Typing tool

Complete norovirus genomes

MN308002  GII.4 Sydney
 GII.P31

Length: 7,512 | 3 CDS

ORF1: 1..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS       MN308002                7512 bp    RNA     linear   VRL 29-JUN-2021
DEFINITION  Norovirus GII isolate 065_GII.Pe_GII.4_Araguaina nonstructural
            polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION   MN308002
VERSION     MN308002.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7512)
  AUTHORS   Tinker,R.J., da Costa,A.C., Tahmasebi,R., Milagres,F.A.P., Dos
            Santos Morais,V., Pandey,R.P., Jose-Abrego,A., Brustulin,R.,
            Rodrigues Teles,M.D.A., Cunha,M.S., Araujo,E.L.L., Gomez,M.M.,
            Deng,X., Delwart,E., Sabino,E.C., Leal,E. and Luchs,A.
  TITLE     Norovirus strains in patients with acute gastroenteritis in rural
            and low-income urban areas in northern Brazil
  JOURNAL   Arch Virol 166 (3), 905-913 (2021)
   PUBMED   33462673
REFERENCE   2  (bases 1 to 7512)
  AUTHORS   Tinker,R.J., da-Costa,A.C., Leal,E.S., Tahmasebi,R.,
            Milagres,F.A.P., Pandey,R.P., Jose-Abrego,A., Brustulin,R.,
            Teles,Md.A.R., Sayao-Lobato,M.C.A.B., Chagas,R.T.,
            Santos-Abrao,Md.F.N., Alves-Soares,C.V.D., Cunha,M.S., Deng,X.,
            Delwart,E., Sabino,E.C. and Luchs,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-AUG-2019) Institute of Tropical Medicine, University
            of Sao Paulo, Av Dr Eneas de Carvalho Aguiar 470, Sao Paulo, Sao
            Paulo 05403000, Brazil
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: Geneious v. R9
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..7512
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="065_GII.Pe_GII.4_Araguaina"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="Brazil"
                     /collection_date="31-Aug-2015"
                     /note="genotype: GII.Pe_GII.4"
     gene            1..5103
                     /gene="ORF1"
     CDS             1..5103
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="QED42394.1"
                     /translation="MKMASNDASAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARP
                     KQPPPKEVPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE
                     ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
                     LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
                     WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
                     LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
                     LAVELVPIVMGGIGLVLGFTKERIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
                     KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
                     KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
                     AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
                     PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
                     AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
                     SGLLHERLDEYELQGPALTTFNCVHQPILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
                     SDLKQALKNIAIKKCQIVYDGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
                     CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQMEDTEEMTNKDGC
                     LKPKDEEEFVVSSKDIKTEGKKGKNKSHRTPHHWAFSSKGLSDEEYDEYKRIREERNG
                     KYSIEEYLQDRDRYSSMEVAITRATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGL
                     VTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVS
                     PSLFITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPE
                     GTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPG
                     DCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPIL
                     GPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVEGGPSLQQVLRDQLKPFTE
                     PRGRPPEPNLLEAAKKTVTNVLEQTIDPPQKWSFGQACASLDKTTSSGHPHHMRKNDC
                     WNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSD
                     LATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRW
                     DSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPC
                     TSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKL
                     KEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRG
                     PNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSQLSKLVIAELKEGGMDFYVPRQ
                     EPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     mat_peptide     1..990
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     991..2088
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     2089..2625
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2626..3027
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     3028..3570
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3571..5100
                     /gene="ORF1"
                     /product="RdRp"
     gene            5084..6706
                     /gene="ORF2"
     CDS             5084..6706
                     /gene="ORF2"
                     /note="major capsid protein"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="QED42395.1"
                     /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
                     TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
     gene            6706..7512
                     /gene="ORF3"
     CDS             6706..7512
                     /gene="ORF3"
                     /note="minor structural protein; small basic protein"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="QED42396.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNKKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAVLLEGGFSETDAARGAIN
                     APMTKALDWSGTRYWAPEARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
                     NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSIARTRSWVEDQSRNLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN      
        1 ttgaagatgg cgtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc
       61 gcaaaatctt caagtgacgg tatgttttct aacatggctg tcacttttaa gcgggccctc
      121 ggggcgcggc ctaaacagcc gcccccgaag gaagtaccac ccagaccccc gcgaccaccc
      181 acaccagaat tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg
      241 gtctcttaca gcgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa
      301 ccggaagaaa ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac
      361 gccaaggagc cattaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac
      421 ggcctgtacg tggaacgagg tcttatactt ggtgtgcaca agccaccggc agccattagc
      481 cttgccaagg tcgagctagc accgctctct ttgttctgga gacctgtata caccccccag
      541 tatctcatct ctccggacac tcttaggaga ttgcatggag agtcattccc ttacactgca
      601 tttgacaaca attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta
      661 agcaggagaa tgattcagag aacaacaggc ttctttaggc cgtaccagga ttggaacagg
      721 aaacccctcc ccactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc
      781 actttgtctt cactattcac cagacccatc aaggacataa tagggaagtt gaaacctctt
      841 aacatcctta atattctggc tacatgtgat tggaccttcg caggcatagt ggaatcttta
      901 atactcttag cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc
      961 gcccccttgc taggtgatta tgaactgcaa ggacctgagg accttgcagt ggaactggtc
     1021 ccaatagtga tgggggggat aggtttggtg ctaggattta ccaaagagag aatcggaaag
     1081 atgctatcat ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg
     1141 gaaatcttaa aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg
     1201 gctatggtga gatccatcga ggatgcagta ctagaccttg aggcaattga aaacaaccac
     1261 atgaccaccc tactcaaaga caaagacagc ttggcaacct acatgagaac ccttgacctt
     1321 gaggaggaga aagccagaaa actctcaacc aaatctgctt caccagatat tgtgggcaca
     1381 atcaactctc ttctggcaag aatcgccgct gcacgctccc tagtgcatcg ggcgaaagaa
     1441 gagctctcca gcaggccgag acctgtcgtt gtgatgatat cgggaagacc agggataggg
     1501 aaaactcacc ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag
     1561 cgcgtgggtc ttatcccacg caatggtgtc gatcactggg acgcatacaa gggcgaaaga
     1621 gttgtcttat gggacgacta tggaatgagc aaccccatcc atgatgccct caggttacag
     1681 gaacttgctg acacttgccc cctcacgcta aattgtgaca gaattgagaa caaagggaaa
     1741 gtctttgaca gtgatgccat aattatcacc accaatctgg ccaacccagc accactggat
     1801 tatgtcaact tcgaagcgtg ctcgagacgt attgacttcc tcgtgtacgc agaagcccct
     1861 gaggtggaga aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc
     1921 agtcctgact tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac
     1981 ggcaacaccc cgcatgggaa aggggtcatg aagaccctca ccactggctc cctcatcgcc
     2041 cgagcgtcag ggttactcca tgagaggcta gatgaatatg aactgcaagg cccagccctc
     2101 accactttca actgtgtcca tcagcccata cttgctttta gacagcttgc tgctgaaaac
     2161 aagtatgggc tgatggacac aatgagagtt ggaaaacaac tcaaggatgt caagaccatg
     2221 tcagacctca aacaagcact caagaacatc gcgatcaaaa agtgccagat agtgtacgat
     2281 ggtggcacct acacacttga ggctgatggc aagggtagtg tgaaagttga caaagtgcaa
     2341 agtgccactg tgcagaccaa caatgaactt gccggtgccc tacaccacct aaggtgcgct
     2401 agaatcaggt actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct
     2461 ggggctgcgt tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc
     2521 aaaccacaga tggaagatac agaagagatg accaacaaag atggttgcct aaaacccaaa
     2581 gatgaggaag agtttgtcgt ctcatccaaa gacatcaaaa ctgagggcaa gaaagggaag
     2641 aacaagtctc atcgtactcc tcatcactgg gccttttcaa gtaaaggact cagtgatgag
     2701 gagtacgatg agtacaagag gatcagagaa gaaaggaacg gtaagtactc catagaagag
     2761 taccttcagg acagagacag gtactcttct atggaggtgg ccattaccag ggcaaccgaa
     2821 gaggacttct gtgaggaaga agaggccaaa atccggcaga gaatctttag accaacaagg
     2881 aaacaacgca aagaagagag ggcctctctc ggcttggtca caggctctga aatcaggaag
     2941 agaaacccag aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt
     3001 gactacaatg agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg tatagtcaac
     3061 tttggttcag gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc
     3121 ataccccaag gtgcaaaaga gttcttcgga gtccctatca agcaaatcca gatacacaaa
     3181 tcaggtgaat tctgccgatt gagattccca aagccaatca ggactgatgt gacgggcatg
     3241 atcctagaag aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact
     3301 ggagagctca tgcctctggc agccagaatg gggacccatg caaccatgaa aattcagggg
     3361 cgcacagttg gagggcaaat gggtatgctc ctgacaggat ccaatgccaa gagtatggac
     3421 ctgggcacaa caccaggcga ttgcggctgc ccctacatct acaagagggg gaatgactac
     3481 gtggtcatag gagtccatac ggccgctgcc cgtggaggaa acactgtcat atgtgccacc
     3541 caggggagtg agggagaggc cacacttgaa ggaggtgaca gtaaagggac atactgtggc
     3601 gcaccaatct tgggcccagg gagcgctccg aagctcagta ccaagactaa gttttggaga
     3661 tcatccacaa cacctctacc acctggtaca tatgaaccag cctacctcgg tggcaaagac
     3721 cccagggttg aaggtggtcc atctttgcag caagtgttgc gagaccagct aaaaccattc
     3781 acagaaccca gaggcaggcc gccagaacca aatttgctag aagctgccaa gaaaaccgtc
     3841 accaatgtcc ttgagcaaac aattgatcca cctcaaaaat ggtcatttgg ccaagcttgc
     3901 gcatccctgg acaaaaccac ctccagcggc cacccccacc acatgcggaa aaacgattgt
     3961 tggaatgggg aatccttcac gggaaaattg gctgaccaag cctccaaggc caacctaatg
     4021 tttgaagagg gaaagaacat gactccagtc tatacaggtg cacttaagga tgagttggta
     4081 aagaccgata aagtttatgg taagatcaag aagaggcttc tgtggggttc agacctggcg
     4141 accatgatac ggtgcgcccg agcttttgga ggccttatgg atgaactcaa ggcgcactgt
     4201 gtcacacttc ctgtcagagt tggtatgaac atgaatgagg atggccccat catctttgag
     4261 aagcactcca ggtatagata ccactatgat gctgattatt cccggtggga ttcaacacaa
     4321 caaagggatg tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac
     4381 ctggcccaga tagttgcaga agacctcctc tcccctagcg tgatggatgt aggtgacttt
     4441 caaatatcaa taagtgaggg tctcccctct ggggtacctt gtacctccca gtggaattcc
     4501 atcgcccatt ggctcctcac tctgtgtgca ctctctgaag tcacggacct gtcccccgat
     4561 atcattcagg ccaactccct tttctccttc tatggtgatg atgaaattgt aagcacagat
     4621 ataaagttgg acccagagaa gctgacagca aaactcaagg agtacgggtt gaaaccaacc
     4681 cgccccgaca aaactgaagg accccttgtt atctctgaag acctggatgg cctgacattc
     4741 ctccggagaa ctgtgacccg tgatccagct ggctggtttg gaaaattgga acagagttca
     4801 attctcaggc aaatgtactg gaccaggggt cccaaccatg aagatccatt tgaaacaatg
     4861 ataccacact cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac
     4921 ggcccggcat tctacagcca actcagcaaa ttagtcattg cagagttgaa ggaaggtggc
     4981 atggattttt acgtgcccag acaagagcca atgttcaggt ggatgagatt ctcagatctg
     5041 agcacgtggg agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag
     5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt
     5161 tatggctctg gagcccgttg taggtgccgc cattgcggca cctgtagcgg gccaacaaaa
     5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtggag agtttacagt
     5281 atcccctaga aacgctccag gtgaaatact atggagcgcg cccctgggcc ccgatctaaa
     5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca
     5401 ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagttccacc
     5461 aaattttcca actgaaggct tgagccccag ccaggttact atgttccccc atatagtagt
     5521 agatgttagg caactagaac ctgtgttgat tcctttaccc gatgttagga ataatttcta
     5581 tcattataat caatcaaatg accccaccat taagttgata gcaatgttgt atacaccact
     5641 tagggctaat aatgctgggg atgatgtctt cacagtttct tgccgagttc tcacgagacc
     5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc
     5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt
     5821 ggaaaagttg ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggcaggtg
     5881 cacgactgac ggcgtgctcc taggcaccac tcaactgtct cctgtcaaca tctgtacctt
     5941 cagaggagat gtcacccaca tcacaggtag tcataactac acaatgaatt tggcttctca
     6001 aaattggaac aattatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt
     6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggct caacgcgcgg
     6121 ccacaaagcc acagtgtaca ctgggagcgc cgatttttct ccaaaactgg gtagagttca
     6181 atttgaaact gacacagacc atgattttga agccaaccaa aacacaaagt tcaccccagt
     6241 cggtgtcatc caagatggta gcaccactca ccgaaatgaa ccccagcagt gggtgctccc
     6301 aagttactca ggcagaaata ctcataatgt gcatctggcc cccgctgtag ctcccacttt
     6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
     6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc
     6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt
     6541 gtttgagtgt aagcttcata aatcaggcta tgtaacagtg gctcacactg gtcaacatga
     6601 tttggttatc ccccccaatg gctattttag gtttgattcc tgggtcaacc agttctacac
     6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc
     6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
     6781 gctggggcca tcaaccaaaa agttgagttt gaaaataaca aaaaattgca acaagcatcc
     6841 ttccaattta gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa
     6901 gcacaaattg aggctaccaa aaggctacaa caggaaatga tgaaagttaa gcaggcagtg
     6961 ctcctagagg gtgggttctc tgagacagat gcagcccgtg gggcaatcaa cgcccccatg
     7021 acaaaagctt tggactggag cgggacaagg tactgggcac ccgaagctag gactacaaca
     7081 tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaat
     7141 cttagggatg ctgtccctgc tcggggttcc tctagtaaat cttctaattc ttctactgct
     7201 acttctgtgt actcaaatca aactacttca acgagacttg gttctacagc tggttctggc
     7261 accagtgtct cgagcttccc gtcaattgca aggactagga gctgggttga ggatcaaagt
     7321 aggaatttgt cacctttcat gaggggggct cacaacatat cgttcgtcac cccaccatct
     7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagaggtttt ggactcctgg
     7441 actggcgctt tcaacacgcg caggcagcca ctcttcgccc atattcgtaa gcgaggggag
     7501 tcacgggcgt aa
//