Subgenomic RNA Modif. Track Settings
Subgenomic RNA Modifications from Kim et al. 2020: gRNA S 3a E M 6 7a 7b 8 N   (All Genes and Gene Predictions tracks)

Display mode:      Duplicate track

Log10(x+1) transform:    View limits maximum: frac (range 0-1)

Data schema/format description and download
Data last updated at UCSC: 2020-04-10 06:42:54


This track shows the locations of RNA-modifications as determined by Nanopore sequencing Kim et al, Cell 2020.

Display Conventions and Configuration

Very small tickmarks indicate the position of the RNA modifications on the genome. One has to zoom in to basepair level detail to see their exact extent. A small barchart over the tick indicates the fraction of transcripts that are modified relative to the un-modified transcripts. E.g. frac=0.3 means that 30% of the transcripts were modified. There is one barchart per transcript.

Data Access

The raw data can be explored interactively with the Table Browser, or combined with other datasets in the Data Integrator tool. For automated analysis, the genome annotation is stored in a bigBed file that can be downloaded from the download server.

Annotations can be converted from binary to ASCII text by our command-line tool bigBedToBed. Instructions for downloading this command can be found on our utilities page. The tool can also be used to obtain features within a given range without downloading the file, for example:

bigBedToBed -chrom=NC_045512v2 -start=0 -end=29902 stdout

Please refer to our mailing list archives for questions, or our Data Access FAQ for more information.


Thanks to Hyeshik Chang for preparing and sharing custom tracks.


The architecture of SARS-CoV-2 transcriptome. Cell 2020. pre-proof