Poster #RP125
Identification, classification and annotation of transcription factors from the arabidopsis and rice genomes
Jingchu Luo*, Ge Gao*, Anyuan Guo*, Kun He*, Yingfu Zhong*, Qihui Zhu*, Weimou Zheng*, Wen Tang*, Xiaocheng Gu*, Liping Wei*
*Centre of Bioinformatics, peking University, Beijing 100871, China
We have made genome-scale identification and classification of transcription factors (TFs) for Arabidopsis and two rice subspecies, Oryza sativa L. ssp. indica and ssp. japonica by computational prediction and manual curation, and constructed two databases database of Arabidopsis transcription factors (DATF, http://datf.cbi.pku.edu.cn) and database of rice transcription factors (DRTF, http://drtf.cbi.pku.edu.cn). DATF contains 1826 putative TFs distributed in 56 families, while DRTF consists of 63 families with 2,025 and 2384 TFs identified from indica and japonica, separately. Entries of these two databases have detailed annotations including sequence features, functional domains, nucleic location signals, protein structure hits, chromosomal localizations. In addition, DATF entries contain cloning evidence, while DRTF entries contain gene ontology assignment and expression information. Each family contains functional descriptions retrieved from literatures, and DRTF families have multiple sequence alignments of DNA binding domains. Both databases can be browsed and searched with a user-friendly web interface. All TFs can be downloaded freely, and sequence similarity search against all Arabidopsis or rice TFs was also implemented. DATF has 1.8 millions web access since March 2005, and DRTF has 500 thousands hits already though it has been online for four months only.