Mail Prediction Server
The NetPlantGene Mail server is a service producing neural network
predictions of splice sites in Arabidopsis thaliana DNA.
The service has been enhanced and is now supported by the
NetGene2 splice site prediction program.
Using the mailserver or this WWW service will use NetGene2 to make
predictions of splice sites in plant genes.
In order to use the NetPlantGene mail-server for prediction on nucleotides
sequences, you should prepare a message for the server
The submitted sequences are kept confidential and will
be erased immediately after processing.
- A number of keywords can be put in the message, controlling the
processing of the sequence. The keywords should be put first on single lines
before the sequences in the mail message
NetGene2 returns help on using the mailserver
similar to this information).
Return predictions in a numerical form. This is useful for detailed
analysis of a sequence. The mail returned contains for each sequence
submitted to the server a line starting with the symbol `>' followed
by the name and the length of the sequence. This is followed by twelve
collumns, with the following information given by column number
(see output format below)
As a default NetGene2 makes predictions on the complementary
strand as well as the direct strand (the submitted strand). Include
the word 'nocomplement' if prediction for the direct strand is wished
A description of the output format is concatenated to results files
returned from NetGene2. If this is not wished include the keyword
A figure showing details of the neural network prediction is mailed as
default. In case this is not wanted, the keyword 'nopostscript' may be
included in the mail.
- Enter your sequences in the message. Each sequence must
be preceded by a line starting by > followed by a name or identifyer of
the sequence. There must be at least one character at each line of
- The sequences must be submitted using the one letter abbreviations for
the nucleotides: `acgtACGT', and should be more than 200 (preferably more than 250)
and less than 100000 nucleotides long. The mailserver
can handle up to 1500 sequences pr. email.
- Other characters will be accepted as don't care, when making the
- Example: Entering a sequence: the syntax
of the mail should look like this:
- Putting a single '.' on a line (no other things) will make a forced
end of the data, thus making it possible to eliminate such things as
signatures from the sequences.
- The server will email you the results, including scores if you have
selected this. The server will not give graphics output for extremely
PAPER TO REFERENCE WHEN REPORTING RESULTS:
S.M. Hebsgaard, P.G. Korning, N. Tolstrup, J. Engelbrecht, P. Rouze, S. Brunak: Splice site prediction in Arabidopsis thaliana DNA by combining local and global sequence information,
Nucleic Acids Research, 1996, Vol. 24, No. 17, 3439-3452.