How to get all transcript and CDS from gene

How to get all transcript and CDS from gene_id in biopython?

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5.5 years ago

ishenweiyan ▴ 10

I got the gene name and species, how can I retrieve all its transcript and CDS by the gene_id in python?

For example I get the gene symbol of TP53 (Gene ID: 7157)，and I want to retrieve all its transcript and CDS sequences. How could I do it? Thank you very much.

from Bio import Entrez
Entrez.email = 'A.N.Other@example.com'
handle = Entrez.efetch(db="nucleotide", id=Accession_number, rettype="fasta", retmode="text")
record = handle.read()

gene biopython • 2.0k views

ADD COMMENT • link 5.5 years ago by ishenweiyan ▴ 10

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Could you develop what you want please

Is this what you are looking for ?

ADD REPLY • link 5.5 years ago by Bastien Hervé 5.3k

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"asscess" == "Accession" ?

ADD REPLY • link 5.5 years ago by Joe 21k

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Yes, it should be Accession Number. Thanks for your kindly reminder.

ADD REPLY • link 5.5 years ago by ishenweiyan ▴ 10

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You can take a look here

ADD REPLY • link 5.5 years ago by Bastien Hervé 5.3k

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