Dear Sir,
It seems that there are not Rfam annotations for rat in UCSC
genome browser,
aren't there? So I read the website of Rfam, and find there are
coordinates for rat
RNAs. However, these coordinates are not based on rn4.
(http://rfam.sanger.ac.uk/genome/10116#tabview=tab1)
For example, chromosome 2 is 'CM000232', an entry that could be found in NCBI
nucleotide database. It seems that this is a different assembly for
the rat genome.
If I don't want to use BLAT, can I convert their coordinates from this
assembly to
rn4?
Thanks!
Best regards,
Zhi-Qiang
_______________________________________________
Genome maillist - [email protected]
https://lists.soe.ucsc.edu/mailman/listinfo/genome
