Typing tool

Complete norovirus genomes

MN308005  GII.4 Sydney
 GII.P31

Length: 7,403 | 3 CDS

ORF1: 1..4994
ORF2: 4975..6597
ORF3: 6597..7403
LOCUS       MN308005                7403 bp    RNA     linear   VRL 29-JUN-2021
DEFINITION  Norovirus GII isolate 074_GII.Pe_GII.4_Araguaina nonstructural
            polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
            genes, complete cds.
ACCESSION   MN308005
VERSION     MN308005.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE   1  (bases 1 to 7403)
  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 7403)
  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..7403
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="074_GII.Pe_GII.4_Araguaina"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="Brazil"
                     /collection_date="03-Jan-2011"
                     /note="genotype: GII.Pe_GII.4"
     gene            <1..4994
                     /gene="ORF1"
     CDS             <1..4994
                     /gene="ORF1"
                     /codon_start=3
                     /product="nonstructural polyprotein"
                     /protein_id="QED42403.1"
                     /translation="RALGARPKQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVV
                     SYSAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYH
                     YGLYVERGLILGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRLHCESFP
                     YTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVA
                     NIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGVFRTP
                     PDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRA
                     CKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKD
                     SLATYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPR
                     AVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWD
                     DYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVN
                     FEACSRRIDFLVYAEAPEVEKAKRDFPGQHDMWKNAFSPDFSHIKLSLATQGGFDKNG
                     NTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNQILAFRQLAAE
                     NKYGLMDTMKVGKQLKDVKTMSDLKQALKNIAIKKCQIVYDGGTYTLEADGKGSVKVD
                     KVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNI
                     QNLWSKPQVEDTEEMASKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSHRTPHHWAFS
                     SKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYSSMEVAIARATEEDFCEEEEAKI
                     RQRIFRPTRKQRKEERASFGLVTGSEIRKKNPEDFKPKGKLWADDDRSVDYNEKLNFE
                     APPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPHGAKEFFGVPIKQIQIHKLGEFCRL
                     RFPKPIRTGVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGG
                     QMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGS
                     EGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDP
                     RVKGGPSLQQVMTDHLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQA
                     CASLDKTTSSGHPHPMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPIYTGALKD
                     ELVKTDKVYGKVKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDG
                     PIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQVVAEDLLSPS
                     VMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFY
                     GDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDP
                     AGWFGKLEQSSILRQMYWTRGPNHADPFETMIPHSLRPIQLMSLLGEAALHGPAFYSK
                     LSKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLNMWEGDRNLAPSFVNEDGVE"
     mat_peptide     <1..881
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     882..1979
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     1980..2516
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2517..2918
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     2919..3461
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3462..4991
                     /gene="ORF1"
                     /product="RdRp"
     gene            4975..6597
                     /gene="ORF2"
     CDS             4975..6597
                     /gene="ORF2"
                     /note="major capsid protein"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="QED42404.1"
                     /translation="MKMASSDANPSDGSAANLVPEINNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIVVDVKQLEPVLIPLPD
                     VRNNFYHYNQSNDHTIRLIAMLYTSLRPNNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPVLTVERMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTPDGVLLGTT
                     QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
                     TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGKHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
     gene            6597..7403
                     /gene="ORF3"
     CDS             6597..7403
                     /gene="ORF3"
                     /note="minor structural protein; small basic protein"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="QED42405.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
                     APMTKALDWSGTRYWAPDARTTTYNAGRFSTPEPSGALPGRANLRDAVPARGSSSKSS
                     NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN      
        1 agcgggccct cggggcgcgg cctaaacagc cgcccccgaa ggaaatacca cccagacccc
       61 cgcgaccacc cacaccagaa ttggtcaaaa agatccctcc tcccccaccc aacggggagg
      121 atgaactagt ggtctcttac agcgccaaag atggcgtttc cggactgcct gagctcacca
      181 ctgtcagaca accggaagaa accaacacgg cgttcagtgt ccccccactc aaccaaaggg
      241 agagcaggga cgccaaggag ccactaactg gaacaattat tgaaatgtgg gatggagaaa
      301 tctaccatta cggcctgtac gtggaacggg gtcttatact tggtgtgcac aagccaccgg
      361 cagccattag ccttgccaag gtcgagctag caccgctctc tttgttctgg agacctgtat
      421 acacccccca gtatctcatc tctccggaca ctcttaggag attgcattgt gagtcattcc
      481 cctacactgc atttgacaac aattgctacg ccttttgttg ttgggtatta gacctaaacg
      541 actcatggct aagcaggaga atgattcaga gaacaacagg tttcttcagg ccgtaccagg
      601 attggaacag gaaacccctc cccactatgg atgattccaa attaaagaag gtagccaaca
      661 tattcttgtg cactttgtct tcactattca ccagacccat taaggacata atagggaagt
      721 tgaaacctct taacatcctt aacattctgg ctacatgtga ttggaccttc gcaggcatag
      781 tggaatcttt aatactctta gcagaactct ttggagtttt ccggacaccc ccagatgtgt
      841 ctgcgatgat cgcccccttg ctaggtgatt atgaactgca aggacctgag gaccttgcag
      901 tggagctggt cccaatagtg atggggggga taggtttggt gctaggattt accaaagaga
      961 aaattggaaa gatgctatca tccgctgcat ccactttaag agcttgtaaa gaccttggtg
     1021 catacggatt ggaaatctta aaattggtca tgaagtggtt cttcccaaag aaagaggagg
     1081 caaatgaact ggctatggtg agatccatcg aggacgcagt gctagacctt gaggcaattg
     1141 aaaacaacca catgaccacc ctactcaaag acaaagacag cttggcaacc tacatgagaa
     1201 cccttgacct tgaggaggag aaagctagaa aactctcaac caaatccgcc tcacccgata
     1261 ttgtgggcac aatcaactct cttctggcaa gaatcgctgc tgcacgctcc ctagtgcatc
     1321 gggcgaaaga agagctctcc agcaggccga gagctgtcgt tgtgatgata tcgggaagac
     1381 cagggatagg gaaaactcat cttgccaggg agctggccaa gaagatcgcg gcctccctca
     1441 caggggacca gcgtgtgggt cttatcccac gcaatggtgt cgaccactgg gacgcataca
     1501 agggcgaaag agttgtccta tgggacgact atggaatgag caaccccatc catgacgccc
     1561 tcaggttgca ggagcttgct gacacttgcc ccctcacgct aaattgtgac agaattgaga
     1621 acaaagggaa agtctttgac agtgatgcca taattatcac caccaatctg gccaacccag
     1681 caccactgga ttatgtcaac tttgaagcgt gctcgagacg tattgacttc ctcgtgtacg
     1741 cagaggcccc tgaggtggag aaggcaaagc gcgacttccc aggtcaacat gacatgtgga
     1801 agaacgcttt cagtcctgac ttctcacaca taaagctgtc gttggctaca cagggtggtt
     1861 ttgacaagaa cggcaacacc ccgcatggaa aaggggtcat gaagaccctc accactggct
     1921 ccctcatcgc ccgagcatca gggttactcc atgagaggct agatgaatat gaactgcaag
     1981 gcccagccct caccaccttc aactttgacc gcaaccagat acttgctttt agacagcttg
     2041 ctgctgaaaa caagtatggg ctgatggaca caatgaaagt tggaaaacag ctcaaggatg
     2101 tcaagaccat gtcagacctc aaacaagcac tcaagaacat cgcgatcaag aagtgccaga
     2161 tagtgtacga tggtggcacc tacacacttg aggctgatgg caagggtagt gtgaaagttg
     2221 acaaagtgca gagtgccact gtgcagacca acaatgaact agccggtgcc ctacaccacc
     2281 taaggtgcgc tagaatcaga tactatgtta agtgcgtcca ggaggcactg tattccatca
     2341 tccaaatcgc tggggctgca ttcgtcacca cgcgcatcgc taagcgcatg aatatacaga
     2401 atctctggtc caagccacag gtggaagaca cagaagagat ggccagcaaa gatggttgcc
     2461 taaaacccaa agatgatgaa gaatttgtcg tctcatccga cgacatcaaa actgagggca
     2521 agaaagggaa gaacaagtcc catcgtactc ctcatcactg ggccttttca agtaaagggc
     2581 tcagtgatga ggagtacgat gagtacaaga gaatcagaga agaaaggaat ggtaagtact
     2641 ccatagaaga gtaccttcag gacagagaca ggtactcttc tatggaggtg gccattgcca
     2701 gggcaaccga agaggacttc tgtgaagaag aagaggccaa aatccggcag agaattttta
     2761 gaccaacaag gaaacaacgc aaagaagaga gggcctcttt cggcttggtc acaggctctg
     2821 aaatcaggaa gaaaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg
     2881 acagaagtgt tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc
     2941 ggatagtcaa ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat
     3001 caacccatgt cataccccac ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc
     3061 agatacacaa attgggtgaa ttctgccggt tgagattccc aaagccaatc agaactggtg
     3121 tgacgggcat gattctagaa gaaggtgcgc ccgagggaac cgtggccaca ctgctcatca
     3181 agaggccaac tggagagctc atgcctctgg cagccagaat gggaacccat gcaaccatga
     3241 aaattcaggg gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca
     3301 agagtatgga cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg
     3361 ggaatgacta cgtggtcata ggagtccata cggccgctgc ccgtggagga aacactgtca
     3421 tatgtgccac tcaggggagt gagggagaag ccacacttga aggaggtgac agtaaaggga
     3481 catactgtgg cgcaccaatc ctgggcccag ggagcgctcc gaagctcagt accaagacta
     3541 agttttggag atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg
     3601 gtggcaaaga ccctagagtc aaaggtggcc cttcattgca acaagttatg acggaccacc
     3661 tgaagccatt cacagaaccc agaggcaaac caccaagacc aaatgttttg gaggctgcca
     3721 agaaaaccat catcaatgtc cttgagcaaa caattgatcc acctcaaaaa tggtcatttg
     3781 cgcaagcttg cgcatccctt gacaaaacca cctccagcgg ccacccacac cccatgcgga
     3841 aaaacgattg ttggaatggg gagtccttca cgggaaaatt ggctgatcaa gcctccaagg
     3901 ccaatctaat gtttgaggag ggaaagaaca tgactccaat ctacacaggt gcacttaaag
     3961 atgagttggt aaagaccgat aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt
     4021 cagatctggc gaccatgata cggtgcgccc gagcttttgg aggccttatg gatgaactca
     4081 aggcacactg tgtcacactt cctgtcagag ttggtatgaa catgaatgag gatggcccca
     4141 tcatctttga gaagcactcc agatatagat atcactatga tgctgactat tcccggtggg
     4201 actcaacaca acaaagggat gtactagcag cagcactaga aatcatggtt aagttctctc
     4261 cagaaccaca cctggcccag gtagttgcag aagacctcct ttcccctagc gtaatggatg
     4321 taggtgactt tcaaatatca ataagtgagg gtcttccctc tggggtacct tgtacctccc
     4381 agtggaattc catcgcccac tggctcctca ctctgtgtgc actctctgaa gtcacggacc
     4441 tgtcccctga tatcattcag gccaactccc ttttctcctt ctatggtgat gatgagattg
     4501 taagcacaga tataaagttg gacccagaga agctgacagc aaaactcaag gagtacgggc
     4561 tgaaaccaac ccgccccgac aaaactgaag gaccccttgt tatctctgaa gacctggatg
     4621 gcctgacatt ccttcggaga actgtgaccc gtgatccagc tggctggttt ggaaaattgg
     4681 agcaaagttc aattctcaga caaatgtact ggaccagggg tcccaaccat gcagatccat
     4741 ttgaaacaat gataccacac tccttaagac ccatacaatt gatgtccttg ctgggcgagg
     4801 ctgcactcca cggcccggca ttttacagca aacttagcaa attagtcatt gcagagttga
     4861 aggaaggtgg catggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat
     4921 tctcagatct gaacatgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag
     4981 atggcgtcga gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagagatc
     5041 aacaatgagg ttatggctct ggagcccgtt gttggtgccg ccattgcggc acctgtagcg
     5101 ggccaacaaa atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga
     5161 gagtttacag tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccttgggc
     5221 cctgacctaa atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt
     5281 tttgaagtgc aggtaattct cgcggggaac gcgttcaccg ccgggaagat catatttgca
     5341 gcagtcccac caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc
     5401 catatagtag tagatgttaa gcaactagaa cctgtgttga ttcccttacc cgatgttagg
     5461 aataatttct atcattacaa tcaatcaaat gatcacacta ttaggttgat agcaatgttg
     5521 tatacatcac ttaggcctaa taatgcgggg gatgatgtct tcacagtttc ttgccgagtt
     5581 ctcacgagac catcccccga ttttgatttc atatttctag tgccacccac agttgagtca
     5641 agaactaaac cattctctgt cccagtttta actgttgaga gaatgaccaa ttcaagattc
     5701 cccattcctt tggaaaagtt gttcacgggt cccagcagtg cctttgttgt ccaaccacaa
     5761 aacggcaggt gcacgcctga tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac
     5821 atctgtacct tcagaggaga tgtcacccat atcacaggta gtcgtaacta cacaatgaat
     5881 ttggcgtctc aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga
     5941 actccagact ttgtggggaa gattcaaggt gtactcaccc aaaccacaag gacagatggc
     6001 tcaacacgcg gtcacaaagc cacagtgtac actgggagcg ccgacttttc tccaaaactg
     6061 ggtagagttc aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag
     6121 ttcaccccag ttggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag
     6181 tgggtgctcc caagctactc aggcagaaat actcccaatg tgcatctggc ccccgctgta
     6241 gcccccactt ttccgggtga gcaacttctc ttctttagat ccaccatgcc cggatgcagc
     6301 gggtacccca acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctac
     6361 caagaggcag ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca
     6421 ggtagggttt tgtttgagtg taagcttcat aaatcaggct atgttacagt ggctcacact
     6481 ggcaaacatg atttggttat cccccccaat ggttatttta ggtttgattc ctgggtcaac
     6541 cagttttaca cgcttgcccc catgggaaat ggaacggggc gtagacgtgc agtataatgg
     6601 ctggagcttt ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta
     6661 tcaatgctgg ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc
     6721 aacaagcatc cttccaattt agcagcaatc tacaacaggc ttcctttcag catgacaaag
     6781 agatgctcca agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta
     6841 agcaggcaat gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca
     6901 acgcccccat gacaaaagct ttggactgga gcgggacaag gtactgggct cccgatgcta
     6961 ggactacaac atacaatgca ggccgcttct ccacccccga accatcgggg gcactgccag
     7021 gaagagctaa tctcagggat gctgtccctg ctcggggttc ctccagtaag tcttctaatt
     7081 cttctactgc tacttctgtg tactcaaatc aaactacttc aacgagactt ggttctacag
     7141 ctggttctgg taccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg
     7201 aggatcaaag taggaatttg tcacctttca tgaggggggc ccacaacata tcgtttgtca
     7261 ccccaccatc tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagaggttt
     7321 tggactcctg gactggcgct ttcaacacgc gcaggcagcc actcttcgct cacattcgta
     7381 agcgagggga gtcacgggcg taa
//