred from Sequence Orthology
more info
 
cellular response to lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
 
dosage compensation by inactivation of X chromosome IMP
Inferred from Mutant Phenotype
more info
PubMed 
histone mRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
nuclear-transcribed mRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
nuclear-transcribed mRNA catabolic process, endonucleolytic cleavage-dependent decay ISO
Inferred from Sequence Orthology
more info
 
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
Inferred from Sequence Orthology
more info
 
positive regulation of mRNA catabolic process ISO
Inferred from Sequence Orthology
more info
 
regulation of telomere maintenance ISO
Inferred from Sequence Orthology
more info
 
regulation of translational termination ISO
Inferred from Sequence Orthology
more info
 
telomere maintenance via semi-conservative replication ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
chromatin ISO
Inferred from Sequence Orthology
more info
 
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
exon-exon junction complex ISO
Inferred from Sequence Orthology
more info
 
nuclear chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
 
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus ISO
Inferred from Sequence Orthology
more info
 
supraspliceosomal complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
regulator of nonsense transcripts 1
Names
ATP-dependent helicase RENT1
regulator of nonsense transcripts 1 (Nonsense mRNA reducing factor 1) (NORF1) (Up-frameshift suppressor 1 homolog)

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001122829.2NP_001116301.1  regulator of nonsense transcripts 1 isoform a

    See identical proteins and their annotated locations for NP_001116301.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AC158553, BC052149, BC056442, BE456815
    Consensus CDS
    CCDS52572.1
    UniProtKB/Swiss-Prot
    Q9EPU0
    Related
    ENSMUSP00000075089.6, ENSMUST00000075666.7
    Conserved Domains (2) summary
    COG1112
    Location:140915
    DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
    pfam12764
    Location:10001096
    Gly-rich_Ago1; Glycine-rich region of argonaut
  2. NM_030680.3NP_109605.2  regulator of nonsense transcripts 1 isoform b

    See identical proteins and their annotated locations for NP_109605.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (b) is shorter compared to isoform a.
    Source sequence(s)
    AC158553, BC052149, BE456815, BQ771453
    UniProtKB/Swiss-Prot
    Q9EPU0
    Related
    ENSMUSP00000148927.1, ENSMUST00000215817.1
    Conserved Domains (2) summary
    COG1112
    Location:140904
    DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
    pfam12764
    Location:9891085
    Gly-rich_Ago1; Glycine-rich region of argonaut

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000074.6 Reference GRCm38.p4 C57BL/6J

    Range
    70331522..70353422 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006509605.3XP_006509668.1  regulator of nonsense transcripts 1 isoform X1

    See identical proteins and their annotated locations for XP_006509668.1

    UniProtKB/Swiss-Prot
    Q9EPU0
    Conserved Domains (2) summary
    COG1112
    Location:140915
    DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
    pfam12764
    Location:10001096
    Gly-rich_Ago1; Glycine-rich region of argonaut
  2. XM_006509604.3XP_006509667.1  regulator of nonsense transcripts 1 isoform X1

    See identical proteins and their annotated locations for XP_006509667.1

    UniProtKB/Swiss-Prot
    Q9EPU0
    Conserved Domains (2) summary
    COG1112
    Location:140915
    DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]
    pfam12764
    Location:10001096
    Gly-rich_Ago1; Glycine-rich region of argonaut
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