[Bioperl-l] Genbank parsing using Bioperl

Prabu R prabubio at gmail.com
Fri Apr 21 09:24:56 EDT 2006

Dear All,

I feel sorry for making a small mistake in my earlier mail

I am not actually using Genbank releases, But Refseq Genome build gbk files
of NCBI (ftp.ncbi.nih.gov/genomes/)

Those files are genbank formatted and contains Refseq IDs.

Kindly help.

R. Prabu

Dear all!

I am a novice bioperl user, trying to parse Genbank files with Bioperl
modules to get some specific features and details.

Anyone please tell me, whether we can retrive a Gene, its Transcript ID and
its Protein ID from the Genbank file.

I mainly need to extract with one to one relationship between TranscriptID
and Protein ID.

I was trying this. I was able to take these details if the gene is not
alternatively spliced.

If a gene contains multiple mRNA/CDS feature, I am not able to build the
relationship between Transcript and its Protein.

Kindly help me to find out whether this is possible in Bioperl.

Thanks in advance,

R. Prabu

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