I need a good annotation software or tool for nucleotide and protein sequence? Genome is not sequenced and it is plant database.

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Nagesh Kuravadi

You can assemble your transcripts(cDNA) and annotate using regular annotation pipline like

MAKER : http://www.yandell-lab.org/software/maker.html

annot8r : http://www.nematodes.org/bioinformatics/annot8r/

BLAST2GO :http://www.blast2go.com/b2ghome

Shishir K Gupta

Hi Gopal, you can proceed with offline Augustus .

Gopal Dhedhi

THANK YOU-Mireya, Nagesh and Shishir for your valuable reply.