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README.txt 2015-03-01 947 Bytes
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UniPyRangeSuite.py 2015-02-26 2.4 kB
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UniPyRange.py 2015-02-22 337 Bytes
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"UniPyRange Suite"

Simple python script which saves you the pains of counting the amino acids/DNA bases in fasta files from the Uniprot and 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)


How to:
- Download UniPyRangeSuite.py
- Open Terminal/Console and run script with "python UniPyRangeSuite.py"
Source: README.txt, updated 2015-03-01