Question: More promoter sequences with 1 gene ID with Ensembl
gravatar for martinosuperman
5.1 years ago by
martinosuperman0 wrote:

When I search through a promoter sequence database, like Gene2Promoter and Eukaryotic Promoter Database (EPD), sometimes, I get more sequences with 1 gene ID. How can that be?

It has the fact that each gene ID corresponds to 1 promoter sequence? Or am I wrong? How can it be that 1 gene ID gives more promoter sequences as result? Are those promoter sequences allele sequences of that specific gene ID?


gene • 1.6k views
ADD COMMENTlink modified 5.1 years ago by Devon Ryan90k • written 5.1 years ago by martinosuperman0
gravatar for Devon Ryan
5.1 years ago by
Devon Ryan90k
Freiburg, Germany
Devon Ryan90k wrote:

Genes can have multiple transcripts, each possibly with different start positions. Consequently, a gene can also have multiple promoter sequences.

ADD COMMENTlink written 5.1 years ago by Devon Ryan90k

To expand on this, eukaryotic transcription regulation can require multiple different factors binding at different locations. In general, eukaryotic regulation is more complex, you can have different activators, different repressors, etc. Compared to prokaryotes, eukaryotic promoters tend to be more degenerate as well.

It was a fun moment when I ran MEME on eukaryotic promoters after being used to seeing bacteria TF motifs for four years!

ADD REPLYlink written 5.1 years ago by pld4.8k
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