DOGMA Dual Organaller GenoMe Annotator
Dual Organellar GenoMe Annotator











Documentation:



Returning users:













Stacia K. Wyman
staciakwyman@gmail.com

DOGMA citation:
Automatic annotation of
organellar genomes with
DOGMA. Wyman SK,
Jansen RK, Boore JL,
Bioinformatics 2004
20(17):3252-3255
DOGMA is a tool for annotating plant chloroplast and animal mitochondrial genomes developed by Stacia Wyman in 2004 while a graduate student in the Jansen Lab at UT Austin. While it remains useful to many, it is not under active development and has only very minimal support, so please manage your expectations accordingly.

To annotate plant mitochondrial genomes, check out Andy Alverson's Mitofy software:
http://dogma.ccbb.utexas.edu/mitofy.

New Annotation

Enter your userid and a new, unique identifier name for the genome you want to annotate. This is the name which you will use to retrieve the annotation later.
Userid:
NEW user?
Unique identifier for annotation (not your userid):
Genome type: Mitochondrial Chloroplast
Gapped alignment? Yes No
Genetic Code for Blastx:
Percent identity cutoff for protein coding genes:
Percent identity cutoff for RNAs:
E-value:
Number of blast hits to return:

Select input file (Fasta format) :  

Mitochondria-specific options:

Reorient to cox1? Yes No
COVE threshold for mt tRNAs:

Chloroplast genomes take about 5-10 minutes to finish in DOGMA. Please do not stop it (or close the browser window) until you get the page telling you the run is complete.