gravatar for Prasad

2 hours ago by

India

Hello,

The Join operator is used for backsplicing events/split genes. Could anyone please provide additional details on interpretation of "Join" in case of pgRNA of NC_003977.

In NC_003977, pgRNA (pre-genomic RNA; encodes core and polymerase) is denoted as

join(1820..3182,1..1932)

Why does pgRNA contain overlapping coordinates? Is it because it codes for 2 proteins and each set of coordinates indicates individual proteins?

When exported NC_003977 to gff3 format using "Send to | gff3" option, coordinates in "Join" operators are summed up causing them to exceed the genome size (refer image).

Is it a bug or intended behavior?

Is there documentation on how to interpret these types of coordinates?



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