Wayne, It looks like the output format is BED6 from the Table browser. The output gives one row per 3' UTR exon.
The first gene in your list does happen to have one 3' UTR exon, as do the others. I found a gene that has two 3' UTR exons, CG2381-RB, and it has output like this, using BED format with 3' UTR exons selected: chr4 299302 300865 CG2381-RB_utr3_0_0_chr4_299303_r 0 - chr4 300950 301051 CG2381-RB_utr3_1_0_chr4_300951_r 0 - I hope this helps, Jennifer --------------------------------- Jennifer Jackson UCSC Genome Informatics Group http://genome.ucsc.edu/ On 4/27/10 9:12 AM, Wayne wrote: > Dear Colleague, > > I was trying to download 3'UTR sequences from your table browser. In a > middle step, I would like to see the genome positions of those 3'UTRs, and I > got an output like this: > > chr4 266389 266500 CG1674-RB_utr3_10_0_chr4_266390_f 0 + > chr4 393018 395610 CG1710-RA_utr3_12_0_chr4_393019_f 0 + > chr4 655137 655978 CG1732-RA_utr3_9_0_chr4_655138_f 0 + > chr4 796175 796720 CG32019-RA_utr3_44_0_chr4_796176_f 0 + > chr4 1187520 1189865 CG17461-RA_utr3_4_0_chr4_1187521_f 0 + > chr4 53433 53643 CG17245-RA_utr3_0_0_chr4_53434_r 0 - > chr4 68333 68619 CG2125-RA_utr3_0_0_chr4_68334_r 0 - > chr4 86744 86898 CG2168-RA_utr3_0_0_chr4_86745_r 0 - > chr4 493203 493303 CG11533-RF_utr3_1_0_chr4_493204_r 0 - > > My question came from this output. This output seems to indicate that there > is only one exon in each 3UTR. This should not be true, right? I'm just > wondering if you can confirm whether multiple exon sequences are included in > the 3'UTR sequences that I'm gonna downloading from your browser? > > Thanks in advance > > Best regards > > Wayne > _______________________________________________ > Genome-mirror mailing list > [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome-mirror _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
