TRF5 non-canonical poly(A) polymerase TRF5 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Gene symbol: TRF5
Gene description: non-canonical poly(A) polymerase TRF5
Primary source: FungiDB:YNL299W
Locus tag: YNL299W
See related: SGD:S000005243; AllianceGenome:SGD:S000005243; VEuPathDB:YNL299W
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 polynucleotide adenylyltransferase activity. Involved in RNA metabolic process. Located in nucleolus. Part of TRAMP complex. Orthologous to human TENT4A (terminal nucleotidyltransferase 4A) and TENT4B (terminal nucleotidyltransferase 4B). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See TRF5 in Genome Data Viewer

Location:: chromosome: XIV

Exon count:: 1

Sequence:: Chromosome: XIV; NC_001146.8 (66517..68445)

Chromosome XIV - NC_001146.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001146.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cotranscriptional recruitment of RNA exosome cofactors Rrp47p and Mpp6p and two distinct Trf-Air-Mtr4 polyadenylation (TRAMP) complexes assists the exonuclease Rrp6p in the targeting and degradation of an aberrant messenger
Title: Cotranscriptional recruitment of RNA exosome cofactors Rrp47p and Mpp6p and two distinct Trf-Air-Mtr4 polyadenylation (TRAMP) complexes assists the exonuclease Rrp6p in the targeting and degradation of an aberrant messenger ribonucleoprotein particle (mRNP) in yeast.
Air1 zinc knuckles 4 and 5 and a conserved IWRXY motif are critical for the function and integrity of the Trf4/5-Air1/2-Mtr4 polyadenylation (TRAMP) RNA quality control complex.
Title: Air1 zinc knuckles 4 and 5 and a conserved IWRXY motif are critical for the function and integrity of the Trf4/5-Air1/2-Mtr4 polyadenylation (TRAMP) RNA quality control complex.
Study demonstrates that TRF4, the exosome, and TRF5 participate in antisense RNA-mediated regulation of genes involved in phosphate metabolism.
Title: Distinct roles of non-canonical poly(A) polymerases in RNA metabolism.
Trf5 colocalized with nascent pre-rRNPs, indicating that this nucleolar surveillance initiates cotranscriptionally.
Title: The nuclear poly(A) polymerase and Exosome cofactor Trf5 is recruited cotranscriptionally to nucleolar surveillance.
TRF4, TRF5, and RRP6 play a role in the regulation of histone mRNA levels in yeast.
Title: Contribution of Trf4/5 and the nuclear exosome to genome stability through regulation of histone mRNA levels in Saccharomyces cerevisiae.
RNA processing and degradation intermediates are polyadenylated, and that their polyadenylation is dependent on the activity of Trf4p and Trf5p, two variant poly(A) polymerases.
Title: Contributions of Trf4p- and Trf5p-dependent polyadenylation to the processing and degradative functions of the yeast nuclear exosome.
Trf4 and Trf5 protein complexes have essential roles in generating functional mRNA poly(A) tails in the nucleus
Title: Trf4 and Trf5 proteins of Saccharomyces cerevisiae exhibit poly(A) RNA polymerase activity but no DNA polymerase activity.

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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 ATP binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotidyltransferase activity	IEA Inferred from Electronic Annotation more info
enables poly(A) RNA polymerase activity	IBA Inferred from Biological aspect of Ancestor more info
enables poly(A) RNA polymerase activity	IDA Inferred from Direct Assay more info	PubMed
enables poly(A) RNA polymerase activity	IEA Inferred from Electronic Annotation more info
enables poly(A) RNA polymerase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables poly(A) RNA polymerase activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in RNA 3'-end processing	IBA Inferred from Biological aspect of Ancestor more info
involved_in RNA metabolic process	IEA Inferred from Electronic Annotation more info
involved_in TRAMP-dependent tRNA surveillance pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in U4 snRNA 3'-end processing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in U4 snRNA 3'-end processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell division	IEA Inferred from Electronic Annotation more info
involved_in histone mRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent CUT catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent mRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent rRNA catabolic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nuclear polyadenylation-dependent snRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nuclear polyadenylation-dependent snoRNA catabolic process	IGI Inferred from Genetic Interaction more info	PubMed
involved_in poly(A)-dependent snoRNA 3'-end processing	IGI Inferred from Genetic Interaction more info	PubMed
involved_in polyadenylation-dependent ncRNA catabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of TRAMP complex	IBA Inferred from Biological aspect of Ancestor more info
part_of TRAMP complex	IDA Inferred from Direct Assay more info	PubMed
located_in nucleolus	HDA more info	PubMed
is_active_in nucleolus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleolus	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: non-canonical poly(A) polymerase TRF5

NP_014100.2

EC 2.7.7.19

Non-canonical poly(A) polymerase; involved in nuclear RNA degradation as a component of the TRAMP complex; catalyzes polyadenylation of hypomodified tRNAs, and snoRNA and rRNA precursors; overlapping but non-redundant functions with Pap2p

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_001146.8 Reference assembly

Range

66517..68445

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001183137.1 → NP_014100.2 TPA: non-canonical poly(A) polymerase TRF5 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_014100.2

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W0P5, P48561

UniProtKB/TrEMBL

A6ZSI0, B3LPD5

Conserved Domains (1) summary

COG5260
Location:100 → 611

TRF4; DNA polymerase sigma [Replication, recombination and repair]