Typing tool

Complete norovirus genomes

PP658560  GII.12
 GII.P16

Length: 7,501 | 3 CDS

ORF1: 1..5100
ORF2: 5081..6688
ORF3: 6688..7467
LOCUS       PP658560                7501 bp    RNA     linear   VRL 01-JUN-2024
DEFINITION  Norovirus GII isolate PBH23490-STN nonstructural polyprotein
            (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION   PP658560
VERSION     PP658560.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE   1  (bases 1 to 7501)
  AUTHORS   Doungngern,P., Pittayawong-anont,C., Kraipatanapong,S.,
            Waikhruea,K., Menkoon,K., Rattanatumhi,K., Supataragul,A.,
            Thippamom,N., Khunnawutmanotham,W., Hirunpatrawong,P.,
            Wacharapluesadee,S., Sereewit,J., Sobolik,E.B., Roychoudhury,P.,
            Greninger,A.L. and Putcharoen,O.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-APR-2024) Virology, University of Washington, 850
            Republican St, Seattle, WA 98109, USA
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: Geneious v. 2023; metaspades v. 2024
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..7501
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="PBH23490-STN"
                     /isolation_source="Rectal swab"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /geo_loc_name="Thailand"
                     /collection_date="2023-08-21"
                     /note="genotype: GII"
     gene            1..5100
                     /gene="ORF1"
     CDS             1..5100
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="WZF77181.1"
                     /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
                     KQPAPRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYDVKSGVSGLPELTTVPQ
                     PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
                     ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
                     DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
                     GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
                     EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
                     FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
                     STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
                     EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
                     TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
                     EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
                     RASGLLHERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLVDTMKVGNQLKGVK
                     TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
                     LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQSESETKEE
                     ALKPEDDEFVISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
                     KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
                     TGSEIRKRNPDDFKPKGKLWADDNRSVDYNERLDFEAPPSIWSRIVSFGSGWGFWVSP
                     SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
                     TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
                     CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
                     PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
                     RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGNPHHVRKNEFW
                     NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
                     STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
                     STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
                     SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
                     EYGLKPTRPDKTEGPLIISEGLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
                     NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
                     PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
     mat_peptide     1..996
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     997..2094
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     2095..2625
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2626..3024
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     3025..3567
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3568..5097
                     /gene="ORF1"
                     /product="RdRp"
     gene            5081..6688
                     /gene="ORF2"
     CDS             5081..6688
                     /gene="ORF2"
                     /note="major capsid protein"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="WZF77182.1"
                     /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
                     NNVIDPWIRLNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLSRMYNGYAGG
                     VEVQVLLAGNAFTAGKLVFAAVPPHFPLENISPGQITMFPHVIIDVRTLEPVLLPLPD
                     VRNSFFHYNQQNEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
                     TVESKTKPFTLPVLTIGELTNSRFPVPIDELYTSPNESLVVQPQNGRCALDGELQGTT
                     QLLPTAICSFRGRINQKVSGENHVWNMQVTNINGTPFDPTEDVPAPLGTPDFSGKLFG
                     VLSQRDHDNACRSHDAVIATDSTKFTPKLGAVQIGTWEQDDVHINQPTKFTPVGLFEN
                     EGFNQWTLPNYSGALTLNMGLAPPVAPTFPGEQILFFRSHIPLKGGVADPVIDCLLPQ
                     EWIQHLYQESAPSQTDVALIRFTNPDTGRVLFEAKLHRSGYITVANTGSRPIVVPANG
                     YFRFDSWVNQFYSLAPMGTGNGRRRMQ"
     gene            6688..7467
                     /gene="ORF3"
     CDS             6688..7467
                     /gene="ORF3"
                     /note="minor structural protein; small basic protein"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="WZF77183.1"
                     /translation="MAGAFIAGLAGDIVTNSIGSLVNAGANAINQKVDFENNKQLQQA
                     SFNHDKEMLQAQIQATKQLQADMIAIRQGVLTAGGFSPTDAARGAINAPMTQVLDWNG
                     TRHWAPGATKTTAFSGGFTSASHARTVDLTKKTPATPAPTPVSRPSSIASTVSTRSTL
                     ISGSSNSPSLARSSSSVSSQPTSPSSRTSEWVRSQNRALEPYMSGALRTAYVTPPSSR
                     ASSNGTVSTVPKEVLDSWSSAFNTHRQPLFAHLRRRGESQV"
ORIGIN      
        1 atgaagatgg cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag
       61 gaaaaatctt caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc
      121 ggggctaggc ccaaacagcc tgccccgaga gacaaaccac aaaagccccc aagaccacca
      181 actcccgagt tggtcaagag gataccccct cctccaccta atggcgaaga agaagaagaa
      241 ccagtcatta ggtatgatgt taagagcggg gtctctggcc tgcccgagct cacaacagtc
      301 ccccaaccgg acgtggccaa cacagcattc agtgttccac cactgagctt gagagaaaac
      361 agggaggcca aggaaccgct aacaggggca atattagaga tgtgggatgg agagatatac
      421 cactatggcc tatacgtgga gaaaggccta gtgttgggtg tgcacaaacc acctgcagcc
      481 ataagtatgg caagagtgga attgacgccg ctatcattat actggcgtgt agtgtacact
      541 ccccaatatc tcatctcccc tgaaactctt aggaggctca acggagaggc tttcccttat
      601 accgcctttg acaacaactg ctacgccttt tgttgctggg tgttagacct caacgactca
      661 tggcttagca ggagaatggt gcagagaaca acgggcttct tcagacctta ccaagagtgg
      721 aacagaaaac ccctgcctac catggatgat tccaaaatta agaaagtggc aaatatattc
      781 ctatgttcat tgtctacatt attcaccaga cccataaaag atctcatagg aaaaattaaa
      841 ccattaaaca tattaaatat tctggcaacg tgcgactgga cgtttgccgg gatagtggag
      901 tctctaatac tacttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct
      961 atgatcgctc ccttgctcgg ggactacgag ttgcagggac cagaggacct cgctgttgaa
     1021 ctcgtgcctg tggtgatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt
     1081 ggcaaaatgt tgtcttcggc agcatcaaca ctcagggctt gcaaagatct tggtgcctat
     1141 ggcttagaga tactaaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat
     1201 gagctagcca tggtgagggc catagaggat gctgtactag atcttgaggc aatagaaaat
     1261 aaccacatga caaccctgtt gaaagacaaa gacagcttag caacatacat gaagacactg
     1321 gacatggagg aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt
     1381 gggacaatca acgccctact ggcccgaata gcagcggcca ggtcattagt ccacagggcc
     1441 aaggaagagc tatccagcag gataagacca gtagttgtta tgatatctgg caaaccagga
     1501 ataggtaaaa ctcatctggc cagggaggtg gcaagaaagg tggcttccac tctcacaggg
     1561 gaccagagag tcggactcat accaagaaac ggtgtggacc actgggacgc atacaaaggc
     1621 gagagagtcg tgctgtggga cgattatggc atgagtaatc ccatccatga tgctcttcgc
     1681 atacaagaat tggctgatac gtgtcccctc accttaaatt gtgacagaat tgaaaacaaa
     1741 ggaaaagttt ttgacagtga agtcataata atcacaacaa accttgccaa cccggcccca
     1801 cttgattatg tcaactttga ggcttgttcc aggagaattg acttcctggt gtacgctgag
     1861 gcaccagaag tagagaaggc aaagcgggac ttccctggtc agccagatat gtggaaggat
     1921 gccttcaagc cggacttttc acatatcaag ctgcaacttg cacctcaggg cggctttgac
     1981 aagaatggca acaccccaca tgggaaagga gtgatgaaga ccctcactac cggctctctg
     2041 atcgctcgtg catcaggcct actgcatgag aggatggatg aatttgaact ccaaggccct
     2101 acaatcacca ccttcaattt cgaccggaac agaatcgcag cattcagaca actggctgca
     2161 gaaaacaagt atggattagt ggacaccatg aaagttggca atcaattaaa aggagtgaaa
     2221 accatggaag aactcaaaca agcaattagg aatgtgacca tcaagaggtg ccggatcatt
     2281 tacggtggct ccacatatga ccttgaatct gacggcaagg gcaaagttct ggtggaaaag
     2341 gtcaaaaaca cctctgtaca gaccaacaac gagttggccg gagccttgca ccatctcaaa
     2401 cacgcccgaa tcaggtacta tgtcaaatgc gtgcaagaag cagtctattc catcatacaa
     2461 attgccggcg ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagaactc
     2521 tggtcgaagc cacaattaga ccaaagtgaa tcagagacta aggaagaggc cctcaagcca
     2581 gaagacgacg agttcgtcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa
     2641 aataaaactg gccgtggcaa gaaacacact gcattctcca gcaagggctt gagtgatgag
     2701 gagtatgacg agtataagag gataagagaa gagagaaatg ggaagtactc tatagaggag
     2761 tatcttcaag acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa
     2821 gacttctgtg aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc cactaggaaa
     2881 caaagaaagg aagagagggc cacattaggg ctagtaacgg gttcagaaat cagaaagaga
     2941 aaccctgatg acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac
     3001 tacaatgaaa gactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt
     3061 ggttctggct ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtgatc
     3121 cccgcaggca taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca
     3181 ggtgaatttt gccggttcag gttcccaaaa ccaattagac cagatgttac aggaatgatc
     3241 ttggaagaag gcgcgcctga gggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga
     3301 gagctcatgc ctcttgcagc cagaatggga acacacgcaa ccatgaaaat tcaaggccgc
     3361 atggttggcg ggcagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg
     3421 ggaacaactc ctggtgactg tggctgcccc tacatctata agagaggcaa cgactatata
     3481 gtcattgggg tgcacactgc agcagcccgt ggtgggaata ccgtcatctg tgccacacag
     3541 ggaagtgagg gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca
     3601 cccattctgg gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca
     3661 tcgaacacgc cccttccacc agggacgtat gagcctgcct acctcggcgg ccgtgatccg
     3721 cgtgtcaagg gtgggccctc cttgcagcag gtaatgagag atcagttgaa gccattcact
     3781 gaacccaggg gcaaacctcc aagaccaagt gtattggaag cagctaaaca aaccatcatc
     3841 aatgtcctcg aacaaaccct ggatcctcca caaaaatgga catacgcaca ggcgtgtgcc
     3901 tcacttgaca aaaccacctc cagcgggaac ccccatcacg tccgaaagaa tgaattctgg
     3961 aatggtgaga ccttcactgg aaaattggca gaccaagcat caaaagcaaa cctaatgttt
     4021 gaggaaggga aacatatgac accagtgtat acagcagcac tcaaggacga gctagttaag
     4081 actgagaaaa tctatggaaa gatcaagaag aggctactct ggggctctga cctgtccacc
     4141 atgatccggt gtgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata
     4201 tcactcccag tccgagttgg catgaatatg aatgaagatg gcccaataat atttgagaaa
     4261 cattccagat ataagtacca ctatgatgca gactactccc gttgggattc aacacaacag
     4321 agggcagtgc tggcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg
     4381 gcacaaatag tcgctgagga tctgctggcc cctagtgtag tagatgtagg agactttaaa
     4441 atcacaataa atgaagggct cccctctggt gttccatgca cttctcaatg gaactccatt
     4501 gcacactggc tactaactct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt
     4561 atacaggcaa attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata
     4621 aaattagacc ctgaacagtt aaccgccaaa ttgaaggagt acggcctgaa accaacccgc
     4681 ccagacaaaa ccgagggacc cctgatcatc agtgaaggtt tggacggact cactttcctc
     4741 cgaaggacgg tgactcgtga cccagctggc tggtttggta aactggatca gagctccatt
     4801 ttgaggcaga tgtactggac tagagggcca aatcatgaag accccaatga aacaatgata
     4861 ccccattctc agagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga
     4921 ccctctttct atagtaaaat cagcaaattg gtcataactg aactcaagga aggtgggatg
     4981 gatttttacg tgccaagaca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc
     5041 acgtgggagg gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga
     5101 cgccgctcca tctaatgatg gtgcagccgg tctcgtacca gaggtcaaca atgagaccat
     5161 ggcacttgaa ccggtggctg gggcttcgat agccgcccca ctcaccggcc aaaacaatgt
     5221 tatagacccc tggattagat taaattttgt gcaggcccct aatggagagt ttacagtctc
     5281 accccgcaac tcgcccgggg aagtcctact taatttagaa ttaggtcccg aactgaaccc
     5341 atatttggca cacctttcta gaatgtataa tggttatgca ggtggagttg aggtgcaagt
     5401 gctactggct gggaacgcgt tcacggctgg aaaattggta tttgctgcag tcccccccca
     5461 ttttccatta gagaatataa gccctggtca aataaccatg ttccctcatg taattattga
     5521 tgttaggact ttggagccag ttctattacc tctaccagat gtcagaaata gcttcttcca
     5581 ttacaaccag caaaatgagc cgaggatgag gcttgttgca atgctttata cccctcttag
     5641 atctaatggt tctggtgatg atgtgttcac cgtctcttgt agggtgctca ctcgaccctc
     5701 tcctgacttt gattttaatt atttggtgcc cccaacagtt gaatctaaaa caaaaccatt
     5761 cacgctccct gtcttgacca ttggggagtt aaccaactcc aggttccctg tgcctataga
     5821 tgaactctac actagtccca atgagagttt ggtggttcaa ccccagaacg ggaggtgcgc
     5881 gctggatggg gagttacagg gcactaccca gctccttccc acggcgattt gctcgttcag
     5941 gggtcggatc aatcagaaag tgagtggaga gaatcatgtt tggaacatgc aagtcaccaa
     6001 cattaacgga accccttttg atccaacaga ggatgttcca gcccctctgg gcacgccaga
     6061 cttttctggc aagctctttg gcgtcctaag ccagagggac catgataatg cctgcaggag
     6121 tcatgatgca gtgattgcaa ctgattctac caaattcacc ccaaaattgg gtgctgtaca
     6181 aattggcaca tgggaacaag atgatgtgca cattaaccaa cctactaagt tcactccagt
     6241 tggattgttt gagaatgaag gctttaatca gtggacactt cccaattatt ctggagcttt
     6301 aacactcaat atggggttgg ccccccctgt ggcccccaca ttccctggtg agcaaatcct
     6361 cttcttcagg tcccacattc cccttaaagg aggtgttgca gacccagtta ttgattgtct
     6421 tctaccccaa gagtggatcc aacaccttta tcaggagtca gccccttcac aaacagatgt
     6481 ggcactgatt aggtttacaa atccagacac agggcgtgtc ctatttgagg caaagttgca
     6541 caggagtggc tacataacag tggccaatac tggtagcaga ccaattgtgg tgccagctaa
     6601 tggttatttc agatttgact cttgggttaa tcagttttac tctcttgccc ccatgggaac
     6661 tgggaacggg cgcagaagga tgcagtaatg gctggagctt tcatagcagg gcttgctggt
     6721 gacatagtca ccaatagcat tggctcactc gtgaacgctg gggccaatgc aataaatcag
     6781 aaagtagact ttgaaaacaa caagcaacta caacaggcat ctttcaacca tgacaaagaa
     6841 atgctgcaag ctcaaattca ggccaccaaa caactacagg ctgatatgat tgcaatcaga
     6901 cagggggtgt tgaccgcggg cggcttctcc cctactgatg cagcaagagg tgcaatcaac
     6961 gcgcccatga ctcaggtctt ggattggaat gggaccagac attgggcccc cggagccacg
     7021 aaaacaactg ctttctccgg tgggtttacc agtgcctctc atgccaggac cgttgacctg
     7081 accaagaaga caccagccac gccagcccct acgcctgtct ctaggcctag ttctattgct
     7141 tctactgttt ctacccgctc cactttgatt agcgggtctt ctaattctcc ttctttagcc
     7201 aggagctctt ctagtgtttc ttcccaaccc acttccccat cttcccgaac tagtgagtgg
     7261 gtacgcagtc aaaatagagc gctggagcct tatatgagtg gggcgctgcg tacagcctac
     7321 gtgacgcctc catccagtag ggcttctagc aatggcacag tctcaaccgt gccaaaagag
     7381 gttttggact cctggtcgtc tgcatttaat acacacagac agccgctgtt tgcccatctc
     7441 cgtcggagag gggagtcaca agtttagtga aaagatggtc ttttctttct ttcctttgaa
     7501 a
//