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Table 2 Gene similarities of AcCoV-JC34 and representative Alpha- and Beta-CoVs with full-length genome

From: Detection of alpha- and betacoronaviruses in rodents from Yunnan, China

Viruses Genome Pairwise amino acid sequence identity between JC34 and other virus sequences (%)
Size (nt) G + C content(%) 3CLpro RdRp Hel S E M N
Alphacoronavirus
 RatCoV-JC34 27,649 40.07 - - - - - - -
 BatCoV 1A 28,326 38.14 57 76.6 74 17.6 36.5 50.2 23.3
 BatCoV HKU2 27,164 39.32 58.5 75.1 73.3 39.2 36 53.5 27.9
 BatCoV HKU8 28,773 41.79 61.2 76.5 73.5 18.6 33.8 51 23.5
 RatCoV LRNV# 28,763 40.29 91.9 94.3 96 67.2 93.8 92.3 78
 BatCoV 512 28,203 40.12 60.9 73.3 71.8 18.3 35.5 53.1 24.6
 PEDV 28,033 42.02 59.7 74.3 72 17 34.2 52.7 23.2
 HCoV-NL63 27,553 34.46 59.8 73.9 73 17.2 35.1 50.8 24
 HCoV-229E 27,317 34.46 58.9 73.3 74.3 19 36.4 46.3 21.7
 MiCoV 28,941 37.47 59.7 77.9 73 17.5 40.7 53.2 25.9
 FCoV 29,277 38.34 57.8 75.3 71.4 16.8 42 55.6 24.7
 CCoV 29,380 37.56 58.1 76.4 71.9 16.9 40.7 57.3 25.6
 TGEV 28,586 37.6 58.5 76.5 71.9 17.3 37 56.9 26.1
Betacoronavirus lineage A
 Betacoronavirus 1
  HCoV-OC43 30,741 36.69 44.1 55.8 59.1 21.8 17.6 37.4 21
  PHEV 30,480 37.25 44.1 55.9 59.1 21.4 18.8 37.4 20.9
 BCoV 31,032 37.02 44.4 55.7 59.5 22.1 18.8 38.7 21.4
 ECoV 30,992 37.23 44.4 56 59.5 21.5 17.6 37.4 21.7
 CrCoV 31,028 37.01 44.4 55.8 59.5 21.9 18.8 38.3 21.2
 Murine coronavirus
  MHV 31,386 41.88 42.9 55.5 57.5 21.1 18.1 36.8 21.3
 RCoV 31,250 41.26 42.9 56 58.9 21 20.5 38 21.3
 RatCoV HKU24# 31,249 40.07 43.3 56 60.5 21.6 20.5 39.6 21
 RatCoV-708#@ 30,821 39.06 44.1 56 58.5 20.6 20.5 36.8 20.8
 HCoV-HKU1 29,926 32.06 44.8 55.8 58.3 21.2 30 37.9 21.8
 RabbitCoV HKU14 31,100 37.64 44.8 56 59.7 21.8 17.6 38.7 21.5
Betacoronavirus lineage B
 SARS-CoV 29,727 40.80 43 58.9 60.8 22.1 19 27 19.4
Betacoronavirus lineage C
 MERS-CoV 30,112 41.18 40.9 58.7 63.6 21.2 19.3 34.8 18.6
Betacoronavirus lineage D
 BatCoV HKU9 29,114 41.05 39.8 57.2 62.3 22.2 17.7 29.6 16
  1. #: novel detected unclassified rat coronaviruses; @: a near complete genome