Recent updates

  • 2018 Jan 03 | Proteins - Update for conserved protein domains (PFAM 31.0)
  • 2017 Dec 21 | Proteins/Genes - Update for Zea mays data (AGP_v.4)
  • 2017 Nov 28 | Proteins/Genes - Update for Hordeum vulgare data (IBSC/PGSB_v.1)

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... or the reference plant
Enter keyword or protein/gene name

Search by protein sequence

All plants are selected by default Vitis vinifera (Grapevine)
Brassica napus (Rapeseed)
Solanum tuberosum (Potato)
Beta vulgaris (Sugar beet)
Zea mays (Maize)
Hordeum vulgare (Barley)
Triticum aestivum (Bread wheat)
Reference plant Arabidopsis thaliana
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Search by nucleotide sequence

Select a crop plant ...





... or the reference plant Arabidopsis thaliana
Enter nucleotide sequence
include 5'/3'-UTRs

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PlabiPD database

The current implementation of the PlaBi dataBase focuses on seven crop plants which includes sugar beet, grapevine, rapeseed (canola), potato, maize, barley and bread wheat. The model plant Arabidopsis thaliana is also included as this model plant is used as a reference.

Genome browser
The portal provides the latest JBrowser genome browser implementation for all these plants (except barley and wheat) which allows visualization of genetic data from chromosome to gene level.

Sequence data
For all protein-coding genes of the seven crop plants and the one model plant the protein sequence, the cDNA sequence and the genomic sequence (including ~1800 bp of the 5'-UTR and ~300 bp of the 3'-UTR) is available. In addition, conserved protein domains as specified by the PFAM 31.0 database are shown.



Protein family data
The protein data from the seven crop plants and one model plant have been clustered using the Markov Cluster Algorithm (MCL). This data is then used in the database to allow the users to find orthologous proteins in the eight plants currently available.

Plant genomes
The portal includes an interactive display of all plants which have had their genomes sequences to date. Additional data such as publication data, genome size and a link to the paper is provided for all genomes (currently ~100 plant genomes).

Funding

This project Pflanzen-Primärdatenbank PPD was funded by the Federal Ministry of Education and Research (BMBF). The BMBF also funded the prior project GABI Primärdatenbank.

    Funding history including Förderkennzeichen (FKZ)
  • 01.01.2000 until 30.04.2004 FKZ: 0312272/6 (GABI-Primärdatenbank)
  • 01.05.2004 until 31.07.2007 FKZ: 0313112 (GABI-Primärdatenbank)
  • 01.08.2007 until 31.12.2012 FKZ: 0315046 (GABI-Primärdatenbank)
  • 01.05.2013 until 31.12.2016 FKZ: 0315961 (Pflanzen-Primärdatenbank PPD)

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