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. 2011 Jun;85(11):5593–5605. doi: 10.1128/JVI.00263-11

Fig. 7.

Fig. 7.

Alignment of 5′ UTR inter-stem-loop domains. (A) Alignment of the 5′ UTR inter-stem-loop domains among 11 group 2a coronaviruses. Identical nucleotides are shaded. Abbreviations: Rat, Parker rat coronavirus; A59, mouse hepatitis virus-A59 strain; JHM, mouse hepatitis virus JHM strain; 2, mouse hepatitis virus 2 strain; HKU1, human coronavirus HKU1; ECoV, equine coronavirus; Meb., bovine coronavirus Mebus strain; ENT, bovine coronavirus Enteric strain; OC43, human coronavirus OC43; 4408, human enteric coronavirus-4408; PHEV, porcine hemagglutinating encephalomyelitis virus. (B) Alignment of the 5′ UTR inter-stem-loop domains of MHV-A59 and BCoV-Mebus with arrows identifying the genetic adaptations found within this domain in progeny from chimeras B1–158/M and B142–173/M. Underlined nucleotides identify potential compensatory mutations that make the transplanted BCoV domain more MHV-like.