molscience/unipyrange

Tool to fetch protein/DNA truncation constructs from Uniprot DB

UniPyRange

Tool to fetch protein/DNA truncation constructs from Uniprot DB

Very simple python script which saves you the pains of counting the amino acids/DNA bases in fasta files from the Uniprot and NCBI RefSeq Database (1, 2). Lets say you want the amino acid sequence of range 128-387 from a 1000 amino acid protein - this script will help you to avoid counting mistakes by just showing you the specified sequence in amino acids and coding DNA base pairs (ideal for amplification primer design) of a specified Uniprot ID.

• Requires BioPython (3) and Bioservices Package (4)

(1) The UniProt Consortium UniProt: a hub for protein information Nucleic Acids Res. 43: D204-D212 (2015).

(2) RefSeq: an update on mammalian reference sequences. Nucleic Acids Res. 2014 Jan 1;42(1):D756-63.

(3) Cock PJ et al. Bioinformatics (2009)

(4) Cokelaer et al, Bioinformatics (2013)