Tool for genome annotation correction

[diego diaz]

Hi,

Does anybody know some tool to correct genome annotations?

Thanks in advance!

[milw]

It depends on what you want to do, are you preparing a genome submission yourself, or want to submit changes to an NCBI annotated genome? Or just clean up your own copy for internal use?

[diego diaz]

We want to clean up the annotation. Some genes are shown as more than one due to frameshifts generating stop codons. Frameshift seem to occur because homopolimers

[milw]

Are the frameshifts just due to sequence errors? Or actually occur biologically?

NCBI's submission tools might be able to help you find the annotations that have the problem, but they're a bit of a pain to work with. You would need to convert your annotations list to their 5 column table format, and then use tbl2asn to validate the features listed in the table.

[diego diaz]

Are the frameshifts just due to sequence errors? Or actually occur biologically?

NCBI's submission tools might be able to help you find the annotations that have the problem, but they're a bit of a pain to work with. You would need to convert your annotations list to their 5 column table format, and then use tbl2asn to validate the features listed in the table.

Thanks milw, we will try with NCBI's submission tools