Advances in Virology

Research Article

Whole-Genome Comparison of Representatives of All Variants of SARS-CoV-2, Including Subvariant BA.2 and the GKA Clade

Table 2

Unique amino acids across whole genes in at least one of the representing strains of various variants of SARS-CoV-2.
Consistent substitution to Wuhan-Hu-1Specific for omicron, BA2, and GKASpecific for omicron and BA2Specific for delta and GKASpecific to delta, omicron, BA.2, and GKASpecific to omicron and GKAUnique to GHUnique to GKA clade
ORF1AB (1)ORF1AB (10) ORF1AB (2)  ORF1AB (5)ORF1AB (9)
P4715L/FS135R, T842I,
G1307S, L3027F,
T3090I, L3201F,
P3395H, R5716C,
I5967V, T6594I		 G5063S,
P5401L		  E452G,
L2119F,
A2355S,
S3149F,
R3164H		E352D,
A1306S,
P2046L,
A2529V,
I2820V,
V2930L
T3646A,
P4715F,
A6319V
Spike (1)Spike (21) Spike (4)Spike (1)Spike (3)Spike (8)NP (1)
D618GT19I, A27S, G142D,
V214G, G343D,
S375F/L, S377P,
S379F, T380A,
D409N, R412S,
N444K, E488A,
Q497R, Q502R,
Y509H, N683K,
N768K, D800Y,
Q958H, N973K		 T19R, E157G,
F158del,
R159del		T482KIns216E,
Ins217P,
Ins218E		P9L, E96Q,
I211T,
R350S,
N398S,
Y453N,
F494R,
D940H		G215C
 NP (1)NP (3)NP (3)  NP (2)ORF3A (2)
 S413RE31del,
R32del,
S33del		D63G,
R203M,
D377Y		  D22Y,
E378Q		S92L, D155Y
 ORF3A (1) ORF7A (2)  ORF3A (1)ORF7B (1)
 T223I V82A, T120I  T32IT40I
 ORF6 (1) ORF8 (2)    
 D61L D119del,
F120del		    
Numbers in parentheses were the number of unique amino acids in the corresponding gene; numbering was based on ORFs of Wuhan-Hu-1, except for spike; numbering in spike protein from 145 to 215 is Wuhan-Hu-1 numbering plus 1 due to insertion in Mu variant, while numbering of spike from 219 or higher is Wuhan-hu-1 numbering plus 4 due to the insertion of EPE residues in omicron.