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lncRNA gene - nc-pho1 (SPNCRNA.1712) - cis-acting regulatory lncRNA prt, pho1 repressing

Gene summary

Standard name
nc-pho1
Systematic ID
SPNCRNA.1712
Product
cis-acting regulatory lncRNA prt, pho1 repressing
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
prt
Feature type
lncRNA gene
Genomic location
chromosome II: 4446359..4448918 forward strand

Annotation

GO biological process

GO:0030643 - intracellular phosphate ion homeostasis

References:

GO:0140256 - negative regulation of cellular response to phosphate starvation

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GO:0000122 - negative regulation of transcription by RNA polymerase II

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GO:0031047 - regulatory ncRNA-mediated gene silencing

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GO molecular function

GO:0003714 - transcription corepressor activity

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Genome organisation

PBO:0004569 - alternative transcripts, alternative initiation site

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Multi-locus phenotype

FYPO:0001045 - decreased acid phosphatase activity

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Genotypes:

FYPO:0002243 - increased acid phosphatase activity

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Genotypes:

FYPO:0000825 - increased RNA level during vegetative growth

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Genotypes:

FYPO:0006076 - siRNA absent from cell

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Genotypes:

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

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Single locus phenotype

FYPO:0001678 - abolished protein localization to chromatin

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Genotypes:

FYPO:0001045 - decreased acid phosphatase activity

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Genotypes:

FYPO:0004346 - decreased protein localization to chromatin at ncRNA genes

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Genotypes:

FYPO:0007505 - decreased protein localization to chromatin at promoter

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Genotypes:

FYPO:0002243 - increased acid phosphatase activity

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Genotypes:

FYPO:0006548 - increased gene expression

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Genotypes:

FYPO:0005518 - increased histone H3-K14 acetylation at protein coding gene during vegetative growth

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Genotypes:

FYPO:0004415 - increased phosphatase activity

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Genotypes:

FYPO:0000825 - increased RNA level during vegetative growth

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Genotypes:

FYPO:0001317 - normal RNA level during vegetative growth

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Genotypes:

References / Literature

PMID:24493644 - lncRNA recruits RNAi and the exosome to dynamically regulate pho1 expression in response to phosphate levels in fission yeast.
Shah S et al. Genes Dev 2014 Feb 01;28(3):231-44
PMID:26670050 - Regulation of mRNA Levels by Decay-Promoting Introns that Recruit the Exosome Specificity Factor Mmi1.
Kilchert C et al. Cell Rep 2015 Dec 22;13(11):2504-2515
PMID:36882296 - Duf89 abets lncRNA control of fission yeast phosphate homeostasis via its antagonism of precocious lncRNA transcription termination.
Sanchez AM et al. RNA 2023 Jun;29(6):808-825
PMID:25428589 - Long non-coding RNA-mediated transcriptional interference of a permease gene confers drug tolerance in fission yeast.
Ard R et al. Nat Commun 2014 Nov 27;5:5576
PMID:30355770 - RNA polymerase II CTD interactome with 3' processing and termination factors in fission yeast and its impact on phosphate homeostasis.
Sanchez AM et al. Proc Natl Acad Sci U S A 2018 Nov 06;115(45):E10652-E10661
PMID:36794724 - Cellular responses to long-term phosphate starvation of fission yeast: Maf1 determines fate choice between quiescence and death associated with aberrant tRNA biogenesis.
Garg A et al. Nucleic Acids Res 2023 Apr 24;51(7):3094-3115
PMID:32415063 - Conserved protein Pir2 ARS2 mediates gene repression through cryptic introns in lncRNAs.
Thillainadesan G et al. Nat Commun 2020 May 15;11(1):2412
PMID:29618061 - Histone deacetylation promotes transcriptional silencing at facultative heterochromatin.
Watts BR et al. Nucleic Acids Res 2018 Jun 20;46(11):5426-5440
PMID:34389684 - Genetic screen for suppression of transcriptional interference identifies a gain-of-function mutation in Pol2 termination factor Seb1.
Schwer B et al. Proc Natl Acad Sci U S A 2021 Aug 17;118(33)
PMID:32546512 - Inactivation of fission yeast Erh1 de-represses pho1 expression: evidence that Erh1 is a negative regulator of prt lncRNA termination.
Schwer B et al. RNA 2020 Oct;26(10):1334-1344
PMID:29414789 - A long noncoding (lnc)RNA governs expression of the phosphate transporter Pho84 in fission yeast and has cascading effects on the flanking prt lncRNA and pho1 genes.
Garg A et al. J Biol Chem 2018 Mar 23;293(12):4456-4467
PMID:31276588 - Inositol pyrophosphates impact phosphate homeostasis via modulation of RNA 3' processing and transcription termination.
Sanchez AM et al. Nucleic Acids Res 2019 Sep 19;47(16):8452-8469
PMID:26264592 - RNA polymerase II CTD phospho-sites Ser5 and Ser7 govern phosphate homeostasis in fission yeast.
Schwer B et al. RNA 2015 Oct;21(10):1770-80
PMID:34967420 - Genetic screen for suppression of transcriptional interference reveals fission yeast 14-3-3 protein Rad24 as an antagonist of precocious Pol2 transcription termination.
Garg A et al. Nucleic Acids Res 2022 Jan 25;50(2):803-819