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GTF annotation for Staphylococcus aureus

Hi All,

Where to download GTF annotation to staphylococcus aureus?

Thanks.

gtf staphylococcus aureus
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updated by lieven.sterck lieven.sterck • written by Shicheng Guo Shicheng Guo

Reference genome for the subspecies S. aureus aureus can be found here along with a GFF file. There are ~11000 S. aureus genomes available at NCBI so you will need to be careful about the one you are interested in.

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written by GenoMax GenoMax

Hi Genomax, Thanks for the advice. If I want to alignment RNA-seq data to staphylococcus aureus genome, what's the correct way I should do? current I just alignment the RNAs-seq reads to NC_007795.1

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written by Shicheng Guo Shicheng Guo

You can. Remember that bacterial RNAseq should be much simpler. No splicing to worry about.

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written by GenoMax GenoMax

1 answer

If you don't find it right away you're probably best to download the gff version (eg from : https://www.ncbi.nlm.nih.gov/nuccore/NC_007795.1 ) and then convert it to GTF (eg with gffread from Cufflinks).

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written by lieven.sterck lieven.sterck

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