When trying to download the refgene table from the refseq track in the rat, it outputs a file with a tail like this:
chr10 rn4_refGene exon 4322648 4322711 0.000000 + . gene_id "NM_001008876"; transcript_id "NM_001008876"; chr10 rn4_refGene CDS 4325466 4325959 0.000000 + 2 gene_id "NM_001008876"; transcript_id "NM_001008876"; chr10 rn4_refGene exon 4325466 4325959 0.000000 + . gene_id "NM_001008876"; transcript_id "NM_001008876"; chr10 rn4_refGene CDS 4326108 4326278 0.000000 + 0 gene_id "NM_001008876"; transcript_id "NM_001008876"; chr10 rn4_refGene stop_codon 4326279 4326281 0.000000 + . gene_id "NM_001008876"; transcript_id "NM_001008876"; chr10 rn4_refGene exon 4326108 4326284 0.000000 + . gene_id "NM_001008876"; transcript_id "NM_001008876"; chr10 rn4_refGene start_codon 4293086 4293088 0.000000 + . gene_id "NM_001008876"; transcript_id "NM_001008876_dup1"; --------------------------------------------------------------------------- offsetToGenomic: need previous exon, but given index of 0 --------------------------------------------------------------------------- this has happened each time i have tried to download the table. any ideas about what could be causing that? -rory _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
