PlantProm: a database of plant promoter sequences.

Resource Type: 
Publication
Publication Type: 
Journal Article
Title: 
PlantProm: a database of plant promoter sequences.
Authors: 
Shahmuradov IA, Gammerman AJ, Hancock JM, Bramley PM, Solovyev VV
Series Name: 
Nucleic acids research
Journal Abbreviation: 
Nucleic Acids Res
Volume: 
31
Issue: 
1
Page Numbers: 
114-7
Publication Year: 
2003
Publication Date: 
2003 Jan 01
ISSN: 
1362-4962
EISSN: 
1362-4962
Cross Reference: 
PMIDLoading content
Citation: 
Shahmuradov IA, Gammerman AJ, Hancock JM, Bramley PM, Solovyev VV. PlantProm: a database of plant promoter sequences.. Nucleic acids research. 2003 Jan 01; 31(1):114-7.
Abstract: 

PlantProm DB, a plant promoter database, is an annotated, non-redundant collection of proximal promoter sequences for RNA polymerase II with experimentally determined transcription start site(s), TSS, from various plant species. The first release (2002.01) of PlantProm DB contains 305 entries including 71, 220 and 14 promoters from monocot, dicot and other plants, respectively. It provides DNA sequence of the promoter regions (-200 : +51) with TSS on the fixed position +201, taxonomic/promoter type classification of promoters and Nucleotide Frequency Matrices (NFM) for promoter elements: TATA-box, CCAAT-box and TSS-motif (Inr). Analysis of TSS-motifs revealed that their composition is different in dicots and monocots, as well as for TATA and TATA-less promoters. The database serves as learning set in developing plant promoter prediction programs. One such program (TSSP) based on discriminant analysis has been created by Softberry Inc. and the application of a support ftp: vector machine approach for promoter identification is under development. PlantProm DB is available at http://mendel.cs.rhul.ac.uk/ and http://www.softberry.com/.

Publication Model: 
Print
Language: 
English
Language Abbr: 
eng
Journal Country: 
England