SEN1/YLR430W Summary Help

Standard Name SEN1 1
Systematic Name YLR430W
Alias CIK3 , NRD2
Feature Type ORF, Verified
Description Presumed helicase and subunit of the Nrd1 complex (Nrd1p-Nab3p-Sen1p); complex interacts with the exosome to mediate 3' end formation of some mRNAs, snRNAs, snoRNAs, and CUTs; has a separate role in coordinating DNA replication with transcription, by associating with moving replication forks and preventing errors that occur when forks encounter transcribed regions; homolog of Senataxin, which is implicated in Ataxia-Oculomotor Apraxia 2 and a dominant form of ALS (2, 3, 4, 5, 6, 7 and see Summary Paragraph)
Name Description Splicing ENdonuclease 1
Chromosomal Location
ChrXII:993434 to 1000129 | ORF Map | GBrowse
Gene Ontology Annotations All SEN1 GO evidence and references
  View Computational GO annotations for SEN1
Molecular Function
Manually curated
Biological Process
Manually curated
Cellular Component
Manually curated
Regulators 5 genes
Classical genetics
dominant negative
reduction of function
Large-scale survey
reduction of function
129 total interaction(s) for 84 unique genes/features.
Physical Interactions
  • Affinity Capture-MS: 32
  • Affinity Capture-RNA: 15
  • Affinity Capture-Western: 7
  • Biochemical Activity: 2
  • Two-hybrid: 25

Genetic Interactions
  • Dosage Rescue: 2
  • Negative Genetic: 3
  • Phenotypic Enhancement: 3
  • Phenotypic Suppression: 3
  • Positive Genetic: 3
  • Synthetic Growth Defect: 10
  • Synthetic Lethality: 21
  • Synthetic Rescue: 3

Expression Summary
Length (a.a.) 2,231
Molecular Weight (Da) 252,495
Isoelectric Point (pI) 8.83
Phosphorylation PhosphoGRID | PhosphoPep Database
sequence information
ChrXII:993434 to 1000129 | ORF Map | GBrowse
Last Update Coordinates: 2011-02-03 | Sequence: 1996-07-31
Subfeature details
Most Recent Updates
Coordinates Sequence
CDS 1..6696 993434..1000129 2011-02-03 1996-07-31
Retrieve sequences
Analyze Sequence
S288C only
S288C vs. other species
S288C vs. other strains
External Links All Associated Seq | E.C. | Entrez Gene | Entrez RefSeq Protein | MIPS | Search all NCBI (Entrez) | UniProtKB
Primary SGDIDS000004422

SEN1 encodes a Pol II transcriptional termination factor that is also involved in the maturation of noncoding RNAs (6, 2). Based on sequence similarity to and functional characterization of the S. pombe ortholog (also called sen1), S. cerevisiae Sen1p is presumed to be a 5'-3' ATP-dependent RNA/DNA helicase, although this activity has not been directly shown in S. cerevisiae (8, 9 and references therein). Sen1p localizes to the nucleus in a granular pattern (10). SEN1 is an essential gene but loss of function mutations in Sen1p cause altered accumulation of tRNA and ribosomal RNA precursors, mislocalization of core snoRNPs, and 3'-extension and transcriptional read-through of some snoRNAs, snRNAs, and short protein-encoding mRNAs (10, 9 and references therein). Mutations in the human homolog Senataxin (SETX), result in the progressive neurological diseases Ataxia-Oculomotor Apraxia 2 (AOA2) and juvenile Amyotrophic Lateral Sclerosis 4 (ALS4) (5 and references therein).

Last updated: 2007-09-07 Contact SGD

References cited on this page View Complete Literature Guide for SEN1
1) Winey M and Culbertson MR  (1988) Mutations affecting the tRNA-splicing endonuclease activity of Saccharomyces cerevisiae. Genetics 118(4):609-17
2) Ursic D, et al.  (1997) The yeast SEN1 gene is required for the processing of diverse RNA classes. Nucleic Acids Res 25(23):4778-85
3) Rasmussen TP and Culbertson MR  (1998) The putative nucleic acid helicase Sen1p is required for formation and stability of termini and for maximal rates of synthesis and levels of accumulation of small nucleolar RNAs in Saccharomyces cerevisiae. Mol Cell Biol 18(12):6885-96
4) Steinmetz EJ, et al.  (2001) RNA-binding protein Nrd1 directs poly(A)-independent 3'-end formation of RNA polymerase II transcripts. Nature 413(6853):327-31
5) Chen YZ, et al.  (2006) Senataxin, the yeast Sen1p orthologue: characterization of a unique protein in which recessive mutations cause ataxia and dominant mutations cause motor neuron disease. Neurobiol Dis 23(1):97-108
6) Steinmetz EJ, et al.  (2006) Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase. Mol Cell 24(5):735-46
7) Alzu A, et al.  (2012) Senataxin associates with replication forks to protect fork integrity across RNA-polymerase-II-transcribed genes. Cell 151(4):835-46
8) Kim HD, et al.  (1999) The sen1(+) gene of Schizosaccharomyces pombe, a homologue of budding yeast SEN1, encodes an RNA and DNA helicase. Biochemistry 38(44):14697-710
9) Ursic D, et al.  (2004) Multiple protein/protein and protein/RNA interactions suggest roles for yeast DNA/RNA helicase Sen1p in transcription, transcription-coupled DNA repair and RNA processing. Nucleic Acids Res 32(8):2441-52
10) Ursic D, et al.  (1995) Inactivation of the yeast Sen1 protein affects the localization of nucleolar proteins. Mol Gen Genet 249(6):571-84