GeSeq - Annotation of Organellar Genomes
GeSeq has been developed for a rapid and accurate annotation of organelle genomes, in particular chloroplast genomes.
Please take a look at our documentation which includes a quickstart section.
Citations keep this server running. If you use GeSeq please cite:
Tillich M, Lehwark P, Pellizzer T, Ulbricht-Jones ES, Fischer A, Bock R and Greiner S (2017) GeSeq – versatile and accurate annotation of organelle genomes. Nucleic Acids Research 45: W6-W11
Hover over buttons for tips. To load an example job, press "Example" in the "Actions" field.
FASTA file(s) to annotate
Filelist
Sequence source
Annotation Options
Annotation Support
Prefilter (experimental)
Annotation revision
Annotation
BLAT search
Protein search identity
Max intron length
bp
rRNA, tRNA, DNA search identity
Max intron length (except for self and shortmatches)
bp
Annotate
Options
Chloroplast land plants
Annotate
3rd Party tRNA annotators
Genetic code
Max intron length
bpOptions
Additional command line parameters:
Search mode
Genetic code
Additional command line parameters:
Search mode
Genetic code
Max intron + V-loop length
bpCut-off score for reporting tRNAs
Additional command line parameters:
Sequence source
Search mode
Genetic Code
Cut-off score for reporting tRNAs
Score and report output options
Show primary and secondary structure components to scores
Additional command line parameters:
BLAT Reference Sequences
3rd Party References
Add NCBI RefSeq(s)no RefSeq selected
MPI-MP Reference Set
(CDS + rRNA)
User References
GenBank/EMBL
fileflist
FASTA Nucleotide (CDS)
fileflist
FASTA Nucleotide (tRNA, rRNA, primer, other DNA or RNA)
fileflist
3rd Party Stand-Alone Annotators
Chloroplast land plants
Annotate
Blast e-value cutoff
Empty ORF minimum length
ntGenetic code
Alignment matrix during blast
Maximum intron size
Minimum exon size
Minimum intron size
Minumum ORF length
Overlapping cutoff
Special case orfOVorf
aa
Special case orfOVgene
aa