SEN1 DNA/RNA helicase SEN1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: SEN1
Gene description: DNA/RNA helicase SEN1
Primary source: FungiDB:YLR430W
Locus tag: YLR430W
See related: SGD:S000004422; AllianceGenome:SGD:S000004422; VEuPathDB:YLR430W
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: CIK3; NRD2
Summary: Enables 5'-3' DNA helicase activity; 5'-3' DNA/RNA helicase activity; and protein domain specific binding activity. Involved in cell redox homeostasis; nucleic acid metabolic process; and regulation of transcription from RNA polymerase II promoter in response to DNA damage. Located in cytoplasm; nucleus; and replication fork. Part of Nrd1 complex. Used to study amyotrophic lateral sclerosis type 4 and ataxia with oculomotor apraxia type 2. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis type 4 and ataxia with oculomotor apraxia type 2. Orthologous to human SETX (senataxin). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See SEN1 in Genome Data Viewer

Location:: chromosome: XII

Exon count:: 1

Sequence:: Chromosome: XII; NC_001144.5 (993434..1000129)

Chromosome XII - NC_001144.5 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001144.5

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Single-molecule characterization of Sen1 translocation properties provides insights into eukaryotic factor-dependent transcription termination.
Title: Single-molecule characterization of Sen1 translocation properties provides insights into eukaryotic factor-dependent transcription termination.
Sen1 and Rrm3 ensure permissive topological conditions for replication termination.
Title: Sen1 and Rrm3 ensure permissive topological conditions for replication termination.
Sen1 is a key regulator of transcription-driven conflicts.
Title: Sen1 is a key regulator of transcription-driven conflicts.
Modulated termination of non-coding transcription partakes in the regulation of gene expression.
Title: Modulated termination of non-coding transcription partakes in the regulation of gene expression.
Genetic and pharmacological evidence for kinetic competition between alternative poly(A) sites in yeast.
Title: Genetic and pharmacological evidence for kinetic competition between alternative poly(A) sites in yeast.
Sen1 Is Recruited to Replication Forks via Ctf4 and Mrc1 and Promotes Genome Stability.
Title: Sen1 Is Recruited to Replication Forks via Ctf4 and Mrc1 and Promotes Genome Stability.
Termination of non-coding transcription in yeast relies on both an RNA Pol II CTD interaction domain and a CTD-mimicking region in Sen1.
Title: Termination of non-coding transcription in yeast relies on both an RNA Pol II CTD interaction domain and a CTD-mimicking region in Sen1.
Three sequence motifs in Sen1 that mediate direct interactions with the RNA polymerase II CTD interaction domain (CID) of Nrd1 have been identified.
Title: Identification of Three Sequence Motifs in the Transcription Termination Factor Sen1 that Mediate Direct Interactions with Nrd1.
A harmless head-on replication-transcription clash resolution requires the fine-tuning of origin firing and coordination among Sen1, Exo1, Mre11 and Mrc1-Ctf4 complexes.
Title: Dormant origins and fork protection mechanisms rescue sister forks arrested by transcription.
RNA polymerase II CTD tyrosine 1 is required for efficient termination by the Nrd1-Nab3-Sen1 pathway by slowing down transcription and suppressing termination defects.
Title: RNA Polymerase II CTD Tyrosine 1 Is Required for Efficient Termination by the Nrd1-Nab3-Sen1 Pathway.

Submit: New GeneRIF Correction See all GeneRIFs (29)

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 5'-3' DNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
enables 5'-3' DNA/RNA helicase activity	IDA Inferred from Direct Assay more info	PubMed
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables helicase activity	IEA Inferred from Electronic Annotation more info
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables mRNA binding	HDA more info	PubMed
enables protein binding	IDA Inferred from Direct Assay more info	PubMed
enables protein domain specific binding	IDA Inferred from Direct Assay more info	PubMed
enables protein domain specific binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables transcription termination site sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA damage response	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA duplex unwinding	IEA Inferred from Electronic Annotation more info
involved_in DNA-templated DNA replication maintenance of fidelity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA-templated transcription termination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell redox homeostasis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info
involved_in rRNA processing	IEA Inferred from Electronic Annotation more info
involved_in rRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in snRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in sno(s)RNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in tRNA processing	IEA Inferred from Electronic Annotation more info
involved_in tRNA processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase II transcription	IBA Inferred from Biological aspect of Ancestor more info
involved_in termination of RNA polymerase II transcription	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in termination of RNA polymerase III transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in transcription-coupled nucleotide-excision repair	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
part_of Nrd1 complex	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in nuclear body	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in replication fork	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: DNA/RNA helicase SEN1

NP_013534.3

ATP-dependent 5' to 3' RNA/DNA and DNA helicase; subunit of the exosome-associated Nrd1p complex that mediates 3' end formation of snRNAs, snoRNAs, CUTs and some mRNAs; helicase-independent role in transcription-coupled repair; coordinates replication with transcription, associating with moving forks and preventing errors that occur when forks encounter transcribed regions; homolog of Senataxin, implicated in Ataxia-Oculomotor Apraxia 2 and a dominant form of juvenile ALS

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_001144.5 Reference assembly

Range

993434..1000129

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001182318.3 → NP_013534.3 TPA: DNA/RNA helicase SEN1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_013534.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VZ65, E9P9Z4, Q00416, Q06448

UniProtKB/TrEMBL

B3RHT9, N1P7F6

Conserved Domains (2) summary

COG1112
Location:1006 → 1858

DNA2; Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]

pfam12726
Location:106 → 859

SEN1_N; SEN1 N terminal