Artificial Sequences in ncbi
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8.2 years ago
Raygozak ★ 1.4k

HI, does anyone know where in the ftp site of ncbi can I find the gbk files for the artificial sequences (i.e. plasmid vectors and so)?, there is a directory for genomes but I can't figure where these are located.

Thanks a lot.

ftp-site ncbi gbk • 2.2k views
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Are you looking for univec?

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Well, I did check univec but it is in fasta format, which is useless to me. thanks though.

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8.2 years ago
Bert Overduin ★ 3.7k

I'm not very familiar with Genbank, but at ENA (the European Nucleotide Archive), the artificial sequences should be in the files that have the SYN (synthetic) taxonomic division label.

According to the release notes for the current ENA version 120 release it looks like there are 8 of such files on the ENA ftp site:

 320    rel_pat_syn_01_r120.dat  Patent Sequences
 321    rel_pat_syn_02_r120.dat  Patent Sequences
 322    rel_pat_syn_03_r120.dat  Patent Sequences
 323    rel_pat_syn_04_r120.dat  Patent Sequences
 324    rel_pat_syn_05_r120.dat  Patent Sequences
 325    rel_pat_syn_06_r120.dat  Patent Sequences
 326    rel_pat_syn_07_r120.dat  Patent Sequences
 ...
 435    rel_std_syn_01_r120.dat  Standard Sequences

ENA is the European counterpart of Genbank. Both are part of the INSDC (the International Nucleotide Sequence Database Collaboration) and contain the same information.

Hope this helps.

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