Question: Download genes coding for specific length of proteins
0
gravatar for Houcemeddine Othman
16 months ago by
Tunisia
Houcemeddine Othman0 wrote:

Hi, How can I download all the genes of Arthropoda coding for proteins with more than 150 amino acids.

Regards

protein sequence genome • 391 views
ADD COMMENTlink modified 16 months ago by Elisabeth Gasteiger1.6k • written 16 months ago by Houcemeddine Othman0

Do you want NCBI genes identifers or something else?

ADD REPLYlink written 16 months ago by a.zielezinski8.7k

Indeed, I am using NCBI to download the coding genes.

Thanks

ADD REPLYlink written 16 months ago by Houcemeddine Othman0
1
gravatar for a.zielezinski
16 months ago by
a.zielezinski8.7k
a.zielezinski8.7k wrote:
  1. Go to the NCBI Nucleotide database.
  2. Click Advanced.
  3. In Builder, select:
    • Organism: Arthropoda
    • Feature Key: cds
    • Sequence Length: 450:1000000000
  4. Click Search

After the results are displayed (direct link to results), click Sent to > Complete Record > File > Format: Accession List.

ADD COMMENTlink modified 16 months ago • written 16 months ago by a.zielezinski8.7k
0
gravatar for Elisabeth Gasteiger
16 months ago by
Geneva
Elisabeth Gasteiger1.6k wrote:

If you want to use UniProt, you can do the following query: https://www.uniprot.org/uniprot/?query=taxonomy%3Aarthropoda%20length%3A%5B150%20TO%20*%5D&sort=score&columns=id%2Centry%20name%2Creviewed%2Cgenes%2Corganism-id%2Clength

Note that the column layout can be modified (for the above URL, I removed protein names and organism, added organism identifier), and you can download the results in tab-delimited format.

ADD COMMENTlink written 16 months ago by Elisabeth Gasteiger1.6k
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