Typing tool

Complete norovirus genomes

MH218651  GII.13
 GII.P21

Length: 7,484 | 3 CDS

ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7444
LOCUS       MH218651                7484 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_183_23_09_2015, complete genome.
ACCESSION   MH218651
VERSION     MH218651.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7484)
  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 7484)
  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..7484
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_183_23_09_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="23-Sep-2015"
                     /note="genotype: GII.P21_GII.13"
     gene            5..5104
                     /gene="ORF1"
     CDS             5..5104
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17611.1"
                     /translation="MKMASNDASAAAAANSNNDNAKSSSDGVLSNMAVTFKRALGARS
                     KQPPPRDTPPRPPRPPTPELVKQIPPPPPNGEDEPTISYSVKEGVSGLPELSTVTQPE
                     ESSTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
                     LAKVELSPLSLYWRPVYTPQYLISPDTLRKLHGETFPYTAFDNNCYAFCCWVLDLNDS
                     WLSRRMVQRTTGFFRPYQDWNRKPLPTMDDSKVKKVANVLLCALSSLFTRPIKDIIGK
                     LKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
                     LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
                     KKDETNELAMVRSIEDAVLDLEAIENNHMTALLKDKDSLAAYMRTLDLEEEKARKLST
                     KSASPDIVGTINALLARIAAARSLVHRAKEELSSRLRPVVVMISGRPGIGKTHLAREL
                     AKKIASSLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
                     PLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEK
                     AKRDFPGQPDMWKDTFKPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
                     SGLLHERLDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTT
                     TELKQVLKNITVRKCQLVYGGSTYTLESDGKGNVCVERVKNTSVQTNNELSGVLHHLR
                     CARIRYYVKCVQEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQVEDLEETSNKEGC
                     SKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
                     KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
                     TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLDFEAPPSIWSRIVNFGSGWGFWVSP
                     SLFITSTHVIPKGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
                     TVATLLIKRPTGELMPLAARMGTHATMKIQGRAVGGQMGMLLTGSNAKSMDLGTTPGD
                     CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAMLEGGDDKGTYCGAPILG
                     PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP
                     RGKPPKPSVLEAAKKTIINVLEQTIDPPQRWTYAQACASLDKTTSSGHPHHMRKNECW
                     NGEAFTGRLADQASKANLMYEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
                     STMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
                     STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCT
                     SQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTVKLK
                     EYGLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
                     NHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQE
                     PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     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..5101
                     /gene="ORF1"
                     /product="RdRp"
     gene            5085..6713
                     /gene="ORF2"
     CDS             5085..6713
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17612.1"
                     /translation="MKMASNDAAPSNDGAASLVPEAINETMPLEPVAGASIAAPVAGQ
                     TNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
                     VEVQVLLAGNAFTAGKILFAAIPPNFPVDMISPAQITMLPHLIVDVRTLEPIMIPLPD
                     VRNVFYHFNNQPQPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFIYLVPP
                     SVESKTKPFTLPILTISELTNSRFPIPIEQLYTAPNENNVVQCQNGRCTLDGELQGTT
                     QLLSSAVCSYRGRTVANSGDNWDQNLLQLTYPSGATYDPTDEVPAPLGTQDFSGILYG
                     VLTQDNVSESTGEAKNAKGVYISTTSGRFTPKIGTIGLHSITENVHPNQQSRFTPVGV
                     AQNENTPFQQWVLPHYAGALALNTNLAPAVAPTFPGEQLLFFRSRVPCVQGLRGQDAF
                     IDCLLPQEWVNHFYQEAAPSQADVALIRYVNPDTGRTLFEAKLHRSGFITVSHTGTYP
                     LVVPPNGHFRFDSWVNQFYSLAPMGTGNGRRRVQ"
     gene            6713..7444
                     /gene="ORF3"
     CDS             6713..7444
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17613.1"
                     /translation="MAGAFIAGLAGDMLTSAVGSLTSAGANAINQKLNFDYNKQLQNA
                     SFQHDKEMLQAQIDATKKLQSEMIAIKHGVLTAGGFSPADAARGAVNAPMTRVLDWSG
                     TRYYAPNSVQTTSYSGQFTPSPVHRAQVKSPSNSSQRTAAPSSIRSLSTQSTSLGSTS
                     SGGSSTASSSSRTADWVQQQRALSPYMQGALQTAYVTPPSSRASSMSSVSTVPKGVLD
                     SWTPVFNTRRQPLFAHLRKRGESQA"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgcttc tgctgccgct gctgccaaca gcaacaacga
       61 caacgcaaaa tcttcaagtg acggtgtatt atccaatatg gctgtcactt ttaaacgagc
      121 cctcggggcg cggtccaaac aaccgccccc gagggacaca ccaccaagac ccccgagacc
      181 acccacacca gagttggtta aacaaatccc ccctccccca cccaacgggg aggacgaacc
      241 aaccatttct tacagtgtca aagagggtgt ttctggtttg cctgaactct caacggtcac
      301 ccaaccggaa gagagctcta cggcattcag cgttccccct cttagtcaaa gggagaacag
      361 agatgcaaag gaacccctaa ctggaaccat cctggagatg tgggacgggg agatctacca
      421 ttatggctta tatgtggaac gaggactagt gctcggtgta cacaaaccac cagcagccat
      481 cagccttgcc aaggttgaac tgtccccctt gtctttgtac tggagacctg tgtacacccc
      541 acagtacctc atttcccctg acactctaag aaaattacat ggggagacgt tcccttacac
      601 agcctttgac aacaactgtt atgccttctg ctgttgggtt cttgacttga acgattcatg
      661 gctgagcaga aggatggtac agaggacaac gggcttcttt cggccctacc aggactggaa
      721 cagaaaaccc ctccccacaa tggacgactc caaagtgaag aaggtggcca atgttctcct
      781 ctgtgctctc tcatcattgt tcactagacc aattaaggac attattggaa agttgaaacc
      841 cctaaatatc ctcaacatcc tagccacatg tgattggact tttgcaggca tagtagagtc
      901 cctgatcctc ttggctgaac tgtttggagt tttctggaca cccccagatg tgtctgcaat
      961 gatcgctccc ttactgggtg attacgagct acaggggcct gaggacctcg ctgtggaact
     1021 cgttcctgta gtaatgggag ggataggttt ggtgctggga ttcaccaaag agaaaattgg
     1081 caaaatgctt tcatctgctg cttcaaccct gagggcatgc aaagatctcg gagcttatgg
     1141 gctggagata ctcaaattgg tcatgaagtg gtttttccca aagaaagacg agacaaacga
     1201 gttggcaatg gtgagatcca tcgaggacgc agtgttggac ctcgaggcca ttgagaacaa
     1261 ccatatgaca gctctactca aggataagga cagccttgct gcctacatga ggactcttga
     1321 cttggaggag gagaaggcga ggaagttgtc caccaagtct gcatcaccgg acatcgtggg
     1381 cacgatcaat gccctactgg caaggattgc agctgcccgg tctctagtac acagggctaa
     1441 ggaagaactg tctagcagac ttcgaccggt cgttgtgatg atttcaggga gaccaggtat
     1501 agggaagacc catctagcta gagagttggc aaagaagatc gcctcctcac tcacaggtga
     1561 ccagagggtg ggcctcatcc cacgcaacgg ggtcgaccac tgggatgcat acaaaggtga
     1621 aagagtcgtt ctctgggacg actacggaat gagcaaccct atccacgacg ccctcagact
     1681 ccaggagctt gctgacacct gccccctaac acttaactgt gacaggattg aaaacaaagg
     1741 taaagtcttt gacagtgacg ccataataat aaccaccaat ttggccaacc cagcgccact
     1801 ggattatgtc aactttgaag cttgctcaag acgcatagac ttcctcgtct atgctgatgc
     1861 ccctgaagtt gagaaggcca aacgagactt cccaggccag ccagacatgt ggaaggacac
     1921 cttcaaacct gacttctcac acataaaact gacattagcc ccgcaaggag gttttgacaa
     1981 gaacggcaat acccctcatg ggaagggtgt tatgaagacc ctcactgcta gttccctcgt
     2041 tgcccgagca tcagggctcc ttcacgagag actagacgag tatgagctac aaggcccaac
     2101 tcccacaaca ttcaacttcg accgcaacaa ggtgcttgct tttaggcaac tcgctgctga
     2161 gaacaagtac ggtctcgttg acacaatgag ggtcggatca caactcaaga acgtcaaaac
     2221 cacgacagaa cttaaacagg ttctcaagaa catcacagtc aggaaatgcc agcttgtgta
     2281 tggcgggagc acatacacac tcgaatctga tggcaaaggc aatgtgtgtg ttgaaagggt
     2341 gaagaacaca agtgtgcaga ctaacaacga gctctccggc gttctgcacc atctcaggtg
     2401 tgccaggatt aggtactatg ttaagtgtgt tcaggaagct ctctactcca tcttgcaaat
     2461 tgccggggct gcattcatca ccacgcgcat tgcaaagcgc atgaacatac agaacctatg
     2521 gtcaaagcca caagtggaag atttggagga gactagcaac aaggagggct gttcaaaacc
     2581 taaagatgac gaggagtttg ttatctcctc tgatgacatc aaaactgagg gcaagaaagg
     2641 aaagaacaag actggccgtg gtaagaagca cacagccttt tccagcaaag gtctcagtga
     2701 tgaggagtac gatgagtaca agagaatcag agaagagaga aatggcaagt actccataga
     2761 ggaataccta caggacagag acaagtacta tgaggaggta gccatagcca gagcaactga
     2821 ggaggatttc tgtgaggaag aggaggccaa aatccggcaa aggatattta gaccaacaag
     2881 aaagcaacgc aaagaggaga gggcctccct tggtttggtc acaggttctg agattaggaa
     2941 gagaaatcca gatgacttca aacctaaagg gaagctatgg gctgatgatg acaggagtgt
     3001 tgactacaat gagaaacttg actttgaggc tccaccaagc atttggtcac gaatagtcaa
     3061 ctttggctca gggtggggct tttgggtctc gcctagcctc ttcataacat caacccacgt
     3121 cattcccaaa ggcgcacagg agttctttgg agtgcctatt aagcaaatac aaattcataa
     3181 atcaggagag ttctgccggc ttagatttcc aaaaccaatc aggaccgatg tcacgggcat
     3241 gatattagag gaaggtgctc cagaaggaac tgttgccaca cttctcatca agagaccaac
     3301 tggggaactc atgcccttgg cagccagaat gggtacccac gcgaccatga aaatccaggg
     3361 tcgcgctgtt ggtgggcaga tgggcatgct actcacgggg tctaatgcca agagcatgga
     3421 tttgggcaca actcctggtg actgtggctg tccctacatc tacaagaggg ggaacgacta
     3481 cgtggtcatt ggagtccaca ccgccgctgc ccgtggagga aacactgtca tctgtgcaac
     3541 ccaaggaagt gagggtgaag ccatgctaga gggtggcgac gataagggaa cctactgtgg
     3601 agcaccaata ttaggccctg gaaatgcccc caaactcagt accaaaacca aattctggag
     3661 gtcttctacc acccccctgc cacccggaac ttatgaacca gcttatctgg gtggcaagga
     3721 ccccagagtg aagggtggtc cctcactgca acaggttatg agggagcaat taaaaccatt
     3781 cactgagccc agaggcaaac cacccaaacc tagtgtgcta gaagctgcca agaagactat
     3841 aatcaatgtg cttgaacaga caatagaccc acctcaaaga tggacatacg cacaggcgtg
     3901 tgcatcacta gataaaacta cttccagcgg ccaccctcac cacatgcgga agaacgagtg
     3961 ctggaacgga gaggctttca caggaagatt ggcagaccaa gcatcaaaag ctaacctaat
     4021 gtatgaggaa ggaaagaaca tgaccccagt atacacagga gccctgaagg acgaactagt
     4081 caagactgat aagatctatg ggaagatcaa aaagagactc ctgtggggtt cggacctatc
     4141 aaccatgata cggtgtgcac gagctttcgg tgggctgatg gacgaactca aggcccattg
     4201 cgtcacacta ccagttaggg ttggcatgaa catgaatgaa gatggaccca taatatttga
     4261 gaaacattcc agatacagat accattatga tgcagattac tctcgctggg actcgacaca
     4321 gcaaagagca gtgctggctg cagccctaga aataatggtc aaattttcac cagaacccca
     4381 tctggcccaa gtagttgcag aagacctctt gtcccccagt gtgatggatg tgggtgattt
     4441 caagatttca atcaatgagg ggctaccctc tggtgtgcct tgcacttcac aatggaactc
     4501 cattgcccac tggctcctca cactatgtgc attatctgag gttacagacc tgtcccctga
     4561 catcatccag gcaaactccc tgttctcctt ttatggtgat gatgaaatag tgagcacaga
     4621 catcaaattg gacccagaga aactgacagt aaagttgaag gaatacgggt taaaaccaac
     4681 ccgtcctgat aaaacagaag gacccttaat tatctctgaa gatttggatg gcttgacctt
     4741 cttacggaga acggtgaccc gtgatccggc tgggtggttt ggcaaactgg accaaagttc
     4801 aatactcagg caaatgtact ggaccagggg accaaaccat gaggacccct ctgaaacaat
     4861 gataccacac tcccaaagac ccatacaact gatgtcacta ctaggtgaag ctgcactaca
     4921 tggcccatca ttctacagta aaatcagcaa gttggtcatc tcagaattga aagagggtgg
     4981 gatggacttt tacgtgccca gacaagaacc aatgtttagg tggatgagat tctcagactt
     5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga
     5101 atgacgccgc tccatcgaat gatggtgcag ctagtctcgt accagaggcc attaatgaga
     5161 ctatgccatt ggaacccgtt gctggtgcat ctattgctgc cccagtggcg ggacaaacta
     5221 acataattga cccctggata agaacaaatt ttgtgcaagc ccctaatgga gaatttacag
     5281 tgtcacccag aaattcccct ggagagattc tgctaaattt agagttggga ccagatttga
     5341 atccttattt ggcccatcta tcaagaatgt acaatggata tgctggaggt gttgaggtgc
     5401 aagtgcttct tgctgggaac gcgttcacag caggaaagat attatttgca gcaatcccac
     5461 ccaactttcc tgtagatatg attagcccag ctcaaattac tatgcttccc catttgattg
     5521 tagatgttag gacattggaa cctattatga tacccttacc tgatgttagg aatgtgttct
     5581 accattttaa taatcaaccc caacctagga tgagattagt ggctatgctc tataccccat
     5641 tgagatctaa tggttcagga gatgatgttt ttactgtgtc ttgtagagtg ttgactaggc
     5701 caacccctga ttttgaattc atttacctag tgcctccctc tgtagagtcc aaaactaaac
     5761 cattcacact cccaatattg accatttctg aactaaccaa ctcccggttt cccatcccaa
     5821 ttgagcaact gtacacggcc ccaaatgaga ataatgttgt acagtgtcaa aatggaaggt
     5881 gcaccttgga tggagaactt cagggcacca cccagctgct atcaagtgca gtttgctctt
     5941 acaggggcag gactgtggct aacagtgggg acaattggga ccaaaatttg ctccagctga
     6001 cctacccaag tggtgcaacc tatgacccca ctgatgaagt accagcaccc ttgggcaccc
     6061 aagatttcag tgggatattg tatggggtgt taacccaaga caatgtaagt gagagtacag
     6121 gggaggccaa aaatgctaag ggggtataca tatccaccac cagtggaaga ttcaccccaa
     6181 aaattgggac aattggattg cattcaataa ctgaaaatgt gcaccccaat cagcaatcac
     6241 ggttcacccc cgttggggtc gctcagaatg aaaacacccc cttccagcaa tgggttctac
     6301 cacactacgc aggtgctctc gctctaaaca ccaatttggc acccgctgtt gccccgactt
     6361 tccctggcga gcaattgctg ttcttcaggt cccgtgttcc atgtgttcaa ggtctgcggg
     6421 ggcaggatgc tttcatagac tgtctcctac ctcaagagtg ggtgaaccat ttttatcaag
     6481 aggctgcccc ctcccaagca gacgtcgccc tcatcaggta tgtcaaccct gatactggtc
     6541 gcacgctgtt tgaggccaaa ttgcacaggt caggtttcat tactgtatca cacactggta
     6601 cctaccctct tgtggtcccc ccgaatggtc attttaggtt tgattcttgg gttaaccaat
     6661 tctactcact cgcccccatg ggaactggca atgggcgcag aagagttcaa taatggcagg
     6721 agcatttata gctggtctag ccggtgacat gctgacttct gctgttggtt cactgacctc
     6781 tgcaggagcc aatgccatca atcagaaatt gaattttgat tataataaac aactccaaaa
     6841 tgcatccttt caacatgata aggaaatgtt gcaggcccaa attgatgcta caaagaagct
     6901 ccaatcagaa atgattgcaa tcaagcatgg ggttttgacc gcgggcggct tttccccagc
     6961 tgatgcagcc agaggggcag tcaacgcccc aatgactcga gtgttggatt ggtcagggac
     7021 acgctactac gctccaaatt ctgtgcaaac caccagttat tctgggcaat tcaccccctc
     7081 gccagtccat cgggcgcagg tgaagtcccc ttccaattca tcccagcgga ctgcagctcc
     7141 aagcagtatc cgcagcctgt caacccaatc aacttcttta ggctccacct cctcaggggg
     7201 gtcctctaca gcctcctcta gttcgaggac ggcagattgg gtgcaacaac aaagggctct
     7261 tagcccgtac atgcagggag ccctgcagac ggcatacgtc acaccgccgt ctagtagggc
     7321 ttccagtatg agctctgtct caacagtgcc caaaggggtt ttggactcct ggacacctgt
     7381 gtttaacaca cgcaggcagc cgctgtttgc acacctcagg aagagggggg agtcacaggc
     7441 ttagtgaaaa ggataatcaa tttttaaaat gtgattttat tttc
//