Proposal SVD-WG007 (RNA fusion)
- Status: accepted
- proposal SVD-WG007 opened for Community Consultation on April 10 (2019), and closed June 30 (2019).
Based on the proposal the RNA Deletion-insertion page has been updated (April 2020).
The proposal suggests to extend the HGVS recommendations with a format to decribe RNA fusion transcripts
- RNA fusion transcripts are described following the format to describe a fusion between two DNA molecules (translocations), i.e. using ”::”.
- translocation fusion: NM_152263.2:r.-115_775::NM_002609.3:r.1580_*1924
- a TPM3::PDGFRB fusion transcript where nucleotides r.-115 to r.775 (reference transcript NM_152263.2, TPM3 gene) are coupled to nucleotides r.1580 to r.*1924 (reference transcript NM_002609.3, PDGFRB gene)
- deletion fusion: NM_002354.2:r.-358_555::NM_000251.2:r.212_*279
- EPCAM::MSH2 fusion transcript where nucleotides r.-358 to r.555 (reference transcript NM_002354.2, EPCAM gene) are coupled to nucleotides r.212 to r.*279 (reference transcript NM_000251.2, MSH2 gene)
- a format like “::aggcucccuugg::” is used to indicate the insertion of a 12 nucletoide sequence (aggcucccuugg) between two fusion transcripts
- when only the break point and not the entire transcript has been analysed the format NM_152263.2:r.?_775::NM_002609.3:r.1580_? should be used
All fusion transcripts are described using the same format irrepsective of whether they derive from inter-chromosomal or intra-chromosomal rearrangements (translocation, deletion, inversion).