How do I get the gene annotations as a text file from a genbank file?
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8 months ago
eae6d2e7 • 0

I have a genbank file and I need the following details about the gene annotations in a text file

# ID name    start   stop    frame   product description function    cogcats status_region   status_function type    region_number   function_number

How do I go about extracting them? Please let me know if more information is needed from me! Thank you

sequence-annotation genbank • 607 views
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Can you upload or post a link to the genbank file please?

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You will have to use a programming approach. BioPython is one option: https://warwick.ac.uk/fac/sci/moac/people/students/peter_cock/python/genbank/

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This question was also asked on bioinfo SE: https://bioinformatics.stackexchange.com/questions/22331/how-do-i-get-the-gene-annotations-as-a-text-file-from-a-genbank-file


Please keep in mind that posting the same question to multiple sites can be perceived as bad etiquette, because efforts may be made to address a problem that has already been solved elsewhere in the meantime.

The helpful thing to do if you do decide to post on multiple forums is to add a link to the other forum posts on each post so people will look at the other posts before investing their effort.

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