ArticleNucleic acids research2004
Genome-wide analysis of alternative pre-mRNA splicing in Arabidopsis thaliana based on full-length cDNA sequences.
Article in Nucleic acids research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 108 papers.
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Who cites it
108 citing papers in PubMed.
- A MYB transcription factor underlying plant height in sorghum qHT7.1 and maize Brachytic 1 loci.The Plant journal : for cell and molecular biology · 2024Article
- Concordant Gene Expression and Alternative Splicing Regulation under Abiotic Stresses in Arabidopsis.Genes · 2024Article
- Importance of pre-mRNA splicing and its study tools in plants.Advanced biotechnology · 2024Review
- Alternative Splicing Variation: Accessing and Exploiting in Crop Improvement Programs.International journal of molecular sciences · 2023Review
- Genome-wide association analysis provides insights into the genetic basis of photosynthetic responses to low-temperature stress in spring barley.Frontiers in plant science · 2023Article
- A survey of the full-length transcriptome of Gracilariopsis lemaneiformis using single-molecule long-read sequencing.BMC plant biology · 2022Article
- Full-length fruit transcriptomes of southern highbush (Vaccinium sp.) and rabbiteye (V. virgatum Ait.) blueberry.BMC genomics · 2022Article
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- Global Survey of Alternative Splicing in Rice by Direct RNA Sequencing During Reproductive Development: Landscape and Genetic Regulation.Rice (New York, N.Y.) · 2021Article
- Comparative RNA-Seq analysis of the root revealed transcriptional regulation system for aluminum tolerance in contrasting indica rice of North East India.Protoplasma · 2021Article
- Temperature-Dependent Alternative Splicing of Precursor mRNAs and Its Biological Significance: A Review Focused on Post-Transcriptional Regulation of a Cold Shock Protein Gene in Hibernating Mammals.International journal of molecular sciences · 2020Review
- Cell lineage-specific transcriptome analysis for interpreting cell fate specification of proembryos.Nature communications · 2020Article
- Investigation for a multi-silique trait inPeerJ · 2020Article
- Global gene expression profile under low-temperature conditions in the brain of the grass carp (Ctenopharyngodon idellus).PloS one · 2020Article
- Reconstruction of the full-length transcriptome atlas using PacBio Iso-Seq provides insight into the alternative splicing in Gossypium australe.BMC plant biology · 2019Article
- An eukaryotic elongation factor 2 from Medicago falcata (MfEF2) confers cold tolerance.BMC plant biology · 2019Article
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- Genome-Wide Analysis of Alternative Splicing Provides Insights Into Stress Response of the Pacific White ShrimpFrontiers in genetics · 2019Article
- New Era in Plant Alternative Splicing Analysis Enabled by Advances in High-Throughput Sequencing (HTS) Technologies.Frontiers in plant science · 2019Article
48 more citing papers are in PubMed but not listed here.
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We mapped RIKEN Arabidopsis full-length (RAFL) cDNAs to the Arabidopsis thaliana genome to search for alternative splicing events. We used 278,734 full-length and 3'/5' terminal reads of the sequences of 220,214 RAFL cDNA clones for the analysis. Eighty-nine percent of the cDNA sequences could be mapped to the genome and were clustered in 17,130 transcription units (TUs). Alternative splicing events were found in 1764 out of 15,214 TUs (11.6%) with multiple sequences. We collected full-length cDNA clones from plants grown under various environmental conditions or from various organs. We then analyzed the correlation between alternative splicing events and environmental stress conditions. Alternative splicing profiles changed according to environmental stress conditions and the various developmental stages of plant organs. In particular, cold-stress conditions affected alternative splicing profiles. The change in alternative splicing profiles under cold stress may be mediated by alternative splicing and transcriptional regulation of splicing factors.
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