(1) Start with one of the reported mRNA transcripts on NCBI. (2) From the summary page of the mRNA transcript, under "link out to external sources" select "Ensembl" (3) The Ensembl page will say "this transcript is a product of gene" xxxxxxx. (4) Select the "xxxxxx" and all the known transcripts for that gene will be shown in a graphic (5) If you select one of the transcripts, a box appears to the right of your selection. You can select transcripts and the sequence of exons, etc. from the selections on the left side of the page (6) For many genes there is a common first translated exon but multiple 5' UTR exons that may be the product of alternative promoters and splicing. Some of these have already been characterized and will be shown. (7) However, these characterized transcripts might not be expressed in all circumstances, so functional assays should be performed to determine which upstream regions contain the promoter elements under your experimental conditions. For that, you will need to PCR amplify your putative promoter &/or enhancer sequence and clone it into an reporter vector. (For directions on how to locate the gene neighborhood and upstream sequence, refer to my response on this issue.)
Go to genome.ucsc.edu and search for your gene. It will show you all the major alternative transcript variants. In case of CASP2, a known gene with alternative promoters, you will see three different transcripts that originate at different sites. Those are your alternative promoters.
http://genome.ucsc.edu/cgi-bin/hgTracks?position=chr7:142985308-143004789&hgsid=352258893&knownGene=pack&hgFind.matches=uc003wco.3,
I have list a genes with ensemble ID and can I used these IDs for get AS promoters
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