To whom it may concerned, I am trying to use the RefSeq annotation form UCSC , because of your multiple options for file format.
But I found that all the transcripts with XR_ and XM_ prefix are excluded in the Refseq of UCSC annotations. But the XR_ and XM_ are included in the NCBI's annotation. I noticed that , UCSC said "RefSeq RNAs were aligned against the human genome using blat; those with an alignment of less than 15% were discarded." Does it mean that all the XR_ and XM_ transcripts do not passing the UCSC filter or UCSC have not contain them before filter? Thank you Ying 2012-07-24 YingWang _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
