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seb1 poly(A)site selection protein Seb1 [ Schizosaccharomyces pombe (fission yeast) ]

Gene ID: 2541942, updated on 18-Sep-2024

Summary

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Official Symbol
seb1
Official Full Name
poly(A)site selection protein Seb1
Primary source
PomBase:SPAC222.09
Locus tag
SPOM_SPAC222.09
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Schizosaccharomyces pombe (strain: 972h-)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Taphrinomycotina; Schizosaccharomycetes; Schizosaccharomycetales; Schizosaccharomycetaceae; Schizosaccharomyces
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Genomic context

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See seb1 in Genome Data Viewer
Location:
chromosome: I
Exon count:
2
Sequence:
Chromosome: I; NC_003424.3 (959885..962227)

Chromosome I - NC_003424.3Genomic Context describing neighboring genes Neighboring gene glutamine aminotransferase subunit Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene two-component GAP Byr4 Neighboring gene ncRNA

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003424.3

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Polymerase pausing induced by sequence-specific RNA-binding protein drives heterochromatin assembly. Parsa JY, et al. Genes Dev, 2018 Jul 1. PMID 29967291, Free PMC Article
  2. Polyadenylation site selection: linking transcription and RNA processing via a conserved carboxy-terminal domain (CTD)-interacting protein. Larochelle M, et al. Curr Genet, 2017 May. PMID 27582274
  3. Rpb7 subunit of RNA polymerase II interacts with an RNA-binding protein involved in processing of transcripts. Mitsuzawa H, et al. Nucleic Acids Res, 2003 Aug 15. PMID 12907709, Free PMC Article
  4. A conserved ncRNA-binding protein recruits silencing factors to heterochromatin through an RNAi-independent mechanism. Marina DB, et al. Genes Dev, 2013 Sep 1. PMID 24013500, Free PMC Article
  5. Condensin locates at transcriptional termination sites in mitosis, possibly releasing mitotic transcripts. Nakazawa N, et al. Open Biol, 2019 Oct 31. PMID 31615333, Free PMC Article

See all (22) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. fission yeast CID-protein Seb1 is essential for termination of protein-coding and non-coding genes through interaction with S2-phosphorylated Pol II and nascent RNA.
    Title: The conserved protein Seb1 drives transcription termination by binding RNA polymerase II and nascent RNA.
  2. Seb1 promotes long-lived RNAPII pauses at pericentromeric repeat regions and that their presence correlates with the heterochromatin-triggering activities of the corresponding dg and dh DNA fragments
    Title: Polymerase pausing induced by sequence-specific RNA-binding protein drives heterochromatin assembly.
  3. Schizosaccharomyces pombe ortholog of Nrd1, Seb1, does not function in NNS-like termination but promotes polyadenylation site selection of coding and noncoding genes
    Title: The Nrd1-like protein Seb1 coordinates cotranscriptional 3' end processing and polyadenylation site selection.
  4. Seb1 is critical for poly(A) site selection by binding to the C-terminal domain (CTD) of RNAPII via a conserved CTD-interaction domain and recognizes specific sequence motifs clustered downstream of the polyadenylation site on the uncleaved pre-mRNA.
    Title: Polyadenylation site selection: linking transcription and RNA processing via a conserved carboxy-terminal domain (CTD)-interacting protein.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by PomBase

Function Evidence Code Pubs
enables RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA polymerase II C-terminal domain binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables chromatin-protein adaptor activity EXP
Inferred from Experiment
more info
 PubMed 
enables lncRNA binding EXP
Inferred from Experiment
more info
 PubMed 
enables lncRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables snoRNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in co-transcriptional mRNA 3'-end processing, cleavage and polyadenylation pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in mRNA 3'-end processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in pericentric heterochromatin formation EXP
Inferred from Experiment
more info
 PubMed 
involved_in regulatory ncRNA 3'-end processing EXP
Inferred from Experiment
more info
 PubMed 
involved_in sno(s)RNA 3'-end processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in termination of RNA polymerase II transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of Mei2 nuclear dot complex IDA
Inferred from Direct Assay
more info
 PubMed 
NOT part_of Nrd1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in nucleus EXP
Inferred from Experiment
more info
 PubMed 
is_active_in nucleus HDA PubMed 

General protein information

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Preferred Names
poly(A)site selection protein Seb1

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

  1. NC_003424.3 Reference assembly

    Range
    959885..962227
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001018545.3 → NP_593148.1  poly(A)site selection protein Seb1 [Schizosaccharomyces pombe]

    See identical proteins and their annotated locations for NP_593148.1

    Status: PROVISIONAL

    UniProtKB/Swiss-Prot
    O74176, Q9UTE3, Q9UTX2
    Conserved Domains (3) summary
    smart00582
    Location:6 → 148
    RPR; domain present in proteins, which are involved in regulation of nuclear pre-mRNA
    COG0724
    Location:379 → 475
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12331
    Location:403 → 481
    RRM_NRD1_SEB1_like; RNA recognition motif in Saccharomyces cerevisiae protein Nrd1, Schizosaccharomyces pombe Rpb7-binding protein seb1 and similar proteins
Nucleotide Protein
Heading Accession and Version

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