EMBOSS explorer

showseq

Displays sequences with features in pretty format (read the manual)

Unshaded fields are optional and can safely be ignored. (hide optional fields)

Input section

Select an input sequence. Use one of the following three fields:

  1. To access a sequence from a database, enter the USA here:
  2. To upload a sequence from your local computer, select it here:
  3. To enter the sequence data manually, type here:

Restriction enzyme methylation data file (optional). Use one of the following two fields:

  1. To access a standard EMBOSS data file, enter the name here:
  2. To upload a data file from your local computer, select it here:
Required section
Display format
Enter a list of things to display (only used if you chose to enter your own list above)
Additional section
Regions to translate (eg: 4-57,78-94) (If this is left blank the complete sequence is translated.)
Regions to translate in reverse direction (eg: 78-94,4-57) (If this is left blank the complete reverse sequence is translated.)
Regions to put in uppercase (eg: 4-57,78-94) (If this is left blank, then the sequence case is left alone.)
Regions to colour in HTML (eg: 4-57 red 78-94 green)
Regions to mark (eg: 4-57 promoter region 78-94 first exon) (If this is left blank, then no annotation is added.)
Comma separated restriction enzyme list
Genetic code to use
Feature display options
Source of feature to display
Type of feature to display
Sense of feature to display (default is 0 - any sense, 1 - forward sense, -1 - reverse sense)
Minimum score of feature to display
Maximum score of feature to display
Tag of feature to display
Value of feature tags to display
Only display the matching tags?
Advanced section
Restriction map options
Display RE sites in flat format?
Minimum cuts per RE
Maximum cuts per RE
Minimum recognition site length
Force single RE site only cuts?
Allow blunt end RE cutters?
Allow sticky end RE cutters?
Allow ambiguous RE matches?
Allow circular DNA?
Use methylation data?
Only use restriction enzymes with suppliers?
Limits RE hits to one isoschizomer?
Minimum size of ORFs
Display protein sequences in three-letter code?
Number the sequences?
Width of sequence to display
Line length of page (0 for indefinite)
Margin around sequence for numbering
Show sequence ID?
Show description?
Offset to start numbering the sequence from
Use HTML formatting?
Output section
Run section
Email address: If you are submitting a long job and would like to be informed by email when it finishes, enter your email address here.