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

Last Reviewed on: 2012-02-24    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
core RNA polymerase I binding transcription factor activity	IC: Inferred By Curator from positive regulation of transcription elongation from RNA polymerase I promoter, RNA polymerase I core binding, negative regulation of transcription elongation from RNA polymerase I promoter Assigned on 2012-02-24	Viktorovskaya OV, et al.  (2011) Yeast transcription elongation factor Spt5 associates with RNA polymerase I and RNA polymerase II directly. J Biol Chem 286(21):18825-33	SGD
core RNA polymerase II binding transcription factor activity	IGI: Inferred from Genetic Interaction with SGD:RPO21, SGD:DST1, SGD:RPB2 Assigned on 2012-01-06 IMP: Inferred from Mutant Phenotype Assigned on 2012-01-06 IPI: Inferred from Physical Interaction with SGD:RPO21 Assigned on 2012-01-06	Hartzog GA, et al.  (1998) Evidence that Spt4, Spt5, and Spt6 control transcription elongation by RNA polymerase II in Saccharomyces cerevisiae. Genes Dev 12(3):357-69	SGD
RNA polymerase I core binding	IPI: Inferred from Physical Interaction with SGD:RPA34, SGD:RPA49, SGD:RPA135, SGD:RPA190 Assigned on 2012-02-24	Viktorovskaya OV, et al.  (2011) Yeast transcription elongation factor Spt5 associates with RNA polymerase I and RNA polymerase II directly. J Biol Chem 286(21):18825-33	SGD
RNA polymerase I transcription factor binding	IPI: Inferred from Physical Interaction with SGD:RRN3 Assigned on 2012-02-24	Viktorovskaya OV, et al.  (2011) Yeast transcription elongation factor Spt5 associates with RNA polymerase I and RNA polymerase II directly. J Biol Chem 286(21):18825-33	SGD
RNA polymerase II core binding	IPI: Inferred from Physical Interaction with SGD:RPO21 Assigned on 2012-01-06	Hartzog GA, et al.  (1998) Evidence that Spt4, Spt5, and Spt6 control transcription elongation by RNA polymerase II in Saccharomyces cerevisiae. Genes Dev 12(3):357-69	SGD
rRNA binding	IDA: Inferred from Direct Assay Assigned on 2012-02-24	Viktorovskaya OV, et al.  (2011) Yeast transcription elongation factor Spt5 associates with RNA polymerase I and RNA polymerase II directly. J Biol Chem 286(21):18825-33	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
7-methylguanosine mRNA capping	IGI: Inferred from Genetic Interaction with SGD:CEG1 Assigned on 2012-02-24 IPI: Inferred from Physical Interaction with SGD:CEG1 Assigned on 2012-02-24	Lindstrom DL, et al.  (2003) Dual roles for Spt5 in pre-mRNA processing and transcription elongation revealed by identification of Spt5-associated proteins. Mol Cell Biol 23(4):1368-78	SGD
intracellular mRNA localization	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-24	Shen Z, et al.  (2010) Cotranscriptional recruitment of She2p by RNA pol II elongation factor Spt4-Spt5/DSIF promotes mRNA localization to the yeast bud. Genes Dev 24(17):1914-26	SGD
mRNA splicing, via spliceosome	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-24	Lindstrom DL, et al.  (2003) Dual roles for Spt5 in pre-mRNA processing and transcription elongation revealed by identification of Spt5-associated proteins. Mol Cell Biol 23(4):1368-78	SGD
negative regulation of transcription elongation from RNA polymerase I promoter	IGI: Inferred from Genetic Interaction with SGD:RPA49 Assigned on 2012-02-24	Anderson SJ, et al.  (2011) The transcription elongation factor Spt5 influences transcription by RNA polymerase I positively and negatively. J Biol Chem 286(21):18816-24	SGD
positive regulation of transcription elongation from RNA polymerase I promoter	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-24	Anderson SJ, et al.  (2011) The transcription elongation factor Spt5 influences transcription by RNA polymerase I positively and negatively. J Biol Chem 286(21):18816-24	SGD
positive regulation of transcription elongation from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-24	Zhou K, et al.  (2009) Control of transcriptional elongation and cotranscriptional histone modification by the yeast BUR kinase substrate Spt5. Proc Natl Acad Sci U S A 106(17):6956-61	SGD
regulation of rRNA processing	IMP: Inferred from Mutant Phenotype Assigned on 2012-02-24	Lepore N and Lafontaine DL  (2011) A Functional Interface at the rDNA Connects rRNA Synthesis, Pre-rRNA Processing and Nucleolar Surveillance in Budding Yeast. PLoS One 6(9):e24962	SGD
regulation of transcription-coupled nucleotide-excision repair	IGI: Inferred from Genetic Interaction with SGD:RAD26 Assigned on 2012-02-24	Ding B, et al.  (2010) The C-terminal repeat domain of Spt5 plays an important role in suppression of Rad26-independent transcription coupled repair. J Biol Chem 285(8):5317-26	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
DSIF complex	IPI: Inferred from Physical Interaction with SGD:SPT4 Assigned on 2006-04-21	Hartzog GA, et al.  (1998) Evidence that Spt4, Spt5, and Spt6 control transcription elongation by RNA polymerase II in Saccharomyces cerevisiae. Genes Dev 12(3):357-69	SGD
nucleus	IDA: Inferred from Direct Assay Assigned on 2001-12-05	Swanson MS, et al.  (1991) SPT5, an essential gene important for normal transcription in Saccharomyces cerevisiae, encodes an acidic nuclear protein with a carboxy-terminal repeat. Mol Cell Biol 11(6):3009-19	SGD
colocalizes_with rDNA heterochromatin	IDA: Inferred from Direct Assay Assigned on 2009-01-23	Schneider DA, et al.  (2006) RNA polymerase II elongation factors Spt4p and Spt5p play roles in transcription elongation by RNA polymerase I and rRNA processing. Proc Natl Acad Sci U S A 103(34):12707-12	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.

Cellular Component

High-throughput Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
mitochondrion	IDA: Inferred from Direct Assay Assigned on 2006-12-12	Reinders J, et al.  (2006) Toward the complete yeast mitochondrial proteome: multidimensional separation techniques for mitochondrial proteomics. J Proteome Res 5(7):1543-54	SGD
	IDA: Inferred from Direct Assay Assigned on 2004-09-28	Sickmann A, et al.  (2003) The proteome of Saccharomyces cerevisiae mitochondria. Proc Natl Acad Sci U S A 100(23):13207-12	SGD

** 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.

Biological Process | Cellular Component

Computational Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
mRNA processing	IEA: Inferred from Electronic Annotation with EBI:KW-0507 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
positive regulation of transcription elongation from RNA polymerase II promoter	IEA: Inferred from Electronic Annotation with EBI:IPR006645 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
regulation of DNA-dependent transcription, elongation	IEA: Inferred from Electronic Annotation with EBI:IPR017071 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
regulation of transcription from RNA polymerase II promoter	IEA: Inferred from Electronic Annotation with EBI:IPR017071 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:KW-0804 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
mitochondrion	IEA: Inferred from Electronic Annotation with EBI:SL-0173 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-0496 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
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)).