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RNA-seq analysis of budding yeast wild type (BY4741) and prp45(1-169) mutant

ABSTRACT: RNA-seq analysis of budding yeast wild type (BY4741) and prp45(1-169) mutant

PROVIDER: PRJEB16749 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1709740_1.fastq.gz	Fastqsanger.gz
	ERR1709740_2.fastq.gz	Fastqsanger.gz
	ERR1709737_1.fastq.gz	Fastqsanger.gz
	ERR1709737_2.fastq.gz	Fastqsanger.gz
	ERR1709738_1.fastq.gz	Fastqsanger.gz

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RNA-seq analysis of budding yeast wild type (BY4741) and prp45(1-169) mutant

Project description:Prp45 is a budding yeast NineTeen-Complex associated factor, which plays a role in pre-mRNA splicing. In addition to its documented involvement in the second step of splicing, here we show that it is important in the early stages of co-transcriptional spliceosome assembly as well. To determine the overall splicing efficiency of prp45 mutant cells and to reveal how the efficiency depends on the sequences which define introns (whether they are consensual or non-consensual), we performed RNA-seq analysis of prp45(1-169) and corresponding wild-type cells (two biological replicates each). Total RNA was isolated by combining phenol-chlorophorm extraction with MasterPure Yeast RNA Purification Kit (Epicentre). Ribodepletion, library preparation and sequencing were performed by BGI Genomics.

2017-02-10 | E-MTAB-5149 | biostudies-arrayexpress

RNA-seq analysis of the budding yeast prp45(1-169) strain (a scarless truncation)

Project description:Prp45 is a budding yeast NineTeen-Complex associated factor, which plays a role in pre-mRNA splicing. prp45(1-169) is a temperature-sensitive truncation allele expressing only the first 169 amino acids (the full-length protein consists of 379 amino acids). RNA-seq analysis was performed to determine changes in transcription and splicing in cells with prp45(1-169) allele prepared by the CRISPR/Cas9 method as a scarless truncation, i.e. with no tags and with preserved endogenous 3' UTR. Total RNA was isolated by combining phenol-chlorophorm extraction with MasterPure Yeast RNA Purification Kit (Epicentre). Ribodepletion, library preparation and sequencing were performed by BGI Genomics.

2024-08-30 | E-MTAB-5334 | biostudies-arrayexpress

RNA-seq analysis of the budding yeast set1∆ strain and prp45(1-169) set1∆ double mutant strain

Project description:Prp45 is a budding yeast NineTeen-Complex associated factor, which plays a role in pre-mRNA splicing. Because its human ortholog, SNW1/SKIP, is known to functionally and physically interact with factors involved in transcription elongation and chromatin modifications, it was suggested to be one of the coupling factors which functionally connect splicing and transcription. To determine whether yeast Prp45 has this function as well we tested the genetic interactions between prp45(1-169) allele and deletions of histone modifiers and transcription elongation regulators. RNA-seq analysis was performed to address the changes in transcription and/or splicing in strains deleted in set1, a histone methyltransferase responsible for H3K4 methylation, and the corresponding prp45(1-169) set1 double mutant. Total RNA was isolated by combining phenol-chlorophorm extraction with MasterPure Yeast RNA Purification Kit (Epicentre). Ribodepletion, library preparation and sequencing were performed by BGI Genomics.

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RNA-seq analysis of the budding yeast rad6 strain and prp45(1-169) rad6 double mutant strain

Project description:Prp45 is a budding yeast NineTeen-Complex associated factor, which plays a role in pre-mRNA splicing. Because its human ortholog, SNW1/SKIP, is known to functionally and physically interact with factors involved in transcription elongation and chromatin modifications, it was suggested to be one of the coupling factors which functionally connect splicing and transcription. To determine whether the yeast Prp45 has this function as well we tested genetic interactions between prp45(1-169) allele and deletions of histone modifiers and transcription elongation regulators. RNA-seq analysis was performed to address the changes in transcription and/or splicing in strains deleted in rad6, a kinase phosphorylating serine 2 of the C-terminal domain of RNA Polymerase II and an E2 enzyme for H2BK123 monoubiquitination, respectively, and the corresponding double mutant with prp45(1-169). Total RNA was isolated by combining phenol-chlorophorm extraction with MasterPure Yeast RNA Purification Kit (Epicentre). Ribodepletion, library preparation and sequencing were performed by BGI Genomics.

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RNA-seq analysis of the budding yeast prp45(1-169) strain (a "scarless" truncation)

Project description:RNA-seq analysis of the budding yeast prp45(1-169) strain (a "scarless" truncation)

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RNA-seq analysis of the budding yeast set1∆ strain and prp45(1-169) set1∆ double mutant strain

Project description:RNA-seq analysis of the budding yeast set1∆ strain and prp45(1-169) set1∆ double mutant strain

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Project description:RNA-seq analysis of the budding yeast ctk1∆ and rad6∆ strains and prp45(1-169) ctk1∆ and prp45(1-169) rad6∆ double mutant strains

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Histone H3Lys4 trimethylation in budding yeast S. cerevisiae for wild type and cnc1Djhd2D yeast mutants

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