This page displays GO annotations in different sections according to the annotation method used to add that annotation to SGD.

Last Reviewed on: 2003-01-08    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
molecular_function unknown	ND: No Biological Data Available Assigned on 2003-01-08	SGD  (2002) Use of the ND evidence code for Gene Ontology (GO) terms in SGD ()	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	IGI: Inferred from Genetic Interaction with SGD:XRN1 Assigned on 2009-03-06	Takahashi S, et al.  (2003) Interaction between Ski7p and Upf1p is required for nonsense-mediated 3'-to-5' mRNA decay in yeast. EMBO J 22(15):3951-9	SGD
protein ubiquitination	IMP: Inferred from Mutant Phenotype Assigned on 2008-08-22 IPI: Inferred from Physical Interaction with SGD:NAM7 Assigned on 2008-08-22	Takahashi S, et al.  (2008) Upf1 potentially serves as a RING-related E3 ubiquitin ligase via its association with Upf3 in yeast. RNA 14(9):1950-8	SGD
NOT translational frameshifting	IMP: Inferred from Mutant Phenotype Assigned on 2005-03-01	Harger JW and Dinman JD  (2004) Evidence against a direct role for the Upf proteins in frameshifting or nonsense codon readthrough. RNA 10(11):1721-9	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
cytoplasm	IDA: Inferred from Direct Assay Assigned on 2011-04-01	Shirley RL, et al.  (2002) Nuclear import of Upf3p is mediated by importin-alpha/-beta and export to the cytoplasm is required for a functional nonsense-mediated mRNA decay pathway in yeast. Genetics 161(4):1465-82	SGD
nucleolus	IDA: Inferred from Direct Assay Assigned on 2011-04-01	Shirley RL, et al.  (2002) Nuclear import of Upf3p is mediated by importin-alpha/-beta and export to the cytoplasm is required for a functional nonsense-mediated mRNA decay pathway in yeast. Genetics 161(4):1465-82	SGD
nucleus	IDA: Inferred from Direct Assay Assigned on 2005-03-01	Shirley RL, et al.  (1998) A factor required for nonsense-mediated mRNA decay in yeast is exported from the nucleus to the cytoplasm by a nuclear export signal sequence. J Cell Sci 111 ( Pt 21):3129-43	SGD
polysome	IDA: Inferred from Direct Assay Assigned on 2002-05-28	Atkin AL, et al.  (1997) Relationship between yeast polyribosomes and Upf proteins required for nonsense mRNA decay. J Biol Chem 272(35):22163-72	SGD

* Manually curated GO annotations reflect our best understanding of the basic molecular function, biological process, and cellular component for this gene product. Manually curated annotations are assigned by SGD curators based on published papers when available, or by curatorial statements if necessary. Curators periodically review all Manually curated GO annotations for accuracy and completeness. The "Last Reviewed on:" date at the top of this section indicates when these annotations were last reviewed.

There are no High-throughput annotations for UPF3

** GO annotations from High-throughput experiments are made based on a variety of large scale high-throughput experiments, including genome-wide experiments. Many of these annotations are made based on GO annotations (or mappings to GO annotations) assigned by the authors, rather than SGD curators. While SGD curators read these publications and often work closely with authors to incorporate the information, each individual annotation may not necessarily be reviewed by a curator. GO Annotations from high-throughput experiments will be assigned only when this type of data is available, and thus may not be assigned in all three aspects of the Gene Ontologies.

Molecular Function | Biological Process | Cellular Component

Computational Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
nucleotide binding	IEA: Inferred from Electronic Annotation with EBI:IPR012677 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

Computational Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	IEA: Inferred from Electronic Annotation with EBI:KW-0866 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

Computational Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
nucleus	IEA: Inferred from Electronic Annotation with EBI:SL-0191 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
	IEA: Inferred from Electronic Annotation with EBI:KW-0539 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

*** Computational GO Annotations are predictions. These annotations are NOT reviewed by a curator. Currently, all computational GO annotations for S. cerevisiae are assigned by an external source (for example, the Gene Ontology Annotation (GOA) project of the European Bioinformatics Institute (EBI)).