upf2 (SPAC19A8.08)

Gene Standard Nameupf2 Characterisation Statuspublished
Systematic IDSPAC19A8.08 Feature Typeprotein coding
Synonyms Name Description
Productnonsense-mediated decay protein Upf2 Product Size1049aa, 122.10 kDa
Genomic Location Chromosome I, 2472061-2468576 (3486nt); CDS:2471943-2468794 (3150nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
RNA binding576
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
Annotation ExtensionEvidenceWith/FromReference
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Single-allele Phenotypes

Population Phenotype

Term NameGenotypesCount
decreased vegetative cell population growthupf2Δ588
sensitive to hydrogen peroxideupf2Δ140
sensitive to hydroxyureaupf2Δ538
viable vegetative cell populationupf2Δ3815

Cell Phenotype

Term NameGenotypesCount
abolished nonsense-mediated decayupf2-4GH1,2 (Y545A, E548A, Y748A, E751A)1
decreased nonsense-mediated decayupf2-4GH2 (Y748A, E751A)2
upf2-4GH1 (Y545A, E548A, Y748A, E751A)
viable elongated vegetative cellupf2Δ305
viable vegetative cell with normal cell morphologyupf2Δ3095
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
5' UTR2472061..2471944PMID:21511999
3' UTR2468793..2468576AU012873
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF04050 Pfam IPR007193 Up-frameshift suppressor 2 896 1047 1
PF02854 Pfam IPR003890 MIF4G-like, type 3 652 853 4
PF02854 Pfam IPR003890 MIF4G-like, type 3 41 296 4
PF02854 Pfam IPR003890 MIF4G-like, type 3 451 633 4
SM00543 SMART IPR003890 MIF4G-like, type 3 649 855 5
SM00543 SMART IPR003890 MIF4G-like, type 3 446 634 5
SM00543 SMART IPR003890 MIF4G-like, type 3 41 282 5
PTHR12839 HMMPANTHER 4 1049 1 Gene3D IPR016021 MIF4G-like domain 445 634 7 Gene3D IPR016021 MIF4G-like domain 648 869 7 Gene3D IPR016021 MIF4G-like domain 908 919 7
SSF48371 SuperFamily IPR016024 Armadillo-type fold 444 634 130
SSF48371 SuperFamily IPR016024 Armadillo-type fold 648 883 130
Coil ncoils Rabaptin coiled-coil domain 929 956 1048
Coil ncoils Rabaptin coiled-coil domain 859 879 1048

View domain organization at Pfam

Protein Properties

Ave. residue weight 116.39 Da
Charge -18.00
Codon Adpatation Index 0.40
Isoelectric point 5.22
Molecular weight 122.10 kDa
Number of residues 1049
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1249.34during GO:0072690PECO:0000014,
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2during GO:0072690PECO:0000014,
population wideexperimental evidencePMID:23101633
0.78during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
predominantly single copy (one to one)3090
conserved in fungi4604
conserved in eukaryotes4514
conserved in metazoa3421
conserved in vertebrates3396
conserved in eukaryotes only2503

Manually curated orthologous groups


Orthologs in Compara

Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
synthetically rescuesmis18kinetochore protein Mis18 Synthetic RescuePMID:24774534
synthetically rescuesmis19centromere protein Mis19/Eic1 Synthetic RescuePMID:24774534
External References
Database Identifier Description
NBRP SPAC19A8.08 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC19A8.08 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC19A8.08 BioGRID Interaction Datasets
Expression Viewer SPAC19A8.08 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC19A8.08 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC19A8.08 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC19A8.08 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC19A8.08 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC19A8.08 Transcriptome Viewer (Bähler Lab)
GEO SPAC19A8.08 GEO profiles
PInt SPAC19A8.08 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC19A8.08 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC19A8.08 Fission yeast phenotypic data & analysis
Cyclebase SPAC19A8.08.1 Cell Cycle Data
SPD / RIKEN30/30B05Orfeome Localization Data
UniProtKB/SwissProtO13824Nonsense-mediated mRNA decay protein 2
ModBaseO13824Database of comparative protein structure models
STRINGO13824Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593784nonsense-mediated decay protein Upf2
RefSeq mRNANM_001019213972h- nonsense-mediated decay protein Upf2 (upf2), mRNA
European Nucleotide ArchiveAF301014ENA EMBL mapping
European Nucleotide ArchiveCU329670ENA EMBL mapping
European Nucleotide ArchiveAAG33226ENA Protein Mapping
European Nucleotide ArchiveAAG33226.1ENA Protein Mapping
European Nucleotide ArchiveCAB11644ENA Protein Mapping
European Nucleotide ArchiveCAB11644.1ENA Protein Mapping
UniParcUPI0000130269UniProt Archive

Literature for upf2

Search: Europe PMC or PubMed

Release Version: PomBase:28_55 - 09 Sep 2015