Question: How to retrieve all sequences of one gene in a specific taxon from NCBI?
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gravatar for wpwupingwp
3.6 years ago by
wpwupingwp110
China
wpwupingwp110 wrote:

For instance, I want to get all sequences of rbcL gene that the species belong to angiosperms in Genbank. How to do that? In Taxonomy browser, I could only get all sequence from one taxonomy without gene filter.

taxonomy sequence ncbi • 1.4k views
ADD COMMENTlink modified 3.6 years ago by Naresh60 • written 3.6 years ago by wpwupingwp110
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gravatar for Khader Shameer
3.6 years ago by
Manhattan, NY
Khader Shameer18k wrote:

Have you tried Homologene: http://www.ncbi.nlm.nih.gov/homologene/?term=rbcL

ADD COMMENTlink written 3.6 years ago by Khader Shameer18k

Sorry, it's not what I want. I want to get sequences from Nucleotide database, i.e., Genbank.

ADD REPLYlink modified 3.6 years ago • written 3.6 years ago by wpwupingwp110
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gravatar for Naresh
3.6 years ago by
Naresh60
Korea, Republic Of
Naresh60 wrote:

In Genbank - under nucleotide,for example, you want for Arabidopsis thaliana then just type rbcL gene AND Arabidopsis thaliana [orgn]. you can view all rbcL gene sequences specific to Arabidopsis thaliana. Hope this helps.

ADD COMMENTlink written 3.6 years ago by Naresh60

What if there was not that gene available on NCBI, but the genomes are a lot, how we can extract that gene from the whole genome

ADD REPLYlink written 2.9 years ago by nguyen.lamsyd0
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