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cov-lineages / pango-designation

Repository for suggesting new lineages that should be added to the current scheme
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EG.5/(JN.1+S:I1216V) recombinant (30 seqs, 8 countries) #2503

Closed aviczhl2 closed 2 months ago

aviczhl2 commented 4 months ago

From https://github.com/sars-cov-2-variants/lineage-proposals/issues/1282

JN.1+G7842A(rev), T8293C(rev), A8393G(rev), C9693T, C9866T,T11042G(rev), A11727G(rev), C23896G,A25208G

Orf1a: S2526N(rev), T2710A(rev), A3143V, L3201F, F3593V(rev), K3821R(rev) S:I1216V

JN.1--EG.5--JN.1 Breakpoint 1 between 6184 and 7841 Breakpoint 2 between 11728 and 12814

G7842A(rev), T8293C(rev), A8393G(rev), C9693T, C9866T,T11042G(rev), A11727G(rev) from EG.5* C23896G,A25208G from a JN.1 branch

GISAID query: A25208G, C23896G, C9693T,C28958A,-A405G(edited) No. of seqs: 27(Spain 7 France 7 Germany 1 Netherlands 1 Italy 2 Israel 4 USA 5)

First: EPI_ISL_18640556, 2023-12-3, Netherlands Latest: EPI_ISL_1893169, 2024-2-14, Israel

usher

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ryhisner commented 3 months ago

S:I1216V was the SARS-CoV-1 residue here. Also interesting: both SARS-CoV-1 and this branch have C25207T (which is found in all JN.1) and A25208G.

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aviczhl2 commented 3 months ago

+1 South Korea

aviczhl2 commented 2 months ago

No new seqs