Support for "alternative start codon" discovery

[lydiayliu]

Inspired by studies that use mass spect to look for alternative start codons that are not the AUG in the canonical reference.

Here's an example method: "A database of products from possible alternative translation initiation sites (aTIS) was constructed by searching the 5′ UTR of GENCODE transcripts (v25) for putative alternative start codons and in silico translating these “novel coding sequences”. "

References:

• Wang, Dongxue, et al. "A deep proteome and transcriptome abundance atlas of 29 healthy human tissues." Molecular systems biology 15.2 (2019): e8503.
• Na, Chan Hyun, et al. "Discovery of noncanonical translation initiation sites through mass spectrometric analysis of protein N termini." Genome research 28.1 (2018): 25-36.

[zhuchcn]

I'm also interested in this! Should be easy to implement as long as the alternative start codon does not have any synonymous codons, otherwise we have to identify the stop codon before or during translating the TVG to PVG.