SPT4 transcription elongation factor SPT4 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: SPT4
Official Full Name: transcription elongation factor SPT4
Primary source: SGD:S000003295
Locus tag: YGR063C
See related: AllianceGenome:SGD:S000003295; FungiDB:YGR063C; VEuPathDB:YGR063C
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary: Enables RNA polymerase II complex binding activity and rDNA binding activity. Contributes to single-stranded RNA binding activity. Involved in several processes, including 7-methylguanosine mRNA capping; regulation of gene expression; and regulation of transcription-coupled nucleotide-excision repair. Located in kinetochore; mating-type region heterochromatin; and rDNA heterochromatin. Part of DSIF complex. Orthologous to human SUPT4H1 (SPT4 homolog, DSIF elongation factor subunit). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See SPT4 in Genome Data Viewer

Location:: chromosome: VII

Exon count:: 1

Sequence:: Chromosome: VII; NC_001139.9 (617516..617824, 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?

Spt4 promotes cellular senescence by activating non-coding RNA transcription in ribosomal RNA gene clusters.
Title: Spt4 promotes cellular senescence by activating non-coding RNA transcription in ribosomal RNA gene clusters.
Spt4 facilitates the movement of RNA polymerase II through the +2 nucleosomal barrier.
Title: Spt4 facilitates the movement of RNA polymerase II through the +2 nucleosomal barrier.
Opposite roles of transcription elongation factors Spt4/5 and Elf1 in RNA polymerase II transcription through B-form versus non-B DNA structures.
Title: Opposite roles of transcription elongation factors Spt4/5 and Elf1 in RNA polymerase II transcription through B-form versus non-B DNA structures.
Dynamics of RNA polymerase II and elongation factor Spt4/5 recruitment during activator-dependent transcription.
Title: Dynamics of RNA polymerase II and elongation factor Spt4/5 recruitment during activator-dependent transcription.
Polo kinase recruitment via the constitutive centromere-associated network at the kinetochore elevates centromeric RNA.
Title: Polo kinase recruitment via the constitutive centromere-associated network at the kinetochore elevates centromeric RNA.
Suppression of the yeast elongation factor Spt4 ortholog reduces expanded SCA36 GGCCUG repeat aggregation and cytotoxicity.
Title: Suppression of the yeast elongation factor Spt4 ortholog reduces expanded SCA36 GGCCUG repeat aggregation and cytotoxicity.
Hog1 phosphorylates the Spt4 elongation factor at Thr42 and Ser43 and such phosphorylations are essential for the overall transcriptional response upon osmostress.
Title: Regulation of transcription elongation in response to osmostress.
Interactions between SPT4 and RNA Polymerase II
Title: Relationships Between RNA Polymerase II Activity and Spt Elongation Factors to Spt- Phenotype and Growth in Saccharomyces cerevisiae.
Spt4/5 may be important to coordinate the mechanical movement of RNAPII through the nucleosome with co-transcriptional chromatin modifications during transcription.
Title: The elongation factor Spt4/5 regulates RNA polymerase II transcription through the nucleosome.
These findings attribute a new function to a domain of Spt4/5 that associates directly with RNAPII, making significant steps towards elucidating the mechanism behind transcriptional control by Spt4/5.
Title: The yeast transcription elongation factor Spt4/5 is a sequence-specific RNA binding protein.

Submit: New GeneRIF Correction See all GeneRIFs (20)

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
enables RNA polymerase II complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II complex binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables rDNA binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to single-stranded RNA binding	IDA Inferred from Direct Assay more info	PubMed
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 7-methylguanosine mRNA capping	IGI Inferred from Genetic Interaction more info	PubMed
involved_in chromatin organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular mRNA localization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of transcription elongation by RNA polymerase I	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase I	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of rRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription-coupled nucleotide-excision repair	IGI Inferred from Genetic Interaction more info	PubMed
involved_in transcription elongation by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription elongation-coupled chromatin remodeling	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of DSIF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of DSIF complex	IPI Inferred from Physical Interaction more info	PubMed
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in chromosome, centromeric region	IEA Inferred from Electronic Annotation more info
located_in kinetochore	IDA Inferred from Direct Assay more info	PubMed
located_in mating-type region heterochromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in rDNA heterochromatin	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: transcription elongation factor SPT4

NP_011577.3

Spt4p/5p (DSIF) transcription elongation factor complex subunit; Spt4/5 binds ssRNA in a sequence-specific manner and along with RNAP I and II regulates transcriptional elongation, RNA processing, quality control, and transcription-coupled repair; localizes to kinetochores and heterochromatin, influencing chromosomal dynamics and silencing; required for transcription through long trinucleotide repeats in ORFs and non-protein coding regions; accelerates senescence through rDNA instability

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

617516..617824 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001181192.3 → NP_011577.3 TPA: transcription elongation factor SPT4 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_011577.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VUJ8, P32914, Q0P6T7, Q45U23

UniProtKB/TrEMBL

A6ZV48, B3LIG0, C7GXP6, C8Z8V7, G2WEF0, N1P5S0

Conserved Domains (1) summary

COG5204
Location:1 → 102

SPT4; Transcription elongation factor SPT4 [Transcription]