3’UTR sequences for Saccharomyces Cerevisiae (yeast)

Question

[fire_water]

Hello,

I have a list of approximately 200 gene names and need to obtain the 3'UTR sequences for each gene. This is for Saccharomyces Cerevisiae (yeast) and an example gene name is YHL036W.

Does a publicly available tool exist that would allow me to upload my list of gene names and download the sequences?

Thank you for your help

[Ashutosh Pandey]

You can try BioMart. You can upload your genes of interest and retrieve only 3' UTR sequences. Similar post: retrieval of upstream non-coding sequences

Answer 1

[Antonio R. Franco]

Use Biomart. It will allow you to select any part of the genome you desire

[fire_water]

Thank you. Biomart is a very nice tool. However, is it just me or are all of the 3' UTR sequences unavailable for Saccharomyces Cerevisiae ?

[gemma.atkinson]

Hi! Did you find an answer to this? I'd be really curious to know as I'm having the same problem getting 5' UTRs for S. cerevisiae... mitochondrial, to be specific.

[fire_water]

Hi. I ended up contacting the folks at YeastGenome.org for assistance on how to query their database for the sequences. It's a bit of a process so I would recommend contacting them and explaining exactly what you're trying to do. They're very helpful. Good luck.

Answer 2

[MohammadAlkadi]

You can Download UTR sequences from:

• https://downloads.yeastgenome.org/sequence/S288C_reference/SGD_all_ORFs_5prime_UTRs.fsa
• https://downloads.yeastgenome.org/sequence/S288C_reference/SGD_all_ORFs_3prime_UTRs.fsa