Identifying truncated protein domain encoding DNA sequences
0
0
Entering edit mode
14 months ago
Anand Rao ▴ 430

Is there an off-the-shelf tool or pipeline that will report all protein domain encoding DNA encoding sequences in a given genome, INCLUDING these conditions:

  1. the encoded protein domain is partial or truncated, and / or
  2. the encoding region may be interrupted by one or more introns, and
  3. has the flexibility of using protein profile as query to scan the genome.

I have some amorphous ideas about using fastBlockSearch in AUGUSTUS, and / or PseudoPipe. But I am collecting better crystallized ideas, especially if you've already solved this problem.

Thank you, in advance. Cheers!

protein domain truncation AUGUSTUS fastBlockSearch • 307 views
ADD COMMENT

Login before adding your answer.

Traffic: 1670 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6