ppdb -- a plant promoter database
What you can do:
Locate promoter annotation of Arabidopsis and rice.
Highlights:
- The database contains information on promoter structures, transcription start sites (TSSs) that have been identified from full-length cDNA clones and also a vast amount of TSS tag data.
- In ppdb, the promoter structures are determined by sets of promoter elements identified by a position-sensitive extraction method called local distribution of short sequences (LDSS).
- By using this database, the core promoter structure, the presence of regulatory elements and the distribution of TSS clusters can be identified.
- Although no differentiation of promoter architecture among plant species has been reported, there is some divergence of utilized sequences for promoter elements. Therefore, ppdb is based on species-specific sets of promoter elements, rather than on general motifs for multiple species.
- Each regulatory sequence is hyperlinked to literary information, a PLACE entry served by a plant cis-element database, and a list of promoters containing the regulatory sequence.
Keywords:
- Arabidopsis
- Plant genome
- Oryza sativa
- Promoter Regions
- Transcription Initiation Site
- rice
Literature & Tutorials:
PubMed Link: ppdb: a plant promoter database
This record last updated: 04-21-2014