Human calicivirus
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Complete norovirus genomes

PQ196519	GII.4 Sydney
	GII.P16

Length: 2,689 | 3 CDS

ORF1: 1..265
ORF2: 246..1868
ORF3: 1868..2674
LOCUS       PQ196519                2689 bp    RNA     linear   VRL 27-MAR-2025
DEFINITION  Norovirus GII isolate Hu/GII.4 Sydney[P16]/SanMateo0220/2023/USA
            nonstructural polyprotein, RdRp region, (ORF1) gene, partial cds;
            and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION   PQ196519
VERSION     PQ196519.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE   1  (bases 1 to 2689)
  AUTHORS   Barclay,L., Montmayeur,A.M., Cannon,J.L., Mallory,M.L., Reyes,Y.I.,
            Wall,H., Baric,R.S., Lindesmith,L.C., Vinje,J. and Chhabra,P.
  TITLE     Molecular Evolution and Epidemiology of Norovirus GII.4 Viruses in
            the United States
  JOURNAL   J Infect Dis (2025) In press
   PUBMED   40036172
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   2  (bases 1 to 2689)
  AUTHORS   Pan,C.Y., Barclay,L., Montmayeur,A.M., Vinje,J. and Chhabra,P.
  TITLE     Direct Submission
  JOURNAL   Submitted (16-AUG-2024) Viral Gastroenteritis Branch, Centers for
            Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
            30329, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
            Sequencing Technology :: Sanger dideoxy sequencing; Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..2689
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="Hu/GII.4 Sydney[P16]/SanMateo0220/2023/USA"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /geo_loc_name="USA"
                     /collection_date="29-Jun-2023"
                     /note="genotype: GII.4 Sydney[P16]"
     gene            <1..265
                     /gene="ORF1"
     CDS             <1..265
                     /gene="ORF1"
                     /codon_start=2
                     /product="nonstructural polyprotein"
                     /protein_id="XEJ39585.1"
                     /translation="EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELK
                     EGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
     mat_peptide     <1..262
                     /gene="ORF1"
                     /product="RdRp"
     gene            246..1868
                     /gene="ORF2"
     CDS             246..1868
                     /gene="ORF2"
                     /note="major capsid protein"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="XEJ39586.1"
                     /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRSNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
                     TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
     gene            1868..2674
                     /gene="ORF3"
     CDS             1868..2674
                     /gene="ORF3"
                     /note="minor structural protein; small basic protein"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="XEJ39587.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
                     APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAAPARGPSTKPS
                     NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTTRIRSWVEDQNRNLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN      
        1 tgaagacccc aatgagacaa tgatacccca ttctcagagg cccatacagc tcatggcact
       61 gcttggtgaa gcctctcttc acggaccctc tttctacagt agaatcagta aattggtcat
      121 aactgaactt aaagaaggtg ggatggactt ttacgtgcca aggcaggaac ccatgtttag
      181 gtggatgagg ttctctgact tgagcacgtg ggagggcgat cgcaatctgg ctcccaactt
      241 tgtgaatgaa gatggcgtcg agtgacgcca acccatctga tgggtccgca gccaacctcg
      301 taccagaggt caacaatgag gttatggctt tggagcccgt tgttggtgcc gctattgcgg
      361 cacctgtggc gggccaacaa aatgtaattg acccctggat tagaagtaat tttgtacaag
      421 ctcctggtgg ggagtttaca gtatccccta gaaatgctcc aggtgaaata ctatggagcg
      481 cgcccctagg tcctgaccta aatccctacc tatcccattt ggccagaatg tacaatggtt
      541 atgcaggtgg ttttgaagtg caggtaattc tcgcggggaa cgcgttcacc gccgggaaga
      601 ttatatttgc agcagtccca ccaaattttc caactgaagg cttaagccct agtcaggtca
      661 ctatgtttcc ccatataata gtagatgtta gacaattgga acctgtgctg atccccttac
      721 ccgatgttag gaataacttc tatcattata atcagtcaaa tgactccact attaagttga
      781 tagcaatgtt gtacacacca cttagggcta ataatgctgg agatgatgtt ttcacagttt
      841 cgtgccgagt tctcacgaga ccatcccccg attttgattt catattctta gtaccaccca
      901 cagttgagtc aagaactaaa ccattctctg tcccagtttt aactgttgag gagatgacca
      961 attcaagatt ccccatccct ttggaaaagt tgttcacagg ccccagcagt gcatttgttg
     1021 ttcaaccaca aaacggcaga tgcacaactg atggcgtgct cctaggcacc acccaacttt
     1081 ctcctgtcaa catctgcacc ttcagagggg acgtcaccca tatcacaggt agtcacaatt
     1141 tcactatgaa tttggcttct caaaattgga acaactatga cccaacagaa gagatcccag
     1201 cccccctagg aactccagat tttgtgggga agatccaagg catgctcacc caaaccacaa
     1261 ggacagatgg ttcaacacgc ggccacaaag ctacagtgta cactgggagc gccgactttg
     1321 ctccaaaact gggtagagtt caatttgaaa ctgacacaaa ccatgacttt gaagctaatc
     1381 aaaacacaaa gttcacccca gtcggtgtca ttcaagatgg tagcaccacc caccgaaacg
     1441 aaccccaaca gtgggtgctc ccaagttact caggcagaaa tactcacaat gtacatttgg
     1501 cccccgctgt agcccccacc tttccgggtg agcaactcct cttcttcaga tccaccatgc
     1561 ccggatgtag cgggtacccc aacatggatt tggactgtct gctcccccag gaatgggtgc
     1621 agtacttcta ccaagaggca gccccagcac aatctgatgt ggctctgcta aggtttgtga
     1681 atccagacac aggtagggtt ctgtttgagt gcaagcttca caaatcaggc tatgttacag
     1741 tggctcacac tggccaacat gatttggtta tcccccccaa tggctacttt aggtttgatt
     1801 cctgggtcaa ccagttctac acgcttgccc ccatgggaaa tgggacgggg cgtagacgtg
     1861 cagtataatg gctggggctt tctttgctgg attggcatct gatgtccttg gctctggact
     1921 tggttccctt atcaatgctg gggctggggc catcaaccaa aaagttgagt ttgaaaataa
     1981 cagaaaattg caacaagcat ccttccaatt tagcagcaat ttgcaacagg cttcctttca
     2041 acatgataaa gagatgctcc aagcacaaat tgaggccacc aaaaagctac agcaggaaat
     2101 gatgagagtt aagcaggcaa tgctcctaga gggtgggttc tctgagacag atgcagcccg
     2161 cggggcaatt aacgccccca tgacaaaggc tttggactgg agcgggacaa ggtactgggc
     2221 tccagatgct agaattacaa catacaatgc aggccacttt tccacccctc aaccatcggg
     2281 ggcactgcca gggagagcta atcttaggga tgctgcccct gctcgtggac cctccaccaa
     2341 accttctaac tcttctactg ccacctctgt gtactcaaat caaactattt caacgagact
     2401 tggttctaca gctggttctg gaaccagtgt ctcgagcctc ccgtcaacta caagaattag
     2461 gagctgggtt gaggatcaga ataggaattt gtcacctttc atgagggggg cccacaacat
     2521 atcatttgtc accccaccat ctagcagatc ctctagccaa ggcacagtct caaccgtgcc
     2581 taaagaaatt ttggactcct ggactggcgc tttcaacacg cgcaggcagc ccctcttcgc
     2641 tcacattcgt aagcgagggg agtcacgggt gtaatgtgaa aagacaaaa
//