How To Deal With Multiple Transcription Start Sites [Refseq || Chipseq]

Question

[Sukhi Singh]

Guys, How does the refSeq deals with the genes with multiple TSS. How is this information quoted into the list, which we obtain from the ucsc tables (refSeq table). If there is no information about this in the list, how the refSeq people decide which one is most stable or bound more by PolII. I want to stress that this is different from the same genes with different number of promoters. Is there any better database which gives this information. I am interested in Mouse.

Thanks

Sukhi

P.S. I was generating the protein's (factor) abundance plot at TSS and this might give a different result for the case which I asked above.

Answer 1

[Leonor Palmeira]

When I was working on transcription start sites a couple of years ago, I used DBTSS for this information, as it was not available in the UCSC tables.