Human calicivirus
Typing tool

Complete norovirus genomes

PQ196535  GII.4 Sydney
 GII.P16

Length: 2,674 | 3 CDS 

ORF1: 1..265
ORF2: 246..1868
ORF3: 1868..2659

LOCUS       PQ196535                2674 bp    RNA     linear   VRL 27-MAR-2025
DEFINITION  Norovirus GII isolate Hu/GII.4
            Sydney[P16]/SanFrancisco0078/2023/USA nonstructural polyprotein,
            RdRp region, (ORF1) gene, partial cds; and VP1 (ORF2) and VP2
            (ORF3) genes, complete cds.
ACCESSION   PQ196535
VERSION     PQ196535.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE   1  (bases 1 to 2674)
  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 2674)
  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..2674
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="Hu/GII.4 Sydney[P16]/SanFrancisco0078/2023/USA"
                     /isolation_source="stool"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /geo_loc_name="USA"
                     /collection_date="02-Mar-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="XEJ39633.1"
                     /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="XEJ39634.1"
                     /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEETPAPLGTPDFVGKIQGML
                     TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
     gene            1868..2659
                     /gene="ORF3"
     CDS             1868..2659
                     /gene="ORF3"
                     /note="minor structural protein; small basic protein"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="XEJ39635.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
                     APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGPSTKPS
                     SSPTATSVHSNQTVSTRLGSTAGSGTSVSSFPSTARTRSWVEDQNIMKGAYNISFVTP
                     PSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN      
        1 tgaagacccc aatgagacaa tgatacccca ttcccagagg cccatacagc tcatggcact
       61 gcttggtgaa gcctctcttc acggaccctc tttctacagt agaatcagta aattggttat
      121 aactgaactc aaagaaggtg ggatggactt ttacgtgcca aggcaggaac ccatgtttag
      181 gtggatgagg ttctctgact tgagcacgtg ggagggcgat cgcaatctgg ctcccaactt
      241 tgtgaatgaa gatggcgtcg aatgacgcca acccatctga tgggtccgca gccaacctcg
      301 taccagaggt caacaatgag gttatggctt tggagcccgt tgttggtgcc gctattgcgg
      361 cacccgtagc gggccaacaa aatgtaattg acccctggat tagaaataat tttgtacaag
      421 cccctggtgg ggagttcaca gtatccccta gaaatgctcc aggtgaaata ctgtggagcg
      481 cacccttagg ccctgaccta aatccctacc tatcccattt ggccagaatg tacaatggtt
      541 atgcaggtgg tttcgaagtg caggtaattc tcgcggggaa cgcgttcacc gcagggaaga
      601 ttatatttgc agcagtccca ccaaattttc caactgaagg cttaagccct agccaggtta
      661 ccatgtttcc ccatataata gtagatgtta gacaattgga acctgtgctg atccccttac
      721 ccgatgttag gaataatttc tatcattaca atcagtcaaa tgactccact atcaagttga
      781 tagcaatgtt gtacacacca cttagggcta ataatgctgg ggatgatgtt ttcacagttt
      841 cgtgtcgagt tctcacgaga ccatcccccg attttgattt tatattctta gtaccaccca
      901 cagttgagtc aagaactaaa ccattctctg tcccaatttt aactgttgag gagatgacca
      961 attcaagatt ccccatccct ttggaaaagt tgttcacagg ccccagcagt gcatttgttg
     1021 ttcaaccaca aaacggcaga tgcacaactg atggcgtgct cctaggtacc acccaacttt
     1081 ctcctgtcaa catctgcacc ttcagagggg acgtcaccca tatcacaggt agtcacaact
     1141 tcactatgaa tttggcttct caaaattgga acaactatga cccaacagaa gaaaccccag
     1201 cccccctagg aactccagat tttgtgggga agatccaagg catgctcacc caaaccacaa
     1261 ggacagatgg ttcaacacgc ggccacaaag ctacagtgta cactgggagc gccgactttg
     1321 ctccaaaact gggtagagtt caatttgaaa ctgacacaaa ccatgacttt gaagccaatc
     1381 agaacacaaa gttcacccca gtcggtgtca ttcaagatgg tagcaccacc caccgaaacg
     1441 aaccccaaca gtgggtgctc ccaagttact caggcagaaa tactcacaat gtacatttgg
     1501 cccccgctgt agcccccacc tttccgggtg aacaactcct cttctttaga tccaccatgc
     1561 ccggatgcag cgggtacccc aacatggatt tggactgtct gctcccccag gaatgggtgc
     1621 agtacttcta ccaagaggca gccccagcac aatctgatgt ggctctgcta agatttgtaa
     1681 acccagacac aggtagggtt ctgtttgagt gcaagcttca caaatcaggc tatgttacag
     1741 tggctcacac tggtcaacat gatttggtta tcccccccaa tggttacttc aggtttgatt
     1801 cctgggtcaa tcagttctac acgcttgccc ccatgggaaa tggaacgggg cgtagacgtg
     1861 cagtataatg gctggagctt tctttgctgg attggcatct gatgtccttg gctccggact
     1921 tggttctctt atcaatgctg gggctggggc catcaaccaa aaagttgagt ttgaaaataa
     1981 cagaaaattg caacaagcat ccttccaatt tagcagcaat ttgcaacagg cttcctttca
     2041 acatgataaa gagatgctcc aagcacaaat tgaggccacc aaaaagctac agcaggaaat
     2101 gatgagagtt aagcaggcaa tgctcttaga gggtgggttc tctgagacag atgcagcccg
     2161 cggggcaatt aacgccccca tgacaaaggc tttggactgg agcgggacaa ggtactgggc
     2221 tccagatgct agaattacaa catacaatgc aggtcacttt tccacccctc aaccatcggg
     2281 ggcactgcca ggaagagcta atctcaggga tgctgtccct gctcgcgggc cctccaccaa
     2341 accttctagc tctcctactg ccacctctgt gcactcaaac caaactgttt caacgagact
     2401 tggttctaca gctggttctg gaaccagtgt ctcgagcttc ccgtcaactg caagaactag
     2461 gagctgggtt gaggatcaga atatcatgaa gggggcctac aacatatcat ttgtcacccc
     2521 accatctagc agatcctcta gccagggcac tgtctcaacc gtgcccaaag aaattttgga
     2581 ctcctggact ggcgctttca acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg
     2641 aggggagtca cgggtgtaat gtgaaaagac aaaa
//