Sewer: Nucleic Acid Sequence Analysis
Author: Malay

Select the program of choice. Paste your query in the query box. Click Submit button to pass on the query with default options. Please note that some programs might have some options/parameters that are required. Also note that SeWeR doesn't check whether the required option(s)/parameter(s) is supplied or not. See program description for details. Click Options button to fill up options. The button is a toggle. Clicking it again will close the option. Click Customize to customize this search. Fill up all the options that you require, then click Customize. SeWeR will open another window with a customized page. Save that file on your computer. Click Help to check the help page of the selected program. SeWeR will open a new window to show the help page. Click Submit to pass on the query. SeWeR will open a new window for results.
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entreZ nucleotide search
Limited to
ExcludeESTs STSs GSS working draft patents all
From To Use the format YYYY/MM/DD; month and day are optional.

webcutter
Sequence title | Display Restriction Map by enzyme name by base pair
Type of analysis Linear Circular Find sites which may be introduced by silent mutagenesis
Enzymes All Not cutting Enzymes cutting once Enzymes cutting exactly times Enzymes cutting at least times, and at most times
highlights for enzymes from the polylinker
Enzymes to include in the analysis All enzymes in the database Only enzymes with recognition sites equal to or greater than bases long Only the following enzymes

translate
EMBL Accession number
Translation table
Frame | Complement
Start Position | End Position

Protein Machine |
Translate a DNA sequence into protein at EBI server. Input type- DNA. Required option-none.

Webcutter |
One of the best programs for restriction analysis. Go to the home for complete features. Input type DNA. Required option-none.

Entrez |
Retrieve a DNA sequence from Genbank at NCBI server. Input type key-words. Required option-none.

GeneMark |
Predict ORF in your sequence. Input type: DNA sequence. Required option-none.

genemark Sequence title Species Rbs model Use alternate genetic code: Eukaryote (e.g. Yeast, ATG = only start) Mycoplasma (TGA = Tryptophan) Window size Step size Threshold Graphical output options Generate PostScript graphics Mark orfs on graph Mark regions on graph Mark stop codons on graph Mark start codons on graph Mark frameshifts on graph Mark putative exon splice sites Print graph in landscape format Email address (required for graphical output) Text output options List open reading frames (ORFs) predicted as coding sequences (CDSs) List regions of interest List putative eukaryotic splice sites Write protein translations of ORFs Write nucleotide transcripts of ORFs Write protein translations of regions Write nucleotide transcripts of regions Write protein translations of putative exons Write nucleotide transcripts of putative exons