Difference between revisions of "TBLASTn and Protein Sequence Analysis"
From GcatWiki
(→When Nucleotides Don't Work) |
(→When Nucleotides Don't Work) |
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*Incomplete genome database | *Incomplete genome database | ||
*Rearrangement of introns/exons | *Rearrangement of introns/exons | ||
| + | |||
| + | |||
If, for any of these reasons, you aren't getting any hits, it might be time to make sure you're doing it right: | If, for any of these reasons, you aren't getting any hits, it might be time to make sure you're doing it right: | ||
| − | ::'''''First''''' - | + | ::'''''First''''' - Check to make sure that your database is made correctly. |
| + | :::*You should have three additional files made from the original fasta file: | ||
== Beyond blastn == | == Beyond blastn == | ||
== Why Amino Acids? == | == Why Amino Acids? == | ||
Revision as of 18:38, 22 February 2011
When Nucleotides Don't Work
Occasionally BLASTing genes with just a nucleotide sequence doesn't work. This can be due to a number of reasons:
- Lack of conservation between species
- Incomplete genome database
- Rearrangement of introns/exons
If, for any of these reasons, you aren't getting any hits, it might be time to make sure you're doing it right:
- First - Check to make sure that your database is made correctly.
- You should have three additional files made from the original fasta file:
- First - Check to make sure that your database is made correctly.
