Table 2

Comparison of genomic features and amino acid identities among CoVs with complete genome sequences availablea

CoVGenome featuresPairwise amino acid identity (%)Pairwise amino acid identity (%)
Size (bases)G+C contentPorCoV HKU15WECoV HKU16SpCoV HKU17MRCoV HKU18NHCoV HKU19WiCoV HKU20CMCoV HKU21
3CLproRdRpHelSN3CLproRdRpHelSN3CLproRdRpHelSN3CLproRdRpHelSN3CLproRdRpHelSN3CLproRdRpHelSN3CLproRdRpHelSN
Alphacoronavirus
    PEDV28,0330.4235.848.749.338.023.437.449.347.838.722.436.548.948.939.224.136.848.949.140.822.337.248.847.936.320.639.750.048.537.921.138.149.646.739.421.7
    TGEV28,5860.3834.949.651.635.523.234.549.449.636.124.535.349.851.439.423.534.649.650.739.923.732.950.850.837.122.337.350.250.236.723.733.749.349.436.422.9
    FIPV29,3550.3835.749.751.235.124.535.549.649.336.325.135.749.951.138.525.035.550.150.438.922.232.451.250.736.920.837.950.150.036.522.534.549.749.136.022.1
    CCoV29,3630.3835.649.751.634.923.335.249.449.635.624.035.949.851.438.823.335.349.650.739.323.032.950.850.736.423.637.349.950.736.323.733.349.149.435.223.4
    PRCV27,5500.3734.949.551.640.323.234.549.349.640.523.235.349.751.444.823.534.649.550.744.422.832.950.750.841.422.037.350.350.241.923.733.749.149.440.121.8
    HCoV-229E27,3170.3834.449.350.642.521.635.449.048.342.422.534.249.550.245.523.034.849.349.844.022.534.649.249.039.920.436.349.649.644.121.534.848.647.543.222.8
    HCoV-NL6327,5530.3435.948.849.938.222.138.149.248.140.123.035.649.249.639.322.636.949.249.539.324.634.848.949.036.221.539.150.648.638.823.536.949.547.238.820.6
    Rh-BatCoV-HKU227,1650.3934.450.151.425.020.834.350.049.125.222.334.450.251.126.220.934.449.850.325.921.734.350.549.725.120.935.550.649.126.325.234.150.149.127.322.5
    Mi-BatCoV 1A28,3260.3833.549.051.435.824.435.049.450.135.723.334.249.451.139.425.234.249.051.438.224.532.650.548.735.723.834.749.948.936.422.533.447.949.138.622.4
    Mi-BatCoV 1B28,4760.3934.248.551.135.624.635.448.849.436.122.134.848.850.739.124.933.548.851.138.223.831.949.848.235.722.335.749.648.935.724.132.847.748.338.222.8
    Mi-BatCoV-HKU828,7730.4233.149.349.835.919.436.049.947.536.018.833.449.649.338.920.434.449.349.340.419.834.650.148.137.222.636.750.548.837.622.336.048.547.437.021.6
    Sc-BatCoV-51228,1790.4033.848.649.139.024.836.049.247.538.723.734.148.748.841.325.235.448.348.841.123.434.949.047.836.822.337.348.949.138.123.134.748.747.839.624.3
Betacoronavirus
    Subgroup A
        HCoV-OC4330,7380.3738.151.648.326.022.238.951.548.625.923.237.851.848.326.922.437.551.348.326.421.034.154.548.425.922.538.751.848.425.720.437.851.549.025.624.2
        BCoV31,0280.3738.551.848.425.722.938.851.748.625.821.738.551.848.426.722.837.851.548.426.924.034.454.548.525.623.438.351.748.526.021.538.251.649.025.723.4
        PHEV30,4800.3738.551.748.326.922.138.151.648.626.123.138.551.648.327.222.337.851.448.326.922.234.454.548.526.122.738.751.748.527.121.638.251.649.025.424.1
        AntelopeCoV30,9950.3738.551.848.425.822.938.851.748.525.621.738.551.848.427.022.137.851.448.427.024.034.454.448.526.123.938.351.748.526.221.538.251.649.225.823.4
        GiCoV30,9790.3738.851.848.425.922.938.851.748.525.721.738.851.848.427.222.137.851.448.427.024.034.454.448.525.723.938.351.748.526.521.538.551.649.225.923.4
        ECoV30,9920.3738.551.749.826.023.938.851.649.026.422.638.551.749.926.524.037.851.449.827.523.534.454.648.525.324.638.351.548.526.922.038.251.649.725.624.9
        MHV31,3570.4238.351.948.126.324.339.051.348.526.124.038.351.848.326.525.337.651.948.326.324.235.053.647.525.324.639.650.847.927.124.039.251.248.626.024.6
        HCoV-HKU129,9260.3238.151.249.326.125.238.051.448.226.424.837.951.349.425.726.036.451.448.826.426.036.354.447.425.424.738.150.948.525.822.738.351.247.825.025.4
        RCoV31,2500.4138.751.847.927.224.539.551.448.327.024.338.551.748.125.525.138.251.848.225.825.035.053.647.424.325.239.950.747.727.424.138.351.048.426.423.5
    Subgroup B
        SARS CoV29,7510.4134.550.751.426.126.536.150.350.627.924.734.251.151.625.325.634.250.851.425.426.232.150.550.226.322.734.849.850.326.924.332.950.851.027.324.8
        SARSr-CiCoV29,7280.4134.550.751.426.226.536.150.350.628.024.734.251.151.625.225.634.250.851.425.526.232.150.550.226.222.734.849.850.327.024.332.950.851.027.124.8
        SARSr-Rh-BatCoV HKU329,7040.4134.250.551.426.425.235.850.350.826.224.333.951.151.625.624.933.950.951.426.025.732.150.450.625.623.034.849.750.526.023.532.650.651.327.224.1
        SARSr CoV CFB29,7340.4134.550.651.426.126.536.150.250.628.024.734.251.051.625.525.634.250.751.425.226.232.150.450.225.922.734.849.950.326.824.332.950.751.027.224.8
    Subgroup C
        Ty-BatCoV-HKU430,2860.3836.951.249.826.625.136.651.049.426.124.736.951.549.727.026.235.751.049.727.325.932.751.349.927.324.435.850.949.926.424.435.651.948.926.825.1
        Pi-BatCoV-HKU530,4880.4335.751.150.026.025.637.850.349.025.525.735.451.449.827.225.335.051.149.726.326.233.750.949.626.225.634.651.249.825.324.736.050.949.025.726.1
    Subgroup D
        Ro-Bat-CoV HKU929,1140.4136.451.651.228.425.139.252.650.126.523.136.451.750.926.624.935.851.950.927.725.033.852.250.927.022.835.051.449.227.222.936.952.351.427.823.3
Gammacoronavirus
    IBV27,6080.3843.954.856.630.330.042.654.654.529.930.844.254.956.627.628.943.354.356.228.430.343.653.654.828.729.747.152.455.429.429.241.753.955.129.428.1
    TCoV27,6570.3843.654.957.130.129.243.354.555.330.329.643.955.057.129.529.542.354.457.130.329.244.353.855.330.330.046.252.855.430.329.941.353.655.830.628.2
    BWCoV-SW131,6860.3938.852.952.827.132.139.552.951.628.331.138.852.952.828.531.937.252.352.227.331.641.152.854.227.430.242.052.251.127.230.038.852.152.728.231.5
Deltacoronavirus
    BuCoV HKU1126,4760.3981.188.289.469.874.882.490.996.062.573.280.888.289.643.575.179.588.390.444.571.957.072.376.841.150.658.370.875.443.351.477.584.891.051.860.7
    ThCoV HKU1226,3960.3882.188.289.747.979.783.189.594.747.881.081.888.289.946.779.481.486.889.945.876.757.371.976.443.649.457.771.374.543.649.678.284.490.546.263.3
    MunCoV HKU1326,5520.4382.790.195.871.276.876.587.989.161.374.683.490.196.043.878.894.594.698.046.187.553.172.978.041.453.455.471.775.744.053.272.084.785.452.264.4
    PorCoV HKU1525,4210.4376.988.188.461.975.897.097.899.244.896.884.390.696.144.477.954.072.578.241.852.257.771.074.943.852.473.684.584.650.162.0
    WECoV HKU1626,0270.4076.988.188.461.975.877.288.388.646.476.477.287.389.145.575.455.071.776.642.149.659.671.574.343.450.676.984.890.551.564.3
    SpCoV HKU1726,0670.4597.097.899.244.896.877.288.388.646.476.484.991.096.368.179.052.872.378.447.251.958.071.075.145.853.273.084.784.946.063.5
    MRCoV HKU1826,6740.4784.390.696.144.477.977.287.389.145.575.484.991.096.368.179.054.072.577.746.453.856.471.275.146.353.173.385.184.845.763.9
    NHCoV HKU1926,0640.3854.072.578.241.852.255.071.776.642.149.652.872.378.447.251.954.072.577.746.453.858.369.375.441.054.555.571.977.643.654.5
    WiCoV HKU2026,2110.3957.771.074.943.852.459.671.574.343.450.658.071.075.145.853.256.471.275.146.353.158.369.375.441.054.558.370.876.444.157.0
    CMCoV HKU2126,2160.3573.684.584.650.162.076.984.890.551.564.373.084.784.946.063.573.385.184.845.763.955.571.977.643.654.558.370.876.444.157.0
  • a Comparison of genomic features of PorCoV HKU15, WECoV HKU16, SpCoV HKU17, MRCoV HKU18, NHCoV HKU19, WiCoV HKU20, and CMCoV HKU21 and other CoVs with complete genome sequences available and of amino acid identities between the predicted 3CLpro, RNA-dependent RNA (RdRp), helicase (Hel), S, and N proteins of PorCoV HKU15, WECoV HKU16, SpCoV HKU17, MRCoV HKU18, NHCoV HKU19, WiCoV HKU20, and CMCoV HKU21 and the corresponding proteins of other CoVs. PEDV, porcine epidemic diarrhea virus; TGEV, porcine transmissible gastroenteritis virus; FIPV, feline infectious peritonitis virus; CCoV, canine coronavirus; PRCV, porcine respiratory coronavirus; HCoV-229E, human coronavirus 229E; HCoV-NL63, human coronavirus NL63; Rh-BatCoV-HKU2, Rhinolophus bat coronavirus HKU2; Mi-BatCoV 1A, Miniopterus bat coronavirus 1A; Mi-BatCoV 1B, Miniopterus bat coronavirus 1B; Mi-BatCoV-HKU8, Miniopterus bat coronavirus HKU8; Sc-BatCoV-512, Scotophilus bat coronavirus 512; HCoV OC43, human coronavirus OC43; BCoV, bovine coronavirus; PHEV, porcine hemagglutinating encephalomyelitis virus; AntelopeCoV, sable antelope coronavirus; GiCoV, giraffe coronavirus; ECoV, equine coronavirus; MHV, murine hepatitis virus; HCoV-HKU1, human coronavirus HKU1; RCoV, rat coronavirus; SARS CoV, SARS-related human coronavirus; SARSr-CiCoV, SARS-related palm civet coronavirus; SARSr-Rh-BatCoV HKU3, SARS-related Rhinolophus bat coronavirus HKU3; SARSr CoV CFB, SARS-related Chinese ferret badger coronavirus; Ty-BatCoV-HKU4, Tylonycteris bat coronavirus HKU4; Pi-BatCoV-HKU5, Pipistrellus bat coronavirus HKU5; Ro-BatCoV-HKU9, Rousettus bat coronavirus HKU9; IBV, infectious bronchitis virus; TCoV, turkey coronavirus; BWCoV-SW1, Beluga whale coronavirus SW1; BuCoV HKU11, bulbul coronavirus HKU11; ThCoV HKU12, thrush coronavirus HKU12; MunCoV HKU13, munia coronavirus HKU13.