Ontology: Biological Process (GO:0006366)

Definition: The synthesis of RNA from a DNA template by RNA polymerase II, originating at an RNA polymerase II promoter. Includes transcription of messenger RNA (mRNA) and certain small nuclear RNAs (snRNAs).

Synonyms: transcription from Pol II promoter; specific transcription from RNA polymerase II promoter; RNA polymerase II transcription factor activity; gene-specific transcription from RNA polymerase II promoter; general transcription from RNA polymerase II promoter

View Ontology: (graph) | (text)

This table lists the methods used to annotate genes either directly to the term transcription from RNA polymerase II promoter (106 genes) or to its variants containing one or more qualifiers (0 genes). Note that some genes may have been annotated by more than one method so the numbers in the table below may not add up to the totals given here.

Annotation Method	GO Term	# Yeast Genes Annotated
Manually curated (download data)	transcription from RNA polymerase II promoter	52
High-throughput	none	none
Computational (download data)	transcription from RNA polymerase II promoter	57

Links to Additional Annotations:

• View annotations in multiple organisms using
• Search for S. cerevisiae genes annotated, by the Manually curated or High-throughput methods, to this term or to any terms that are descended from this term, i.e., child terms representing more specific biology than this term.

Annotation details for genes that have been directly annotated to the term transcription from RNA polymerase II promoter or its variants containing one or more qualifiers (NOT, contributes to, or colocalizes with).

transcription from RNA polymerase II promoter      106 genes directly annotated to this term
Locus	Evidence	Annotation Method	Reference	Assigned By
SPT3/YDR392W	IMP: Inferred from Mutant Phenotype Assigned on 2008-02-04	manually curated	Bhaumik SR and Green MR  (2002) Differential requirement of SAGA components for recruitment of TATA-box-binding protein to promoters in vivo. Mol Cell Biol 22(21):7365-71	SGD
	IEA: Inferred from Electronic Annotation with EBI:IPR003195 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
SSL1/YLR005W	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
SSL2/YIL143C	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
STB4/YMR019W	IEA: Inferred from Electronic Annotation with EBI:IPR001138 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
STB5/YHR178W	IEA: Inferred from Electronic Annotation with EBI:IPR001138 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
SUT1/YGL162W	IEA: Inferred from Electronic Annotation with EBI:IPR001138 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
SUT2/YPR009W	IEA: Inferred from Electronic Annotation with EBI:IPR001138 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
TAF1/YGR274C	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Walker SS, et al.  (1997) Yeast TAF(II)145 required for transcription of G1/S cyclin genes and regulated by the cellular growth state. Cell 90(4):607-14	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Shen WC and Green MR  (1997) Yeast TAF(II)145 functions as a core promoter selectivity factor, not a general coactivator. Cell 90(4):615-24	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF10/YDR167W	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Klebanow ER, et al.  (1996) Isolation and characterization of TAF25, an essential yeast gene that encodes an RNA polymerase II-specific TATA-binding protein-associated factor. J Biol Chem 271(23):13706-15	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF11/YML015C	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Klebanow ER, et al.  (1997) Cloning and characterization of an essential Saccharomyces cerevisiae gene, TAF40, which encodes yTAFII40, an RNA polymerase II-specific TATA-binding protein-associated factor. J Biol Chem 272(14):9436-42	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF12/YDR145W	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Kobayashi A, et al.  (2003) Mutations in the histone fold domain of the TAF12 gene show synthetic lethality with the TAF1 gene lacking the TAF N-terminal domain (TAND) by different mechanisms from those in the SPT15 gene encoding the TATA box-binding protein (TBP). Nucleic Acids Res 31(4):1261-74	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Reese JC and Green MR  (2001) Genetic analysis of TAF68/61 reveals links to cell cycle regulators. Yeast 18(13):1197-205	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Reese JC, et al.  (2000) Identification of a yeast transcription factor IID subunit, TSG2/TAF48. J Biol Chem 275(23):17391-8	SGD
TAF13/YML098W	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
	IEA: Inferred from Electronic Annotation with EBI:IPR003195 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
TAF14/YPL129W	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-19	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF2/YCR042C	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF3/YPL011C	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF4/YMR005W	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF5/YBR198C	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-26	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF6/YGL112C	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF7/YMR227C	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF8/YML114C	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TAF9/YMR236W	IMP: Inferred from Mutant Phenotype Assigned on 2009-08-19	manually curated	Macpherson N, et al.  (2000) A yeast taf17 mutant requires the Swi6 transcriptional activator for viability and shows defects in cell cycle-regulated transcription. Genetics 154(4):1561-76	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Sanders SL, et al.  (2002) Molecular characterization of Saccharomyces cerevisiae TFIID. Mol Cell Biol 22(16):6000-13	SGD
	IDA: Inferred from Direct Assay Assigned on 2009-08-18	manually curated	Auty R, et al.  (2004) Purification of active TFIID from Saccharomyces cerevisiae. Extensive promoter contacts and co-activator function. J Biol Chem 279(48):49973-81	SGD
TBS1/YBR150C	IEA: Inferred from Electronic Annotation with EBI:IPR001138 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
TEA1/YOR337W	IEA: Inferred from Electronic Annotation with EBI:IPR001138 Last Updated 2013-03-02	computational	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
TFA1/YKL028W	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-13	manually curated	Kuldell NH and Buratowski S  (1997) Genetic analysis of the large subunit of yeast transcription factor IIE reveals two regions with distinct functions. Mol Cell Biol 17(9):5288-98	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-13	manually curated	Feaver WJ, et al.  (1994) Yeast TFIIE. Cloning, expression, and homology to vertebrate proteins. J Biol Chem 269(44):27549-53	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-13	manually curated	Sayre MH, et al.  (1992) Reconstitution of transcription with five purified initiation factors and RNA polymerase II from Saccharomyces cerevisiae. J Biol Chem 267(32):23376-82	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-13	manually curated	Sayre MH, et al.  (1992) Purification and properties of Saccharomyces cerevisiae RNA polymerase II general initiation factor a. J Biol Chem 267(32):23383-7	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-13	manually curated	Sakurai H, et al.  (1997) Promoter structure-dependent functioning of the general transcription factor IIE in Saccharomyces cerevisiae. J Biol Chem 272(25):15936-42	SGD
TFA2/YKR062W	IGI: Inferred from Genetic Interaction with SGD:TFA1 Assigned on 2012-01-13	manually curated	Sakurai H and Fukasawa T  (1997) Yeast Gal11 and transcription factor IIE function through a common pathway in transcriptional regulation. J Biol Chem 272(51):32663-9	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-13	manually curated	Feaver WJ, et al.  (1994) Yeast TFIIE. Cloning, expression, and homology to vertebrate proteins. J Biol Chem 269(44):27549-53	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-13	manually curated	Sayre MH, et al.  (1992) Reconstitution of transcription with five purified initiation factors and RNA polymerase II from Saccharomyces cerevisiae. J Biol Chem 267(32):23376-82	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-13	manually curated	Sayre MH, et al.  (1992) Purification and properties of Saccharomyces cerevisiae RNA polymerase II general initiation factor a. J Biol Chem 267(32):23383-7	SGD
TFB1/YDR311W	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
TFB2/YPL122C	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
TFB3/YDR460W	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
TFB4/YPR056W	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD
TFB5/YDR079C-A	IDA: Inferred from Direct Assay Assigned on 2010-05-19	manually curated	Yang C, et al.  (2010) Improved methods for expression and purification of Saccharomyces cerevisiae TFIIF and TFIIH; Identification of a functional Escherichia coli promoter and internal translation initiation within the N-terminal coding region of the TFIIF TFG1 subunit. Protein Expr Purif 70(2):172-178	SGD

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