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

Last Reviewed on: 2009-09-15    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 2009-09-15	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
exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	IMP: Inferred from Mutant Phenotype Assigned on 2008-09-22	Mitchell P, et al.  (1997) The exosome: a conserved eukaryotic RNA processing complex containing multiple 3'-->5' exoribonucleases. Cell 91(4):457-66	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-03	Allmang C, et al.  (1999) Functions of the exosome in rRNA, snoRNA and snRNA synthesis. EMBO J 18(19):5399-410	SGD
nonfunctional rRNA decay	IC: Inferred By Curator from cytoplasmic exosome (RNase complex) Assigned on 2009-09-10	Allmang C, et al.  (1999) The yeast exosome and human PM-Scl are related complexes of 3' --> 5' exonucleases. Genes Dev 13(16):2148-58	SGD
nuclear mRNA surveillance	IGI: Inferred from Genetic Interaction with SGD:PRP2 Assigned on 2009-08-31 IMP: Inferred from Mutant Phenotype Assigned on 2009-08-31	Bousquet-Antonelli C, et al.  (2000) Identification of a regulated pathway for nuclear pre-mRNA turnover. Cell 102(6):765-75	SGD
nuclear polyadenylation-dependent CUT catabolic process	IMP: Inferred from Mutant Phenotype Assigned on 2009-09-01	Milligan L, et al.  (2008) A yeast exosome cofactor, Mpp6, functions in RNA surveillance and in the degradation of noncoding RNA transcripts. Mol Cell Biol 28(17):5446-57	SGD
nuclear polyadenylation-dependent mRNA catabolic process	IC: Inferred By Curator from nuclear exosome (RNase complex) Assigned on 2009-09-15	Allmang C, et al.  (1999) The yeast exosome and human PM-Scl are related complexes of 3' --> 5' exonucleases. Genes Dev 13(16):2148-58	SGD
nuclear polyadenylation-dependent tRNA catabolic process	IDA: Inferred from Direct Assay Assigned on 2009-08-31	Vanacova S, et al.  (2005) A new yeast poly(A) polymerase complex involved in RNA quality control. PLoS Biol 3(6):e189	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-31	Schneider C, et al.  (2007) The exosome subunit Rrp44 plays a direct role in RNA substrate recognition. Mol Cell 27(2):324-31	SGD
nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay	IGI: Inferred from Genetic Interaction with SGD:DCP1 Assigned on 2009-03-06 IMP: Inferred from Mutant Phenotype 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
	IGI: Inferred from Genetic Interaction with SGD:DCP1 Assigned on 2009-03-06	Mitchell P and Tollervey D  (2003) An NMD pathway in yeast involving accelerated deadenylation and exosome-mediated 3'-->5' degradation. Mol Cell 11(5):1405-13	SGD
nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-06	Anderson JS and Parker RP  (1998) The 3' to 5' degradation of yeast mRNAs is a general mechanism for mRNA turnover that requires the SKI2 DEVH box protein and 3' to 5' exonucleases of the exosome complex. EMBO J 17(5):1497-506	SGD
nuclear-transcribed mRNA catabolic process, non-stop decay	IC: Inferred By Curator from cytoplasmic exosome (RNase complex) Assigned on 2009-03-13	Allmang C, et al.  (1999) The yeast exosome and human PM-Scl are related complexes of 3' --> 5' exonucleases. Genes Dev 13(16):2148-58	SGD
polyadenylation-dependent snoRNA 3'-end processing	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-31	van Hoof A, et al.  (2000) Yeast exosome mutants accumulate 3'-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs. Mol Cell Biol 20(2):441-52	SGD
rRNA catabolic process	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-18	Allmang C, et al.  (1999) Functions of the exosome in rRNA, snoRNA and snRNA synthesis. EMBO J 18(19):5399-410	SGD
U1 snRNA 3'-end processing	IGI: Inferred from Genetic Interaction with SGD:RNT1 Assigned on 2008-10-03 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-03	Allmang C, et al.  (1999) Functions of the exosome in rRNA, snoRNA and snRNA synthesis. EMBO J 18(19):5399-410	SGD
U4 snRNA 3'-end processing	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-06	van Hoof A, et al.  (2000) Yeast exosome mutants accumulate 3'-extended polyadenylated forms of U4 small nuclear RNA and small nucleolar RNAs. Mol Cell Biol 20(2):441-52	SGD
	IGI: Inferred from Genetic Interaction with SGD:RNT1 Assigned on 2008-10-03 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-03	Allmang C, et al.  (1999) Functions of the exosome in rRNA, snoRNA and snRNA synthesis. EMBO J 18(19):5399-410	SGD
U5 snRNA 3'-end processing	IGI: Inferred from Genetic Interaction with SGD:RNT1 Assigned on 2008-10-03 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-03	Allmang C, et al.  (1999) Functions of the exosome in rRNA, snoRNA and snRNA synthesis. EMBO J 18(19):5399-410	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
cytoplasmic exosome (RNase complex)	IDA: Inferred from Direct Assay Assigned on 2009-09-10	Synowsky SA, et al.  (2009) Comparative multiplexed mass spectrometric analyses of endogenously expressed yeast nuclear and cytoplasmic exosomes. J Mol Biol 385(4):1300-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2001-01-18	Allmang C, et al.  (1999) The yeast exosome and human PM-Scl are related complexes of 3' --> 5' exonucleases. Genes Dev 13(16):2148-58	SGD
nuclear exosome (RNase complex)	IDA: Inferred from Direct Assay Assigned on 2009-09-10	Synowsky SA, et al.  (2009) Comparative multiplexed mass spectrometric analyses of endogenously expressed yeast nuclear and cytoplasmic exosomes. J Mol Biol 385(4):1300-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2001-01-18	Allmang C, et al.  (1999) The yeast exosome and human PM-Scl are related complexes of 3' --> 5' exonucleases. Genes Dev 13(16):2148-58	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 SKI6

** 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
RNA binding	IEA: Inferred from Electronic Annotation with EBI:KW-0694 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 Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
rRNA processing	IEA: Inferred from Electronic Annotation with EBI:KW-0698 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
cytoplasm	IEA: Inferred from Electronic Annotation with EBI:SL-0086 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-0963 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
exosome (RNase complex)	IEA: Inferred from Electronic Annotation with EBI:KW-0271 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
nucleolus	IEA: Inferred from Electronic Annotation with EBI:SL-0188 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
nucleus	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)).