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

Last Reviewed on: 2003-09-22    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 2002-08-02	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, deadenylation-dependent decay	IGI: Inferred from Genetic Interaction Assigned on 2003-09-22 IMP: Inferred from Mutant Phenotype Assigned on 2003-09-22 IDA: Inferred from Direct Assay Assigned on 2003-09-22	Tucker M, et al.  (2002) Ccr4p is the catalytic subunit of a Ccr4p/Pop2p/Notp mRNA deadenylase complex in Saccharomyces cerevisiae. EMBO J 21(6):1427-36	SGD
nuclear-transcribed mRNA poly(A) tail shortening	IDA: Inferred from Direct Assay Assigned on 2002-08-02	Tucker M, et al.  (2002) Ccr4p is the catalytic subunit of a Ccr4p/Pop2p/Notp mRNA deadenylase complex in Saccharomyces cerevisiae. EMBO J 21(6):1427-36	SGD
positive regulation of transcription elongation from RNA polymerase II promoter	IDA: Inferred from Direct Assay Assigned on 2012-02-16 IPI: Inferred from Physical Interaction with SGD:RPO21 Assigned on 2012-02-16	Kruk JA, et al.  (2011) The multifunctional Ccr4-Not complex directly promotes transcription elongation. Genes Dev 25(6):581-93	SGD
pseudohyphal growth	IMP: Inferred from Mutant Phenotype Assigned on 2006-06-28	Mosch HU and Fink GR  (1997) Dissection of filamentous growth by transposon mutagenesis in Saccharomyces cerevisiae. Genetics 145(3):671-84	SGD
regulation of cell cycle	IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18	Shuster EO and Byers B  (1989) Pachytene arrest and other meiotic effects of the start mutations in Saccharomyces cerevisiae. Genetics 123(1):29-43	SGD
regulation of transcription from RNA polymerase II promoter	IPI: Inferred from Physical Interaction Assigned on 2002-08-02	Bai Y, et al.  (1999) The CCR4 and CAF1 proteins of the CCR4-NOT complex are physically and functionally separated from NOT2, NOT4, and NOT5. Mol Cell Biol 19(10):6642-51	SGD
response to pheromone involved in conjugation with cellular fusion	IMP: Inferred from Mutant Phenotype Assigned on 2001-01-18	Neiman AM, et al.  (1990) CDC36 and CDC39 are negative elements in the signal transduction pathway of yeast. Cell Regul 1(5):391-401	SGD
transcription elongation from RNA polymerase II promoter	IGI: Inferred from Genetic Interaction with SGD:SPT5 Assigned on 2006-12-20 IMP: Inferred from Mutant Phenotype Assigned on 2006-12-20	Denis CL, et al.  (2001) Genetic evidence supports a role for the yeast CCR4-NOT complex in transcriptional elongation. Genetics 158(2):627-34	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
CCR4-NOT core complex	IPI: Inferred from Physical Interaction Assigned on 2002-08-02	Bai Y, et al.  (1999) The CCR4 and CAF1 proteins of the CCR4-NOT complex are physically and functionally separated from NOT2, NOT4, and NOT5. Mol Cell Biol 19(10):6642-51	SGD
cytoplasm	IDA: Inferred from Direct Assay Assigned on 2002-08-02	Tucker M, et al.  (2002) Ccr4p is the catalytic subunit of a Ccr4p/Pop2p/Notp mRNA deadenylase complex in Saccharomyces cerevisiae. EMBO J 21(6):1427-36	SGD
nucleus	IDA: Inferred from Direct Assay Assigned on 2001-01-18	Collart MA and Struhl K  (1994) NOT1(CDC39), NOT2(CDC36), NOT3, and NOT4 encode a global-negative regulator of transcription that differentially affects TATA-element utilization. Genes Dev 8(5):525-37	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 CDC39

** 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
regulation of transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:KW-0805 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
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
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
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)).