Question: Querying the 3' UTR region of Ensembl using Python
0
gravatar for jacksparrow
4.8 years ago by
United Kingdom
jacksparrow0 wrote:

I'm kinda new to biopython and I was wondering If I had sequences(s) in fasta format on my computer, is it possible to use python to search for exact matches on ensembl in the 3' UTR region?

Any help would be appreciated.

sequence • 1.5k views
ADD COMMENTlink modified 4.8 years ago by Devon Ryan89k • written 4.8 years ago by jacksparrow0
2
gravatar for Devon Ryan
4.8 years ago by
Devon Ryan89k
Freiburg, Germany
Devon Ryan89k wrote:

It might be easier to manually get the 3' UTR sequence from Biomart and then use that with biopython (perhaps there are biopython functions to query biomart, but I'm not familiar with them). The exact matching can be done as in this tutorial example.
 

ADD COMMENTlink written 4.8 years ago by Devon Ryan89k

I'm sorta looking for a direct way rather than taking the longer route.

Thanks for the tutorial.

ADD REPLYlink written 4.8 years ago by jacksparrow0
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