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Old 10-01-2012, 02:25 PM   #1
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Location: Mexico City

Join Date: Sep 2012
Posts: 7
Default Get upstream sequence with biomaRt

Hi Im trying to get 100bp upstream of some genes from a.gambiae. Im using biomaRt and my query looks like this:

agambiaeseq<-getBM(attributes=c('start_position','end_position','chromosome_name','strand','ensembl_gene_id','gene_flank','upstream_flank'),filters='ensembl_gene_id',value='AGAP004677', mart=vector)

I know that for the attrbute 'upstream_flank' I should put the value 100 but I just dont know where.

Thank you for your attention

Last edited by omiguele; 10-01-2012 at 02:37 PM.
omiguele is offline   Reply With Quote

bioconductor, biomart, upstream_flank, vectorbase

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