Full description of intron and intron framents tables

Group II introns by organism

The "Species" column shows the full name of the bacterium in which the intron is found, along with our abbreviation for the intron (in parentheses), which is based on the host organism abbreviation and the chronological order that the intron wasreported. Identical introns that are independently reported or present in multiple locations are only listed once, and the multiple copies can be found in the Accession Number column and the Multiple Insertion Sites Page.

Columns of "ORF Name", "Host gene" and "Locus" were based on information in GenBank entries or published papers.

ORF domains were figured out by us, and detailed descriptions of the domains can be found by clicking on the domain name links.

"ORF Class" and "Intron structure type" are classified according to Zimmerly et al. (2001) and Toor et al. (2001), and further information is providing in the links.

Finally, "Accession Numbers" give links to the DNA entry of GenBank with intron boundaries in parentheses.

Full length and ORF-less introns

Intron sequence: GenBank sequence is shown with GenBank numbering. Intron boundaries are marked with red (first 5 nt and last 2-3 nt), and the ORF is in blue with ATG underlined. Some intron sequences are in the complementary strand, and for these introns we show the complementary strand as is found in GenBank, but also provide the opposite (correct) strand of the intron below.

Intron with flanking sequence: The GenBank sequence is shown with approximately 400 bp of 5' and 3' flanks (intron in red).

ORF sequence (if applicable): The ORF tranlation is shown, with frame shifts noted with "X's" and premature stop codons noted with a "*"

Secondary structure: The secondary structure of the intron is shown with classification indicated. See consensus structures for tertiary interactions and conserved (important) features.

Incompletely sequenced introns

DNA sequence: GenBank sequence with GenBank numbering. The orientation is indicated by "5' end" and "3' end". Red indicates the RNA structural portion with the beginning (5 nt) and ending (2-3nt) positions underlined. Blue indicates the ORF region, with start and stop codons underlined. No underlines indicate that truncations have cut off those portions.

ORF sequence: The translated ORF sequence is shown for the portion corresponding to the fragment sequence. Highlights indicate conserved residues in domains 0-7, X, Zn.

Intron fragments

ORF sequence: The translated ORF sequence is shown for the portion corresponding to the fragment sequence. Highlights indicate conserved residues in domains 0-7, X, Zn.