Dear Helpdesk, I notice that the GTF exports from the Human refGene table export (http://genome.ucsc.edu/cgi-bin/hgTables?org=Human&db=hg18&hgsid=131892923&hgta_doMainPage=1) places the RefSeq ID into both the 'gene_id' and 'transcript_id' fields:
chr4 hg18_refGene ... gene_id "NM_001042402"; transcript_id "NM_001042402"; chr4 hg18_refGene ... gene_id "NM_014435"; transcript_id "NM_014435"; The gene_id and transcript_id fields are redundant. However, I notice that the ID column of the refGene table contains the HUGO name of the gene associated witht the RefSeq. Should the gene_id field contain that value instead? This will make the RefSeq GTF export much more useful. Thanks for your help. Matthew Muller Life Technologies _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
