RPB9 DNA-directed RNA polymerase II core subunit RPB9 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: RPB9
Official Full Name: DNA-directed RNA polymerase II core subunit RPB9
Primary source: SGD:S000003038
Locus tag: YGL070C
See related: AllianceGenome:SGD:S000003038; FungiDB:YGL070C; VEuPathDB:YGL070C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: SSU73
Summary: Contributes to RNA-directed 5'-3' RNA polymerase activity. Involved in maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase II promoter; transcription initiation from RNA polymerase II promoter; and transcription-coupled nucleotide-excision repair. Part of RNA polymerase II, core complex. Orthologous to human POLR2I (RNA polymerase II subunit I). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See RPB9 in Genome Data Viewer

Location:: chromosome: VII

Exon count:: 1

Sequence:: Chromosome: VII; NC_001139.9 (374459..374827, complement)

Chromosome VII - NC_001139.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001139.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The RNA polymerase II subunit Rpb9 activates ATG1 transcription and autophagy.
Title: The RNA polymerase II subunit Rpb9 activates ATG1 transcription and autophagy.
The N-terminal domain of the A12.2 subunit stimulates RNA polymerase I transcription elongation.
Title: The N-terminal domain of the A12.2 subunit stimulates RNA polymerase I transcription elongation.
Rpb9-deficient cells are defective in DNA damage response and require histone H3 acetylation for survival
Title: Rpb9-deficient cells are defective in DNA damage response and require histone H3 acetylation for survival.
conclude that Rpb9 supports intra-pol II interactions that modulate TL function and thus pol II enzymatic properties
Title: RNA Polymerase II Trigger Loop Mobility: INDIRECT EFFECTS OF Rpb9.
Intrinsic transcript cleavage of Pol II requires the Rpb9 subunit. This enhances the backtrack recovery of Pol II.
Title: Mechanisms of backtrack recovery by RNA polymerases I and II.
Rpb9 plays an important role in maintaining transcriptional fidelity, whereas TFIIS may serve a different primary purpose
Title: RNA polymerase II subunit Rpb9 is important for transcriptional fidelity in vivo.
Rad26-mediated repair can be either transcription-coupled or transcription-independent; Rpb9-mediated repair is strictly transcription-coupled and is efficient only when the transcription level is high
Title: Modulation of Rad26- and Rpb9-mediated DNA repair by different promoter elements.
The transcription elongation function of Rpb9 is involved in transcription-coupled DNA repair.
Title: Evidence that the transcription elongation function of Rpb9 is involved in transcription-coupled DNA repair in Saccharomyces cerevisiae.
In response to ultraviolet radiation, Rpb9 also functions in promoting ubiquitylation and degradation of Rpb1, the largest subunit of Pol II.
Title: Yeast Rpb9 plays an important role in ubiquitylation and degradation of Rpb1 in response to UV-induced DNA damage.
both S-II and Rpb9 maintain transcriptional fidelity by stimulating the cleavage activity intrinsic to RNA polymerase II
Title: Stimulation of RNA polymerase II transcript cleavage activity contributes to maintain transcriptional fidelity in yeast.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
contributes_to DNA-directed 5'-3' RNA polymerase activity	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-directed 5'-3' RNA polymerase activity	IEA Inferred from Electronic Annotation more info
contributes_to RNA-dependent RNA polymerase activity	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	RCA inferred from Reviewed Computational Analysis more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in RNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II	IGI Inferred from Genetic Interaction more info	PubMed
involved_in maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription initiation at RNA polymerase II promoter	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription initiation at RNA polymerase II promoter	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription-coupled nucleotide-excision repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription-coupled nucleotide-excision repair	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of DNA-directed RNA polymerase complex	IEA Inferred from Electronic Annotation more info
part_of RNA polymerase II, core complex	IBA Inferred from Biological aspect of Ancestor more info
part_of RNA polymerase II, core complex	IDA Inferred from Direct Assay more info	PubMed
part_of nuclear DNA-directed RNA polymerase complex	IEA Inferred from Electronic Annotation more info
located_in nucleolus	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: DNA-directed RNA polymerase II core subunit RPB9

NP_011445.1

RNA polymerase II subunit B12.6; contacts DNA; mutations affect transcription start site selection and fidelity of transcription; positively regulates ATG1 transcription as a key regulator of autophagy

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001139.9 Reference assembly

Range

374459..374827 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001180935.1 → NP_011445.1 TPA: DNA-directed RNA polymerase II core subunit RPB9 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_011445.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VU72, P27999

UniProtKB/TrEMBL

A6ZUA7, B3LHD8, C7GW42, C8Z8H7, G2WE27, N1P3K7

Conserved Domains (1) summary

COG1594
Location:3 → 113

RPB9; DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]