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TRAJ24*01 vs TRAJ24*02 #327

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mikessh opened this issue Sep 6, 2021 · 0 comments
Open

TRAJ24*01 vs TRAJ24*02 #327

mikessh opened this issue Sep 6, 2021 · 0 comments
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vdjdb-maintainance Critical issues requiring complex maintenance works vdjdb-records-formatting&proofreading Typos and errors that need to be fixed in one or multiple VDJdb records

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mikessh commented Sep 6, 2021

Reported by Jamie Heather

About 2/3 of the ~400 human TCR entries reportedly making use of TRAJ2401 are actually probably using TRAJ2402. There's a two nt mismatch between them that corresponds to a two AA FGXG-proximal mismatch:

TTDSWGKFEFGAGTQVVVTP       TRAJ24*01
TTDSWGKLQFGAGTQVVVTP       TRAJ24*02
       ^^

It'd take a lot of deletion to make *02 into *01 it's pretty likely that most of the '-WGKLQF' CDR3s (which is the majority) are actually *02.
@mikessh mikessh added vdjdb-maintainance Critical issues requiring complex maintenance works vdjdb-records-formatting&proofreading Typos and errors that need to be fixed in one or multiple VDJdb records labels Sep 6, 2021
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vdjdb-maintainance Critical issues requiring complex maintenance works vdjdb-records-formatting&proofreading Typos and errors that need to be fixed in one or multiple VDJdb records
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