retreive sequence gene
Hi all, I have a list of genes that I want to retrieve from my genomic sequence in ".gbk" fromat, below example of my list of genes;
length ID function
1 100 fig|204039.43.peg.1683 FIG00639954: hypothetical protein
1 100 fig|204039.43.peg.3674 hypothetical protein
1 101 fig|204039.43.peg.4227 IncN plasmid KikA protein
2 101 fig|204039.43.peg.968 Antitoxin 1
Thank you for your help
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1 answer
convert them into bed format and there is program from bedtools, its fastaFromBed, you can retrieve your sequences.
if they are just four genes then you can also fetch them from UCSC browser.
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