ArticleNucleic acids research2008
GISSD: Group I Intron Sequence and Structure Database.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed.
- Group I introns in tRNA genes of Patescibacteria.mSystems · 2026Article
- Self-splicing RNA circularization facilitated by intact group I and II introns.Nature communications · 2025Article
- AlignmentFold and AlignmentPartition: Improving the align-then-fold approach for RNA secondary structure prediction.bioRxiv : the preprint server for biology · 2025Article
- Self-splicing introns in genes of Bastillevirinae bacteriophages.Nucleic acids research · 2025Article
- Accurate, comprehensive database of group I introns and their homing endonucleases.Bioinformatics advances · 2025Article
- Reduction of Ribosomal Expansion Segments in Yeast Species of the Magnusiomyces/Saprochaete Clade.Genome biology and evolution · 2024Article
- Antagonistic conflict between transposon-encoded introns and guide RNAs.Science (New York, N.Y.) · 2024Article
- Nucleotides Entrapped in Liposome Nanovesicles as Tools for Therapeutic and Diagnostic Use in Biomedical Applications.Pharmaceutics · 2023Review
- Anticodon table of the chloroplast genome and identification of putative quadruplet anticodons in chloroplast tRNAs.Scientific reports · 2023Article
- Comparison ofLife (Basel, Switzerland) · 2022Article
- Refining Mitochondrial Intron Classification With ERPIN: Identification Based on Conservation of Sequence Plus Secondary Structure Motifs.Frontiers in microbiology · 2022Article
- High-throughput dissection of the thermodynamic and conformational properties of a ubiquitous class of RNA tertiary contact motifs.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- A Phylogenetic Approach to Structural Variation in Organization of Nuclear Group I Introns and Their Ribozymes.Non-coding RNA · 2021Article
- TE Hub: A community-oriented space for sharing and connecting tools, data, resources, and methods for transposable element annotation.Mobile DNA · 2021Article
- αβDCA method identifies unspecific binding but specific disruption of the group I intron by the StpA chaperone.RNA (New York, N.Y.) · 2020Article
- Discovery of new group I-D introns leads to creation of subtypes and link to an adaptive response of the mitochondrial genome in fungi.RNA biology · 2020Article
- Group I introns are widespread in archaea.Nucleic acids research · 2018Article
- RNArchitecture: a database and a classification system of RNA families, with a focus on structural information.Nucleic acids research · 2018Article
- Single-Molecule Fluorescence Reveals Commonalities and Distinctions among Natural and in Vitro-Selected RNA Tertiary Motifs in a Multistep Folding Pathway.Journal of the American Chemical Society · 2017Article
- TurboFold II: RNA structural alignment and secondary structure prediction informed by multiple homologs.Nucleic acids research · 2017Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Group I Intron Sequence and Structure Database (GISSD) is a specialized and comprehensive database for group I introns, focusing on the integration of useful group I intron information from available databases and providing de novo data that is essential for understanding these introns at a systematic level. This database presents 1789 complete intron records, including the nucleotide sequence of each annotated intron plus 15 nt of the upstream and downstream exons, and the pseudoknots-containing secondary structures predicted by integrating comparative sequence analyses and minimal free energy algorithms. These introns represent all 14 subgroups, with their structure-based alignments being separately provided. Both structure predictions and alignments were done manually and iteratively adjusted, which yielded a reliable consensus structure for each subgroup. These consensus structures allowed us to judge the confidence of 20 085 group I introns previously found by the INFERNAL program and to classify them into subgroups automatically. The database provides intron-associated taxonomy information from GenBank, allowing one to view the detailed distribution of all group I introns. CDSs residing in introns and 3D structure information are also integrated if available. About 17 000 group I introns have been validated in this database; approximately 95% of them belong to the IC3 subgroup and reside in the chloroplast tRNA(Leu) gene. The GISSD database can be accessed at http://www.rna.whu.edu.cn/gissd/
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