How to download all complete protein sequences from BLAST search
Hello, I am using tBLASTn to collect sequences. What I would like to do is download a txt file containing the complete protein fasta sequences for the results of each search, and also possibly a txt file with the nucleotide CDS in fasta.
My options on the page are download a sequence dump containing the complete genome of each organism, or a file containing only the aligned portions of each protein (ie - missing the ends in most cases). Is there a way to get the full protein sequences without individually looking up each result?
• 2,545 views
•
link
written
by
milnerk3 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Finding RNA sequence profile for a set of proteins
written by Confused_human •
-
Download all isoforms
written by BDK_compbio
-
Batch extracting various coordinates of various FASTA IDs directly from NCBI?
written by yotiao •
-
RunningTBLASTN many times with python
written by trini1god •
-
Download FASTA file from NCBI with Source and organism names
written by riaasuddin •
-
coderet: How to match a protein sequence to its cds sequence?
written by Eliad •
-
retrieving fasta files from pdb, code
written by fareehakanwal90 •
-
Nucleotide CDS from RefSeq?
written by Prohan
-
Problem When Downloading Large Number Of Sequences From Genbank
written by Nick
-
How Can I Download The Results From An Ncbi Blast Search?
written by John
See the answers here: how to download all the complete genomes for mycobacteria from NCBI? (you will need to modify as needed) or how to download all protein sequnces of a bacteria using ncbi ftp site?
You will need to get the
faafiles to get protein sequence.