Hi, I want to analyze 1kbps upstream regions of the protein coding genes for promoters. I am experiencing difficulties:
1. The associated "transcripts" do not have gene names associated with them in the table browser . This is how I tried to extract these regions : from the gene prediction track "output format" BED. 2. then it asks " Create one BED record per: Upstream by bases 3. this is what I get : chr1 67163158 67164158 ENST00000371026_up_1000_chr1_67163159_r 0 - chr1 67163055 67164055 ENST00000371023_up_1000_chr1_67163056_r 0 - chr1 67163158 67164158 ENST00000395250_up_1000_chr1_67163159_r 0 - chr1 201325404 201326404 ENST00000309502_up_1000_chr1_201325405_f I want the gene name with the associated transcript for further analysis..... Can you please help. regards, Amit _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
