Typing tool

Complete norovirus genomes

MH218591  GII.17
 GII.P16

Length: 7,535 | 3 CDS

ORF1: 5..5101
ORF2: 5082..6704
ORF3: 6704..7480
LOCUS       MH218591                7535 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_121_30_11_2014, complete genome.
ACCESSION   MH218591
VERSION     MH218591.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7535)
  AUTHORS   Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
            Hartley,J., Harris,K. and Breuer,J.
  TITLE     Norovirus transmission dynamics in a paediatric hospital using full
            genome sequences
  JOURNAL   Clin. Infect. Dis. (2018) In press
   PUBMED   29800111
  REMARK    Publication Status: Available-Online prior to print
REFERENCE   2  (bases 1 to 7535)
  AUTHORS   Brown,J.R., Roy,S., Shah,D., Williams,C.A., Williams,R., Dunn,H.,
            Hartley,J., Harris,K. and Breuer,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (17-APR-2018) Division of Infection and Immunity,
            University College London, 90 Gower St, London, London WC1E 6BT,
            United Kingdom
COMMENT     ##Assembly-Data-START##
            Assembly Method       :: CLC Genomics Workbench v. 10.1
            Sequencing Technology :: Illumina
            ##Assembly-Data-END##
FEATURES             Location/Qualifiers
     source          1..7535
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_121_30_11_2014"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="30-Nov-2014"
                     /note="genotype: GII.P16_GII.17"
     gene            5..5101
                     /gene="ORF1"
     CDS             5..5101
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17431.1"
                     /translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
                     KQPAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPAIRFEVNSGISGLPELTTVVQP
                     DATNTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI
                     SMAKVEMTPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLND
                     SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIG
                     KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGEYELQGPE
                     DIAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF
                     PKKEEASELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLS
                     TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE
                     VAKKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT
                     CPLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE
                     KAKRDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR
                     ASGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT
                     MEELKQAIKNVSIKRCQIIYNGSTFDLESDGKGKVLVEKVKSTSVQTNNELAGALHHL
                     RSARIRYYVKCIQEAVYSILQIAGAAFVTTRIARRMNIQELWSRPPLDQSEPETKEET
                     PKLEDDEFIISSKEIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK
                     YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT
                     GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS
                     LFITSTHVIPAGITEAFGVPIKQVQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT
                     VATVLIKRPTGELMPLAARMGTHATMRIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC
                     GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP
                     GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR
                     GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWN
                     GETFIGKLADQASKANLMYEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLS
                     TMVRCARAFGGLMEEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS
                     TQQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTS
                     QWNSITHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKE
                     YGLKPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPN
                     HEDPSETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP
                     MFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     mat_peptide     5..997
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     998..2095
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     2096..2626
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2627..3025
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     3026..3568
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3569..5098
                     /gene="ORF1"
                     /product="RdRp"
     gene            5082..6704
                     /gene="ORF2"
     CDS             5082..6704
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17432.1"
                     /translation="MKMASNDAAPSNDGATGLVPEINNETLPLEPVAGAAIAAPVTGQ
                     NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
                     VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
                     VRNTFFHYNNQPANRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
                     SVESKTKPFSLPILTISELTNSRFPVPVDSLFTAQNNNLNVQCQNGRCTLDGELQGTT
                     QLQPSGICAFRGKITADVRPSHDDRWHMQLTNLNGTPFDPTEDVPAPLGTPDFTGLLF
                     GVASQRNVQPNPNTTRAHEAVISTTSSQFVPKLGSINFGSTSEDFIVGQPTKFTPVGI
                     KIEDGHAFDQWTLPRYSGHLTLNMNLAPPVAPNFPGEQLLFFRSNVPCAGGISDGVID
                     CLLPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRTGYITVAHSGDYPLV
                     VPSNGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
     gene            6704..7480
                     /gene="ORF3"
     CDS             6704..7480
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17433.1"
                     /translation="MAGAFIAGLAGDMLTNTVGSLANAGANAITQKIDFENNKQLQSA
                     SFQHDKDMLQAQVAATKQLQADMIAIKQGILTAGGFSPTDAARGAVGAPMTKVLDWSG
                     TRYWAPNSTRTTGYSGQFTSAPVHMPTKTIQPTPVKRTQPLSSSSGSVYSLPTQSTAL
                     TKPSSGPSVSSASTQSTKLSSVSSMDRTANWVNQQRSLSPFMSGALNISHVTPPSSRA
                     SSSGTVSTVPKEVLDSWTPAFNTRRQPLFAHLRVRGESRV"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga
       61 caaggaaaaa tcttcgggtg aaggcttatt tacaaatatg tcttccaccc tcaagaaagc
      121 cctcggggcc cggcccaaac agcctgcccc gagggacaac tcacaaaagc ccccaagacc
      181 acctacgccc gagttggtta aaaggatacc ccctcctcca cctaatggcg aagaagaaga
      241 gccagccatt aggttcgagg ttaatagtgg aatctctggt ctacctgagc tcacgacagt
      301 tgtccaaccg gatgcgacca atacggcatt cagtgttcca ccgctgagct tgagagaaaa
      361 cagagaggcc aaggaaccgc tgactggagc aatattagag atgtgggatg gagagatata
      421 ccactatggt ttgtatgtgg agaaaggctt ggtgttgggt gtgcacaaac cacctgcagc
      481 tataagtatg gcaaaggtgg aaatgacacc gctgtcatta tactggcgtg ttgtgtacac
      541 ccctcaatac ctcatctccc ctgacactct caagaggctc aacggagagg cattccctta
      601 cactgccttt gacaacaact gttacgcctt ttgctgctgg gtgttagatc tcaatgactc
      661 gtggctcagc aggaggatgg tgcaaagaac aacaggtttc ttcagacctt accaggagtg
      721 gaacagaaaa cctttaccca ccatggatga ctcaaaaatc aagaaagtgg caaacatttt
      781 cttatgttca ttgtccacac tattcaccag acctataaaa gacatcatag gaaaaatcaa
      841 accactaaat atcttgaaca ttctggcaac gtgtgactgg acgttcgccg gaatcgtgga
      901 gtctctaata ctgcttgccg aactctttgg agttttctgg acacccccag atgtgtctgc
      961 tatgatcgcc cccttactcg gtgaatacga gctgcaaggg cctgaggata tcgccgttga
     1021 gctcgtacct gtagtaatgg gagggattgg tttggtgcta gggtttacca aagagaagat
     1081 tggcaaaatg ctatcctcag cagcatcaac gctcagggct tgcaaagatc ttggtgctta
     1141 tggtttagag atactcaaac tggtcatgaa atggtttttc ccaaagaaag aagaggccag
     1201 tgaattagcc atggtgaggg caatagagga tgctgtactg gatcttgaag caatagaaaa
     1261 caaccacatg acaactttgc tgaaagataa agacagcctt gcaacttaca tgaaaacact
     1321 agacctagag gaagaaaaag ccaggaagtt gtccacaaaa tctgcatctc ctgacatagt
     1381 tggaacaatc aatgccctgc tggcccgaat agcagcggct agatcattag tccacagagc
     1441 caaagaggag ctatctagca ggatcaggcc agttgttgtt atgatttctg gcaagccagg
     1501 gataggcaag acccacttag ccagggaggt ggcgaaaaag gtggcatcca ctctcacggg
     1561 agatcaaaga gttggactca taccaagaaa tggtgtagac cattgggatg catacaaagg
     1621 tgagagggtc gtgttgtggg acgactacgg catgagtaat cccatccatg atgctctgcg
     1681 catacaggaa ttggctgaca catgtcccct caccctaaat tgtgatagaa ttgaaaataa
     1741 gggaaaagtt tttgatagtg atgtcataat aatcacaaca aaccttgcca acccagctcc
     1801 ccttgactat gttaactttg aggcctgttc caggagaatt gacttcctgg tgtacgccga
     1861 agcaccagaa gtggaaaagg caaaacggga tttccctggt cagccagata tgtggaagga
     1921 tgctttcaaa gcagattttt ctcatatcaa gttacaactt gcgccgcagg gtggttttga
     1981 caagaatggc aacaccccgc atggtaaagg agtgatgaag accctcacca ctggttccct
     2041 gattgcccgt gcgtcaggtt tactgcatga gagaatggat gaatttgaac tccagggccc
     2101 cacagtcacc acttttaact tcgaccgaaa cagaatcacc gcctttagac aattggctgc
     2161 agagaacaag tatgggctgg tggacaccat gagagttggc aaccaactga aaggggtgaa
     2221 aactatggaa gaactcaagc aggcaatcaa gaatgtgtcc attaagaggt gccagatcat
     2281 ctataatggc tccacgtttg accttgagtc tgatggcaag ggcaaggttt tagtggagaa
     2341 ggtcaaaagc acctccgttc agaccaacaa cgagctagcc ggagctctac accacctcag
     2401 aagtgcccga atcaggtatt atgtcaaatg tatacaagaa gctgtctact ccatcttaca
     2461 aattgccggc gctgcgttcg tcaccacacg tattgcgcgc cgcatgaaca tacaggaact
     2521 ctggtcaagg ccaccattag accaaagtga gccagagact aaagaagaga cccccaagtt
     2581 agaagatgat gagttcatca tatcctccaa agaaatcaag gaggaaggga agaagggcaa
     2641 aaacaagact ggccgtggca agaaacatac tgcattctcg agcaagggct tgagcgatga
     2701 ggagtatgac gagtacaaga gaataagaga agagagaaac ggaaagtact ctatagagga
     2761 atatcttcaa gacagagaca ggtactatga ggaactcgcc attgccaagg ccacggaaga
     2821 agacttctgc gaggaagaag aaattaaaat ccgccagagg atcttccgcc ccaccagaaa
     2881 acaaagaaag gaagaaagag ccacgctagg gctagtgact ggttcagaga tcagaaagag
     2941 aaatcctgat gacttcaaac ctaaagggaa gttgtgggct gacgacaaca gaagtgttga
     3001 ctacaatgaa aagttggact ttgaggcccc cccaagtata tggtccagga ttgtgagctt
     3061 tggttccggt tggggcttct gggtgtcacc aagtctgttc ataacatcaa ctcatgtaat
     3121 ccctgcgggc ataacagagg catttggagt ccccatcaaa caagtccaag tccacaaatc
     3181 aggtgaattt tgccggttca gattcccaaa accaattaga ccagatgtga cggggatgat
     3241 cctggaagag ggtgcgccag aaggcactgt ggcaaccgtg ctgatcaagc gccccaccgg
     3301 agagctcatg cccctcgcag ccagaatggg aacacacgcg accatgagaa ttcagggccg
     3361 catggttggc gggcaaatgg gcatgctgct cactggttca aatgctaagg gtatggattt
     3421 gggaacaact cccggtgact gtggctgccc gtacatctac aaaaggggca atgattatat
     3481 agtcattgga gtgcacacag cagcagcccg tggtggaaac actgtcattt gcgccacaca
     3541 gggaagtgag ggtgaggcga ctctcgaggg cggagatgac aaaggaacat actgcggggc
     3601 acccatcctg ggccccggag gagcaccaaa attgagcacc aagaccaagt tttggaggtc
     3661 atcgaatacg cccctcccac cagggacgta tgaacctgcc tatcttggtg gtcgtgatcc
     3721 gcgtgtgaag ggtgggccct ccttgcaaca agttatgaga gatcaattga agcccttcac
     3781 tgagcccagg ggtaaacctc caagacctag tgtgctggag gcagctaaac aaaccatcat
     3841 caacgtcctc gagcaaactc tagatccccc acaaaagtgg acatacgcac aggcgtgtgc
     3901 ttcgcttgat aagaccacct ctagtgggca cccccaccac gcccgaaaga atgagttctg
     3961 gaatggtgag acctttattg gcaagttggc agaccaggca tcaaaagcaa acctgatgta
     4021 tgaggaaggg aaacacatga caccagtata cacagcagcc ctcaaggacg agctggttaa
     4081 aactgacaaa atctatggaa agatcaagaa gaggctgctt tggggctctg acttgtccac
     4141 aatggtccga tgtgctaggg cctttggtgg gcttatggaa gagatgaagg cacattgcat
     4201 atcactccca gtccgagtag gtatgaacat gaatgaggat ggcccaataa tatttgagaa
     4261 gcactccagg tataagtacc attatgatgc agattactcc cgttgggatt caacacaaca
     4321 aagagctgtt ctggcagctg ctttggaaat aatggtcaga ttctctgcag aaccacaatt
     4381 ggcacaaaca gtcgctgaag atctgctggc ccctagtgta gtagatgtgg gagatttcaa
     4441 aatctcaata aatgaggggc ttccttctgg tgtaccatgc acttcccagt ggaactctat
     4501 cacacattgg ctgttaactc tctgtgctct gtctgaagtc actaacctgt cccctgacat
     4561 cgtgcaggca aattccatgt tctcatttta cggtgatgat gagattgtca gcaccgatat
     4621 aaaattagac cctgaaaagt taaccaccaa attgaaggaa tatggtctga aaccaacccg
     4681 cccagacaaa actgagggac cactgattat cagcgaggat ctggacgggc tcaccttcct
     4741 ccgaagaaca gtttcccgtg acccagctgg ctggttcgga aagttggatc aaagctcaat
     4801 actgaggcaa atgtactgga ccagaggacc aaaccatgaa gaccccagtg aaacaatgat
     4861 acctcactct caaagaccca tacagctcat ggcactgctt ggtgaggctt ccctccatgg
     4921 accatctttc tacagcaaaa ttagcaaatt ggtcataact gaactcaaag aaggtgggat
     4981 ggatttttac gtgccgaggc aggaacctat gttcaggtgg atgaggtttt ctgacttgag
     5041 cacgtgggag ggcgatcgca atctggctcc cagctttgtg aatgaagatg gcgtcgaatg
     5101 acgccgctcc atctaatgat ggtgccacgg gcctcgtccc agagatcaac aacgagaccc
     5161 ttcctctgga accggtagcg ggtgcagcta ttgccgcgcc tgttactggc caaaataata
     5221 taattgatcc ctggattaga acaaattttg tacaagcacc caatggggag ttcacagtct
     5281 cacccagaaa ctctcctgga gaaattcttc taaatttgga attgggtcct gatttaaatc
     5341 catatctggc acatctatct agaatgtaca atgggtacgc tggtggcgta gaagttcaag
     5401 tcctcctcgc agggaatgcg ttcactgcag gaaagattct cttcgctgcc gttccaccaa
     5461 atttcccagt tgaattcttg agtcctgcac aaatcaccat gttgccacat ttgatagttg
     5521 atgttagaac ccttgaaccc atcatgatac cactccctga tgtcaggaac accttctttc
     5581 attacaataa tcaacctgcc aatcgcatgc gattggtagc catgttgtac acccccctga
     5641 gatctaatgg ttctggtgat gatgttttca cagtgtcatg tagagtgcta actagaccca
     5701 ccccagattt tgagtttaca tatttggtcc ccccttcggt agagtctaag actaagccct
     5761 tttctctgcc catactaacc atctctgaat tgaccaattc aagatttcct gtaccggtag
     5821 attcattgtt cacagcccaa aacaataatc ttaatgtcca gtgtcaaaat ggtcgctgca
     5881 ctttagatgg tgagttgcaa ggaaccactc agttgcaacc atcaggcatc tgcgccttca
     5941 gaggcaaaat aacggcagat gtacgtccaa gccacgatga caggtggcat atgcaactga
     6001 caaatctcaa tggaaccccc ttcgacccaa cagaggatgt accagctcca ctgggcaccc
     6061 cagatttcac aggccttctc ttcggagtgg caagccaaag aaatgtccaa cctaacccaa
     6121 acaccaccag ggcacatgaa gccgtgatat ccacaaccag ttcacagttt gtgccaaaat
     6181 taggatcaat caactttggt agcacaagtg aagatttcat tgtgggccag cccacaaaat
     6241 tcacaccagt tggcatcaag attgaggatg ggcatgcatt tgaccaatgg accctaccta
     6301 ggtattcagg ccatttaact ctcaatatga accttgcccc acctgttgcc ccaaatttcc
     6361 ctggtgaaca actactcttc tttaggtcaa atgtcccctg tgctggcggc attagtgatg
     6421 gtgtcatcga ctgcctgctg cctcaggagt ggatacagca cttctaccaa gagtctgctc
     6481 cctcccagtc cgatgtggcc ctgatcagat acgtcaaccc cgacacgggc cgcacacttt
     6541 tcgaggcgaa actccataga acaggttaca tcactgttgc tcattcaggt gattatcccc
     6601 ttgttgtccc ctccaatgga tactttagat ttgattcttg ggtgaaccaa ttttattcac
     6661 ttgcccccat gggaactggg aatgggcgca gacgggtgca gtaatggctg gagctttcat
     6721 agcaggtcta gcaggtgaca tgctcaccaa cacagttggc tcattggcaa acgccggggc
     6781 caatgccatc acacaaaaga tagactttga aaacaacaaa cagctccaat ctgcctcctt
     6841 ccaacatgac aaagacatgc tccaagcaca agtggctgcc accaagcagt tacaggctga
     6901 tatgatcgcc atcaagcagg ggatactgac cgcgggcggc ttttccccta ctgatgcggc
     6961 gagaggagca gtgggtgcac ccatgaccaa ggtcctcgac tggtctggta ctcgttactg
     7021 ggctccaaat tccacgagga caacaggtta ctcagggcag ttcacatcag caccagtgca
     7081 catgcccaca aaaaccattc agcctactcc tgttaaaagg actcaacctc tttcttcctc
     7141 ttcaggtagt gtctatagtc ttccaacaca gagcaccgcc ttgactaagc cctcttcagg
     7201 tccttctgtt tcttctgctt ctacacaatc tacaaaattg agttcagttt cttcaatgga
     7261 tagaacagca aattgggtaa atcagcaaag aagccttagc cccttcatga gtggtgcact
     7321 caacatatct catgtaacac ctccatcgag cagggcttcg agttcgggga cagtctcaac
     7381 tgtacccaaa gaagttttgg actcctggac acctgcattc aacacacgca gacagccgct
     7441 cttcgcacac ctcagagtga ggggggagtc acgtgtttag tgaaaagaat taattagttt
     7501 taattagatt ttgtttgaat ttaattggat ctttt
//