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Neural Network Promoter Prediction

PLEASE NOTE: This server runs the 1999 NNPP version 2.2 (March 1999) of the promoter predictor.

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Enter a DNA sequence to find possible transcription promoters.

Prediction Options

Type of organism:

Include reverse strand?

Minimum promoter score (between 0 and 1):

Sequences

Cut and paste your sequence(s) here:
Use single-letter nucleotides (A, C, G, T). You can include multiple sequences if each has a FASTA title line starting with >.

Please be patient—promoter prediction takes about 10 seconds per kilobase.

Training set

Our training and test sets of human and Drosophila melanogaster promoter sequences are available to the community for testing transcription start site predictors. These sites also contain our representative, standardized data sets of human and Drosophila melanogaster genes.

Need splice site predictions?

Use the companion Splice Site Prediction tool to identify donor and acceptor sites.

Publications

Reese MG, 2001. “Application of a time-delay neural network to promoter annotation in the Drosophila melanogaster genome”, Comput Chem 26(1), 51-6.

Reese MG, 2000. “Computational prediction of gene structure and regulation in the genome of Drosophila melanogaster”, PhD thesis, UC Berkeley/University of Hohenheim.

Promoter prediction code by Martin G. Reese; web interface by Nomi Harris.