Typing tool

Complete norovirus genomes

MH979230  GII.4 Sydney
 GII.P31

Length: 7,516 | 3 CDS

ORF1: 5..5107
ORF2: 5088..6710
ORF3: 6710..7516
LOCUS       MH979230                7516 bp    RNA     linear   VRL 27-NOV-2018
DEFINITION  Norovirus GII isolate Hu/GIIPe-GII.4 sydney/CGMH1411/2018/TW,
            complete genome.
ACCESSION   MH979230
VERSION     MH979230.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7516)
  AUTHORS   Lee,C.C., Chen,S.Y., Tsai,C.N. and Chiu,C.H.
  TITLE     Virological and Clinical Characteristics of Viral Shedding in
            Children with Norovirus Gastroenteritis
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 7516)
  AUTHORS   Lee,C.C., Chen,S.Y., Tsai,C.N. and Chiu,C.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (25-SEP-2018) Graduate Institute of Clinical Medical
            Science, College of Medicine, Chang Gung University, 259, Wen-Hwa
            1st Road, Kwei-Shan, Taoyuan County 333, Taiwan
COMMENT     ##Assembly-Data-START##
            Sequencing Technology :: Sanger dideoxy sequencing
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..7516
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="Hu/GIIPe-GII.4 sydney/CGMH1411/2018/TW"
                     /isolation_source="feces"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="Taiwan"
                     /collection_date="20-Feb-2018"
                     /note="genotype: GIIPe-GII.4 sydney"
     gene            5..5107
                     /gene="ORF1"
     CDS             5..5107
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AYI50407.1"
                     /translation="MKMASNDASAAAVANSNNDIAKSSSDDVFSNMAVTFKRALGVRP
                     KQPPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPE
                     ETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAIS
                     LAKVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDS
                     WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
                     LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
                     LAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
                     KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLST
                     KSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLAREL
                     AKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
                     PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVFAEAPEVEK
                     AKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
                     SGLLHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTM
                     SDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLR
                     CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKGGC
                     LKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
                     KYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERTSLGLV
                     TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSP
                     SLFITSTHVIPQGAKEFFGVPIKQTQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
                     TVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
                     CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILG
                     PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
                     RGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACTSLDKTTSSGHPHHMRKNDCW
                     NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDL
                     ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSPVG
                     LNTTKGCASSSTRNHGLSSLQNHTWAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPC
                     TSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKL
                     KEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRG
                     PNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQ
                     EPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     mat_peptide     5..994
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     995..2092
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     2093..2629
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2630..3028
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     3029..3571
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3572..5104
                     /gene="ORF1"
                     /product="RdRp"
     gene            5088..6710
                     /gene="ORF2"
     CDS             5088..6710
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AYI50408.1"
                     /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTPGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
                     TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
                     GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFESKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
     gene            6710..7516
                     /gene="ORF3"
     CDS             6710..7516
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AYI50409.1"
                     /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
                     APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
                     NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRSLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN      
        1 gtgaatgaag atggcctcta acgacgcttc cgctgccgct gttgccaaca gcaacaacga
       61 catcgcaaaa tcttcaagtg acgatgtgtt ttctaacatg gctgtcactt ttaagcgggc
      121 cctcggggtg cggcctaaac agccgccccc gaaggaaata ccacccagac ccccgcgacc
      181 acccacacca gaactggtca aaaagatccc tcctccccca cccaacgggg aagatgaact
      241 agtggtttct tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag
      301 acaaccggaa gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag
      361 ggacgccaag gagccactaa ccggaacaat cattgaaatg tgggatggag aaatctacca
      421 ttacggcctg tacgtggaac gaggtcttat acttggtgtg cacaagccac cagcagccat
      481 tagcctcgcc aaggtcgagc tggcaccgct ctctttgttc tggagacctg tgtacacccc
      541 ccagtacctt atctctccag acactcttag gagattacat ggagagtcat tcccctacac
      601 tgcatttgac aacaattgct acgccttttg ttgttgggta ttagacctaa acgactcatg
      661 gctaagcagg agaatgattc agagaacaac aggcttcttc aggccgtacc aggattggaa
      721 caggaaaccc ctccccacta tggatgattc caaattaaag aaggtagcca acatattctt
      781 gtgcactttg tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc
      841 tctcaacatc cttaatattc tggctacatg tgattggacc ttcgcaggca tagtggaatc
      901 cttaatactc ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat
      961 gatcgccccc ttgctaggtg attatgaact gcaaggaccc gaggaccttg cagtggaact
     1021 ggtcccaata gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaatcgg
     1081 aaagatgctg tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg
     1141 actggaaatc ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga
     1201 actggctatg gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa
     1261 ccacatgacc accctgctca aagacaaaga cagcttgaca acctacatga ggacccttga
     1321 ccttgaggag gagaaagcca gaaaactttc aaccaaatct gcctcacccg atattgtggg
     1381 cacaatcaac tctcttctgg caagaatcgc tgctgcacgc tccctagtgc accgggcgaa
     1441 agaagagctc tccagcaggc cgagacctgt cgttgtaatg atatcgggaa gaccagggat
     1501 aggaaaaact caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga
     1561 ccagcgtgtg ggccttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga
     1621 aagagttgtc ctatgggacg actatgggat gagcaacccc atccatgatg ccctcaggtt
     1681 acaggagctt gctgacactt gccccctcac gctaaattgt gacagaattg agaacaaagg
     1741 aaaagtcttc gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact
     1801 ggattatgtc aactttgaag cgtgctcgag acgcattgac ttcctcgtgt tcgccgaagc
     1861 ccctgaggtg gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc
     1921 tttcagtcct gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa
     1981 gaacggcaac accccgcatg gaaaaggggt catgaagacc ctcaccactg gctccctcat
     2041 cgcccgagca tcagggttac tccatgagag gctagatgaa tatgaattgc aaggcccagc
     2101 cctcaccact ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga
     2161 aaacaagtat gggctgatgg acacaatgag agttggaaaa cagctcaagg atgtcaagac
     2221 tatgtcagac ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta
     2281 caatggtggc acctacacac ttgaggctga tggtaagggc agtgtgaaag ttgacaaagt
     2341 gcaaagtgcc actgtgcaga ccaacaatga attggccggt gccctacacc atctaaggtg
     2401 cgctagaatc aggtactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat
     2461 cgctggggcc gcattcgtca ccacgcgcat cgctaagcgc atgaatatac agaatctctg
     2521 gtccaagcca caggtggaag acacagaaga gatggccaac aaaggtggtt gcctaaaacc
     2581 caaagatgat gaagagtttg tcgtttcatc cgacgacatc aaaactgagg gcaagaaagg
     2641 gaagaacaag tccggccgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga
     2701 tgaggagtac gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga
     2761 agagtacctt caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga
     2821 agaggacttc tgtgaagaag aagaggccaa aatccggcag aggattttca gaccaacaag
     2881 gaaacaacgc aaagaagaga ggacctctct cggcttggtt acaggctctg aaatcaggaa
     2941 gagaaaccca gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt
     3001 tgactacaat gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa
     3061 ctttggttca ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt
     3121 cataccccaa ggtgcaaaag agttcttcgg agtccctatc aagcaaaccc agatacacaa
     3181 gtcaggtgaa ttctgccgat tgagattccc aaagccaatc agaaccgatg tgacgggcat
     3241 gattctagaa gaaggtgcac ccgaggggac cgtggccaca ctgctcatca agagaccaac
     3301 tggagagctc atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg
     3361 gcgcacagtt ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga
     3421 cctaggcaca acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta
     3481 cgtggtcata ggggtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac
     3541 ccaggggagt gagggagagg ccacacttga aggaggtgac agtaaaggga catactgtgg
     3601 cgcgccaatc ttgggcccag ggagcgctcc gaagctcagc accaagacta agttttggag
     3661 atcatccaca acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga
     3721 ccctagagtc aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt
     3781 cacagaaccc agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat
     3841 catcaatgtc cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg
     3901 cacgtccctt gacaaaacca cctccagcgg ccacccgcac cacatgagga aaaacgactg
     3961 ttggaatggg gagtccttca caggaaaatt ggctgaccaa gcctccaagg ccaacctaat
     4021 gtttgaagag ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt
     4081 aaagaccgat aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt cagatctggc
     4141 gaccatgata cggtgcgccc gagcttttgg aggcctcatg gatgaactca aagcacactg
     4201 tgtcacactc cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatcttcga
     4261 gaagcactcc agatatagat atcactatga tgctgactat tccccggtgg gactcaacac
     4321 aacaaaggga tgtgctagca gcagcactag aaatcatggt ttaagttctc tccagaacca
     4381 cacctgggcc cagatagttg cagaagacct cctctcccct agcgtgatgg atgtgggtga
     4441 ctttcaaata tcaataagtg agggcctccc ctctggggtg ccttgtacct cccagtggaa
     4501 ttccatcgcc cactggctcc tcactctgtg tgcactctct gaagtcacgg acctgtcccc
     4561 tgatatcatt caggccaact cccttttctc cttctatggt gatgatgaga ttgtaagcac
     4621 agacataaag ttggacccag agaagctgac agcaaaactc aaggagtacg ggctgaaacc
     4681 aacccgcccc gacaaaactg aaggacccct tgttatctct gaagacctgg atggtttgac
     4741 attcctccgg agaactgtga cccgtgatcc agctggctgg tttggaaaac tggaacaaag
     4801 ttcaattctt aggcaaatgt actggaccag gggtcccaac catgaagatc catttgaaac
     4861 aatgatacca cactcccaaa gacccataca attgatgtcc ttgctgggcg aggctgcact
     4921 ccacggcccg gcattctaca gcaaaattag caaattagtc attgcagagt tgaaggaagg
     4981 tggcatggat ttttacgtac ccagacaaga gccaatgttc agatggatga gattctcaga
     5041 tctgagcacg tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt
     5101 cgagtgacgc caacccatct gatgggtccg cagccaacct cgtcccagag gtcaacaatg
     5161 aggttatggc tctggagccc gttgttggtg ccgccattgc ggcacctgta gcgggccaac
     5221 aaaatgtaat tgacccctgg attagaaaca attttgtaca agcccctggt ggagagttta
     5281 cagtgtcccc tagaaacgct ccaggtgaaa tactatggag cgcgcccttg ggccctgatc
     5341 taaatcccta cttatctcat ttggccagaa tgtacaatgg ttatgcaggt ggttttgaag
     5401 tgcaggtaat tctcgcgggg aacgcgttca cgcccgggaa ggttatattt gcagcagtcc
     5461 caccaaattt tccaactgaa ggcttgagcc ccagccaggt cactatgttc ccccatatag
     5521 tagtagatgt taggcaacta gaacctgtgt tgattccctt acccgatgtt aggaataatt
     5581 tctaccatta caatcaatca aatgacccca ccattaagtt gatagcaatg ttgtatacac
     5641 cacttagggc taataatgct ggggatgatg tcttcacagt ttcttgccga gttctcacga
     5701 gaccgtcccc cgattttgac ttcatatttc tagtgccacc cacagttgag tcaagaacta
     5761 aaccattctc tgtcccagtt ttaactgttg aggagatgac caattcaaga ttccctattc
     5821 ctttggaaaa gttgttcacg ggtcccagca gtgcctttgt tgttcaacca caaaacggta
     5881 ggtgcacgac tgatggcgtg ctcctaggca ccacccaact gtctcctgta aacatctgca
     5941 ccttcagagg agatgtcacc catatcacag gtagtcataa ctacacaatg aatttggctt
     6001 ctcaaaattg gagcaattac gacccaacag aagaaattcc agcccctcta gggactccag
     6061 actttgtggg gaagattcaa ggcatgctta cccaaaccac aaggacagat ggctcaacac
     6121 gcggccacaa agccacagtg tacactggga gcgccgactt tgctccaaaa ctgggtagag
     6181 ttcaatttga aactgacaca aacaatgatt ttgaagctaa ccaaaacaca aagttcaccc
     6241 cagttggtgt catccaagat ggtggcacca cccaccgaaa tgaaccccaa cagtgggtgc
     6301 tcccaagtta ctcaggcagg aacaccccta atgtgcatct ggcccccgct gtagccccca
     6361 cttttccggg tgagcaactc ctcttcttca gatccaccat gcccggatgc agcgggtacc
     6421 ccaacatgga tttggattgt ctgctccccc aggaatgggt gcagtacttc taccaagagg
     6481 cagccccagc acaatctgat gtggctctgc taagatttgt gaatccagac acaggtaggg
     6541 ttttgtttga aagtaagctt cataaatcag gctatgttac agtggctcac actggccaac
     6601 atgatttggt tatccccccc aatggttatt ttaggtttga ttcctgggtc aaccagtttt
     6661 acacgcttgc ccccatggga aatggagcgg ggcgtagacg tgcactataa tggctggagc
     6721 tttctttgct ggattggcat ctgatgtcct tggctctgga cttggttccc ttatcaatgc
     6781 tggggctggg gccatcaacc aaaaagttga atttgaaaat aacagaaaat tgcaacaagc
     6841 atccttccaa tttagcagca atctacaaca ggcttccttt caacatgaca aagagatgct
     6901 ccaagcacaa attgaggcta ccaaaaggtt acaacaggaa atgatgaaag ttaagcaggc
     6961 aatgctccta gagggtgggt tctctgagac agatgcagcc cgcggggcaa tcaacgcccc
     7021 tatgacaaaa gctttggact ggagcgggac aaggtactgg gctcctgatg ctaggactac
     7081 aacatacaat gcaggccgct tttccacccc ccaaccatcg ggggcgctgc caggaagagc
     7141 taatcttagg gatgctgtcc ctgctcgggg ttcctctagt aagtcttcta attcttctac
     7201 tgctacttct gtgtactcaa atcaaactat ttcaacgaga cttggttcta cagctggttc
     7261 tggtaccagt gtctcgagct tcccgtcaac tgcaaggact aggagctggg ttgaggatca
     7321 aagtaggagt ttgtcacctt tcatgagggg ggcccacaac atatcgttcg tcaccccacc
     7381 atctagcaga tcctctagcc aaggcacagt ctcaaccgtg cctaaagaga ttttggactc
     7441 ctggactggc gctttcaaca cgcgcaggca gccactcttc gctcacattc gtaagcgagg
     7501 ggagtcacgg gtgtaa
//