PGAA: a plant genome annotation pipeline for rice gene and alternatively spliced variant identification with cross-species EST conservation from seven plant species

Data Download:

PGAA-annotated transcripts in the rice genome

931 transcripts identified by PGAA only (PGAA-specific transcripts)

TIGR-specific transcripts

NCBI-specific transcripts

RAP-specific transcripts

2,657 transcripts that contain the PGAA-specific exonic regions supported by non-rice ESTs

Cross-species EST-to-genome alignments

Arabidopsis (Arabidopsis EST-to-rice genome)

barley (barley EST-to-rice genome)

maize (maize EST-to-rice genome)

rice (rice EST-to-rice genome)

sorghum (sorghum EST-to-rice genome)

soybean (soybean EST-to-rice genome)

wheat (wheat EST-to-rice genome)

RiceViewer v2.1(click here to RiceViewer Web interface)

Note: JAVA Runtime Environment (JRE) 5.0 is needed before you link to RiceViewer. The JRE5.0 is free to be downloaded.


Contact: Dr.Trees-Juen Chuang 

Genomics Research Center, Academia Sinica, Taipei 11529, Taiwan

Homepage maintained by Ms. Min_Chin Hsu

Last update: December 19, 2006

Related web sites:


TIGR rice annotation

TIGR Gene Index


NCBI Oryza sativa (rice) genome view