GISSD

RNA Type: Ribozyme

Overview: Group I Intron Sequence and Structure Database (GISSD) is database of group I introns on bacteria, lower eukaryotes and plants. GISSD contains consensus structures for each group I subgroup based on high quality alignments. Each intronic structure and alignment stored in the database was manually curated based on previous predictions using the software INFERNAL (Nawrocki et al., 2009). It also stores taxonomy information from GenBank and 3-D structures for some introns.

Search Methods:

• Keyword: search by intron name, host gene name, organism, phylogeny (kingdom, order, phylum, etc) or by accession number. The query can also be filtered according to intron subgroups, CDS, 3D structure, host gene or cell location (e.g. nucleus, chloroplast and mitochondrion).
• TAG: search by intron group (e. g., IA, IB etc).

Source: NCBI/GenBank, CRW, Rfam, PDB and Prediction tools (RNAstructure, INFERNAL, RnaViz).

Information Source: In silico annotation.

Information Content: Alignment, Catalysis, Cell location, Classification, Intron type, Phylogeny, Prediction tools, Sequence, Structure.

Reference: Zhou et al., 2007

PubmedID: 17942415.

Year: 2008

Multiple search: Yes

Download: FASTA, Other.

Genomic Overview: No

Organism: Pseudomonas stutzeri A1501, Rhizobium etli CIAT 652, Buchnera aphidicola Sg, Chloroflexus sp. Y-400-fl, Streptococcus pyogenes MGAS10750, Leptotrichia sp. oral taxon 212, Corynebacterium pseudotuberculosis 42/02-A, Propionibacterium avidum, Staphylococcus aureus RF122, Staphylococcus aureus subsp. aureus MRSA252, Thermococcus sp. AM4, Psychrobacter urativorans, Buchnera aphidicola Tuc7, Agathobacter rectalis DSM 17629, Acidilobus saccharovorans and 7 others.

Url: http://www.rna.whu.edu.cn/gissd/