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. 2021 Nov 12;9:e12434. doi: 10.7717/peerj.12434

Figure 3. Partial sequence alignments of three conserved regions of the spike protein showing a number of CSIs that are specific for different lineages.

Figure 3

The two CSIs shown in (A) (⑦) and (B) ❽are from an (overlapping) region encompassing the receptor binding domain (RBD) of the spike protein. These CSIs are mainly found in the SARS and SARS-CoV-2r clusters of viruses. The CSI ❽is also present in two bat-Cambodia-viruses from the RShSTT cluster. The sequence region comprising the RBD is shown in dark blue, whereas the overlapping parts of the sequence are marked in light blue. (C) shows a 4 aa insertion (❾) present at the S1–S2 subunit junction that is only found in the SARS-CoV-2 strains. In addition, a 1 aa insertion (❿) is also present in this position, which is specific for the sarbecovirus lineage-3. Dashes (-) in the sequence alignments denote identity with the amino acid shown in the top line.