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 binding646
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
cytoplasm4206
Annotation ExtensionEvidenceWith/FromReference
cytosol2316
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
sensitive to hydrogen peroxideupf2ΔNull137
viable vegetative cell populationupf2ΔNull3783

Cell Phenotype

Term NameAlleleExpressionCount
abolished nonsense-mediated decayupf2-4GH1,2 (Y545A, E548A, Y748A, E751A)Not specified1
upf2ΔNull
decreased nonsense-mediated decayupf2-4GH1 (Y545A, E548A, Y748A, E751A)Not specified2
upf2-4GH2 (Y748A, E751A)Not specified
upf2ΔNull
viable vegetative cell with normal cell morphologyupf2ΔNull3092
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
124720612468576

UTRs

Region Coordinates Reference
five_prime_UTR2472061..2471944PMID:21511999
three_prime_UTR2468793..2468576AU012873
exon2471943..2468794
mRNA2472061..2468576
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 2 876 1047 1
PF02854 Pfam IPR003890 MIF4G-like, type 3 456 633 5
PF02854 Pfam IPR003890 MIF4G-like, type 3 41 292 5
PF02854 Pfam IPR003890 MIF4G-like, type 3 653 852 5
SM00543 SMART IPR003890 MIF4G-like, type 3 41 282 5
SM00543 SMART IPR003890 MIF4G-like, type 3 649 855 5
SM00543 SMART IPR003890 MIF4G-like, type 3 446 634 5
PTHR12839 HMMPANTHER 4 1049 1
1.25.40.180 Gene3D IPR016021 MIF4-like, type 1/2/3 908 919 7
1.25.40.180 Gene3D IPR016021 MIF4-like, type 1/2/3 445 634 7
1.25.40.180 Gene3D IPR016021 MIF4-like, type 1/2/3 648 869 7
SSF48371 SuperFamily IPR016024 Armadillo-type fold 648 883 130
SSF48371 SuperFamily IPR016024 Armadillo-type fold 444 634 130
Coil ncoils Rabaptin coiled-coil domain 929 957 968
Coil ncoils Rabaptin coiled-coil domain 859 880 968

View domain organization at Pfam

Protein Properties

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

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1249.34during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.78during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4604
conserved in eukaryotes4516
conserved in metazoa3432
conserved in vertebrates3407
conserved in eukaryotes only2503
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

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)
Cyclebase SPAC19A8.08 Cell Cycle Data
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
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 ArchiveAAG33226.1ENA Protein Mapping
European Nucleotide ArchiveCAB11644.1ENA Protein Mapping
UniParcUPI0000130269UniProt Archive

Literature for upf2

Search: Europe PMC or PubMed

Release Version: PomBase:25_49 - 02 Feb 2015