There is some documentation @ the following website but still i donot get what the fusion genes exactly mean.
Do they give the exact breakpoint?
i can understand r.1 means the first exon but what is 1538 or 1943????
I realize this is an old post but my current project is requiring me to pay closer attention to RNA fusion nomenclature so I've been running into the same problem as the OP (I actually came across this post while googling HGVS r. notation. Here's what I've been able to learn (corrections would be appreciated):
The second example is more straightforward than the first:
Bases 1 through 1943 from EML4 (Ensembl ID ENST00000318522) are joined to bases 4151 through 6222 from ALK (genbank accession NM_004304).
The catch with r. notation is that it doesn't always tell you which exon number(s) is/are included in the fusion events so you have to look up additional information-- like whether base 1943 is the end of EML4 exon 1 or exon 2, if you care about that kind of information (which I do).
The first example appears to be something like
Bases 1 through 1538 of SRGAP 3 are joined to bases 1511 through 1538 (a small 27bp duplication, maybe?) and that is joined to bases 964 through 2977 of RAF1.