Typing tool

Complete norovirus genomes

MH218731  GII.1
 GII.P33

Length: 7,498 | 3 CDS

ORF1: 5..5110
ORF2: 5091..6698
ORF3: 6698..7471
LOCUS       MH218731                7498 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_92_31_01_2015, complete genome.
ACCESSION   MH218731
VERSION     MH218731.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7498)
  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 7498)
  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..7498
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_92_31_01_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="31-Jan-2015"
                     /note="genotype: GII.Pg_GII.1"
     gene            5..5110
                     /gene="ORF1"
     CDS             5..5110
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17851.1"
                     /translation="MKMASNDASAAAAATSNNDIAKSSSDGVLSSMAVTFKRALGARP
                     KQPPPRETEQKQKPPRPPTPELIKKIPPPPPNGEDDIVVSYSAKDGISGLPELSTVRQ
                     PDGTNTAFSVPPLNQRENKDAKEPLPGTILEMWDGEIYHYGLYVERGLVLGVHKPPAA
                     ISLAKVELTPLSLYWRPVYTPQYLISPETLKKLHGETFPYTAFDNNCYAFCCWVLDLN
                     DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIVLCAMSSLFTRPIKDII
                     GKLRPLNMLNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
                     EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLFMKWF
                     FPKKDEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARRL
                     STKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGKPGIGKTHLAR
                     DLAKKVAATLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELAD
                     TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDV
                     EKAKRDFPGQPDMWKDAFRSDFSHIKLMLAPQGGFDKNGNTPHGRGVMKTLTSGSLIA
                     RASGLLHERLDEYELQGPTPTTFNFDQNKVFAFRRLAAENKYGLVDTMRVGSQLKNVK
                     TVSELKQALKNISIRRCQIVYGGLTYSLESDGKGNVRVEKVQSPAVQTNNELTGALHH
                     LRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSRPQVEDEEETTSKD
                     GCPKPKDEEEFVISSEDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
                     NGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLG
                     LVTGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWV
                     SPSLFITSTHVIPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAP
                     EGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
                     GDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEAVLEGGDNKGTYCGAPI
                     LGPGNAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
                     EPRGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTFAQACASLDKTTSSGYPHHVRKNE
                     HWNGESFTGKLADQASKANLMFEEGKHMTPVYTGALKDELVKTDKIYGKIKKRLLWGS
                     DLATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFGKHSRYTYHYDADYSR
                     WDSTQQRAVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFKISITEGLPSGVP
                     CTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAK
                     LKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTR
                     GPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPR
                     QEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     mat_peptide     5..1000
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     1001..2098
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     2099..2635
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2636..3034
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     3035..3577
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3578..5107
                     /gene="ORF1"
                     /product="RdRp"
     gene            5091..6698
                     /gene="ORF2"
     CDS             5091..6698
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17852.1"
                     /translation="MKMASNDAAPSNDGAAGLVPEVNNETMALEPVAGASIAAPLTGQ
                     NNVIDPWIRMNFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPFLAHLSRMYNGYAGG
                     VEVQVLLAGNAFTAGKLVFAAIPPHFPLENLSPGQITMFPHVIIDVRTLEPVLLPLPD
                     VRNNFFHYNQQPEPRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFNYLVPP
                     TVESKTKPFTLPILTIGELSNSRFPVPIDELYTSPNEGVVVQPQNGRSTLDGELLGTT
                     QLVPSNICALRGRINARVPDDHHQWNLQVTNANGTPFDPTEDVPAPLGTPDFLANIYG
                     VTSQRNPDNTCRAHDGVLATWSPKFTPKLGSVVLGTWEEHDLDLNQPTRFTPVGLYDT
                     NHFDQWILPNYSGRLTLNMNLAPSVAPLFPGEQILFFRSHIPLNGGTSNGAIDCLLPQ
                     EWIQHFYQESAPSPTDVALIRYTNPDTGRVLFEAKLHRQGFITVANSGSRPIVVPPNG
                     YFRFDSWVNQFYSLAPMGTGNGRRRVQ"
     gene            6698..7471
                     /gene="ORF3"
     CDS             6698..7471
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17853.1"
                     /translation="MAGAFVAGLAGDIITNSIGSLVNAGANAINQKVDFENNKQLQQA
                     SFNHDKEMLQAQIQATKQLQADMIALRQGVLTAGGFSPTDAARGAINAPMTQVLDWNG
                     TRYWAPGATKTTVFSGGFTSSPNTRTVDLPRKTSTTPAPTPISRPSSSASTVSTRSTI
                     VSGTSGLSSSTRSSFNSQPTSSSSRTSEWVRSQNRALEPYMRGALQTAYVTPPSSRAS
                     SNGTVSTVPKEVLDSWTSVFNTHRQPLFAHLRRRGESQV"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gctgctacca gcaacaacga
       61 catcgcaaaa tcttcaagtg acggagtact aagtagtatg gctgtcactt ttaaacgagc
      121 cctcggggcc cggcctaaac agccgccccc gagggaaaca gaacaaaaac aaaaacctcc
      181 acgaccgccc accccggagt taatcaaaaa gattccacct cccccgccca acggggagga
      241 cgatatagtg gtatcctaca gtgccaaaga tggtatctcc ggtctgcctg agctatccac
      301 cgtcaggcaa ccagatggga caaacacagc atttagtgtc cccccactca accagaggga
      361 aaacaaagat gctaaagaac cgctgcctgg caccatcttg gaaatgtggg acggagagat
      421 ttaccactac ggcttgtacg tggagcgggg cttggtgctt ggggtgcaca aaccaccagc
      481 ggctattagc cttgcaaagg ttgaactaac accactgtct ctgtactgga gaccagtgta
      541 cacccctcag tacctcatat ccccggaaac tctcaaaaag ctacatggag agacattccc
      601 ttatacggcc tttgataaca actgttacgc cttttgttgt tgggtcttgg atctaaatga
      661 ctcttggctc agcaggagga tgatacagag aacaactggc ttcttcagac cctaccagga
      721 ctggaacagg aaacctctcc ccaccatgga tgattccaaa ttgaaaaagg tggctaatat
      781 agtcctgtgt gcaatgtcat cactattcac caggcccatt aaggacataa taggaaaact
      841 aaggccccta aacatgctca atatactagc ttcctgcgac tggacttttg caggaatagt
      901 agaatccctg attctccttg cagaactctt cggagttttc tggacacccc cagatgtgtc
      961 tgcgatgatc gcccccttac taggcgacta cgaactacag ggacctgaag atctcgctgt
     1021 ggaactcgta ccagtagtaa tgggggggat aggtttggtt ctaggtttca ccaaggagaa
     1081 gattggcaag atgctatcat ctgccgcgtc caccctcaga gcttgtaaag accttggagc
     1141 atatggattg gaaattctga agttgttcat gaagtggttt ttcccgaaga aagatgaggc
     1201 gaatgaactt gcaatggtga gatccattga ggatgcagtg ctagacctcg aagcaattga
     1261 gaacaatcac atgaccaccc tactcaaaga caaagacagc ttagcaacct acatgaagac
     1321 tctggacctt gaggaggaga aagctaggag actctccacc aaatccgctt ctcctgatat
     1381 tgtgggcaca atcaattcac ttctggcacg gattgcagct gcccgttccc tggtgcatcg
     1441 ggcaaaagaa gagctttcca gcaggccaag acccgttgtt gtcatgatat caggaaaacc
     1501 agggataggg aaaacccacc ttgccagaga tttggcaaag aaagttgcag ccaccctcac
     1561 aggagaccag agggtgggcc tcatcccacg gaatggtgtc gaccactggg atgcgtacaa
     1621 aggtgagaga gtcgtccttt gggatgacta tggaatgagt aaccccatcc acgacgccct
     1681 taggctacaa gaacttgctg acacttgccc cctaacatta aattgtgata gaattgagaa
     1741 caaaggaaag gtctttgaca gtgatgccat aattatcaca actaatctgg ctaacccggc
     1801 accactggac tatgttaatt ttgaagcatg ttcgaggcgc atcgacttcc tagtgtatgc
     1861 tgatgccccc gatgttgaaa aagcaaaacg cgacttccca gggcagcctg acatgtggaa
     1921 ggatgctttt agatctgact tctcacacat aaaattgatg ttggcccctc agggtggttt
     1981 tgataagaat ggcaacaccc cacatggaag aggtgtcatg aaaaccctca catctggctc
     2041 cctcattgcc cgtgcttcag gactcctcca cgaaagactg gatgagtacg agttacaagg
     2101 gccaacaccc acaaccttca atttcgacca aaacaaggtg ttcgccttta gacggcttgc
     2161 cgctgaaaat aagtacgggc tggtggacac catgagagta ggaagccagc tcaagaatgt
     2221 caagactgtg tcagagctca aacaggcact taagaacatt tcaattagaa ggtgccagat
     2281 agtctatggt ggtctcacct attcacttga atctgatggc aaaggtaatg tgagggttga
     2341 gaaggtacaa agtccagctg tgcagaccaa caatgagcta actggcgcac tacaccacct
     2401 aaggtgcgct aggattagat attatgttaa gtgtgtccag gaagctttgt attccatcat
     2461 ccaaattgct ggagccgcgt ttgtcaccac gcgcattgca aagcgcatga acatacaaaa
     2521 cctctggtcc agaccacagg tagaggatga ggaagagacc accagcaaag acgggtgccc
     2581 aaaaccaaag gatgaggagg agtttgtcat ctcgtctgaa gacatcaaag ctgaaggtaa
     2641 gaagggaaag aacaagtctg gccgtggcaa gaaacacaca gccttctcga gtaagggtct
     2701 tagtgatgag gagtatgatg agtacaagag aatcagagaa gaaagaaatg gcaagtactc
     2761 catagaagaa tacctccaag acagagacaa gtactatgag gaggttgcca tagccagggc
     2821 tactgaagag gacttctgtg aggaagagga ggccaagatc cggcagagga ttttcagacc
     2881 aacaaggaaa caacgcaagg aggagagggt ttcactcgga ttggtcacag gctcagaaat
     2941 caggaaaagg aacccggatg acttcaaacc caaaggaaag ttgtgggctg atgacgacag
     3001 gagtgtcgat tacaatgaaa agctcagttt tgaagctccc ccaagcatct ggtcgagaat
     3061 agtcaacttt ggatcaggtt ggggcttctg ggtctcacca agccttttta taacatccac
     3121 ccatgtcata cctcaagggg cacaagagtt cttcggtgtt tccatcaaac agatccaaat
     3181 tcataagtca ggtgagttct gccgactaag attcccaaag ccaattagaa ctgatgtgac
     3241 aggtatgatc ctagaggagg gggcccctga aggcactgtg gccacactgc tcataaagag
     3301 gccaactgga gagctgatgc cactagcggc tagaatgggc acccatgcaa ctatgaagat
     3361 ccaaggccga actgtcgggg gacagatggg gatgctcctg acaggatcca acgccaagag
     3421 catggatttg ggcactacac caggtgactg tggatgccca tatatctaca aaagaggaaa
     3481 tgactacgtg gttatcgggg tccacacagc tgccgcccgc ggagggaaca ctgttatctg
     3541 tgcaacccaa ggcagtgagg gcgaggccgt tcttgaaggt ggtgacaaca aaggcaccta
     3601 ttgtggcgct ccaatcctag gtccaggaaa tgcccccaaa ctcagtacta aaaccaaatt
     3661 ctggaggtcc tcaacagcac cactcccacc tggcacatat gaaccagctt acctcggagg
     3721 taaagacccc agggtgaaag gtggtccctc attacaacaa gttatgagag accaattgaa
     3781 accgtttaca gaacccagag gcaagccacc aaagcctagt gtattggaag cagccaaaaa
     3841 gacaatcatt aatgtccttg agcaaactat agatccaccc caaaaatgga cgttcgcaca
     3901 ggcgtgcgca tcccttgata aaacaacctc tagtggctac ccgcaccacg tgcggaagaa
     3961 tgaacattgg aatggggaat ctttcacagg gaagttggct gatcaggctt caaaggctaa
     4021 tttgatgttt gaggaaggaa aacacatgac accagtctac acaggagctc tcaaggatga
     4081 gttagtcaaa actgacaaaa tatatggtaa gatcaagaaa aggttattat ggggctcaga
     4141 tctggcaacc atgatccgtt gcgctcgagc gttcggaggg ttgatggatg aactcaaggc
     4201 ccactgtgtc acactcccca tcagggtggg gatgaacatg aatgaggatg gtcccatcat
     4261 ttttgggaaa cactctaggt acacctacca ttatgatgca gactactctc gatgggactc
     4321 aacacagcag agagccgttt tagctgcagc cctggagatc atggtaaagt tttccccaga
     4381 accacacctg gctcaaattg tcgcagaaga cctcctatct cccagcgtga tggacgtggg
     4441 cgattttaaa atatcaatca ctgaaggact cccctctggg gtgccttgca cctcacaatg
     4501 gaactccatt gctcattggc ttctcacgct ctgtgcgctc tctgaggtaa cagatttatc
     4561 tcctgacatc atccaagcaa actcactctt ctctttctat ggtgatgatg aaattgtgag
     4621 cacagacatt aaattagatc cagaaaggct aacggccaaa ctaaaagagt atggtctcaa
     4681 gccaacccgc ccggataaga ctgaagggcc tttggtcatt tctgaggact tagatggtct
     4741 gaccttctta cggagaactg tgacccgtga tccagcaggt tggtttggaa aattggaaca
     4801 aagctcaata ctaagacaga tgtattggac caggggcccc aatcatgaag acccctctga
     4861 aacaatgata ccacattccc aacgacccat acagttgatg tccctattgg gtgaagctgc
     4921 attgcatggc ccatcgttct acagcaaaat cagcaaattg gtcatctcag agttgaaaga
     4981 aggtggcatg gacttttacg tgccaagaca agagccaatg ttccggtgga tgaggttctc
     5041 agacttgagc acgtgggagg gcgatcgcaa tctggctccc agttttgtga atgaagatgg
     5101 cgtcgaatga cgccgctcca tctaatgatg gtgcagccgg tctcgtgcca gaggtcaaca
     5161 acgagacgat ggcacttgag ccggtggctg gggcttctat agctgcccct ttaaccggcc
     5221 aaaataatgt gatagacccc tggattagaa tgaattttgt ccaagctcca aatggtgaat
     5281 ttacagtgtc cccccgtaat tccccaggtg aagtgttgtt aaatttggaa ttaggccctg
     5341 aactaaatcc attcctggca cacctttcaa gaatgtataa tggctatgct ggtggggttg
     5401 aagtgcaggt gctacttgct gggaatgcgt tcacagcagg aaaactagtg tttgcagcaa
     5461 tccccccaca tttccctctt gagaatctga gtcctggtca aattacaatg ttccctcacg
     5521 tgattattga tgttagaact ttagaacctg tcctcttgcc tttaccagat gttagaaata
     5581 atttctttca ttacaatcag cagcctgagc cccgtatgag acttgtggct atgttgtata
     5641 ctcctcttag atctaatggc tctggtgatg atgtgttcac agtctcttgt agggtcctca
     5701 cccgcccctc tccagatttt gattttaatt atttggttcc cccaactgtg gaatctaaaa
     5761 ctaaaccatt taccctgcca atattgacca ttggagaatt gtcaaattct aggttcccag
     5821 tgccaataga tgaattgtat accagcccca atgaaggagt ggttgtgcaa cctcaaaatg
     5881 gcagatcaac actcgatggt gaactgcttg gcaccacaca acttgtgcca tcaaacatct
     5941 gtgccttgcg agggcgcatt aacgcccgag tgccagacga ccaccatcaa tggaacttgc
     6001 aggttacaaa cgcaaatggg actcccttcg accccactga agatgtcccc gcaccattgg
     6061 gcacgccgga tttcctggca aacatctacg gagttactag ccagaggaac cctgacaaca
     6121 cttgccgtgc ccatgatggg gtcttggcaa cctggagccc taaatttaca cccaagttag
     6181 gatctgtggt tttgggtact tgggaagaac atgatcttga tctcaatcaa cctaccagat
     6241 tcacacctgt tggtttgtat gatacaaacc actttgatca gtggattcta cccaactact
     6301 ctggaagatt gaccttaaac atgaatttgg cgccctccgt tgctcccctt ttcccaggtg
     6361 aacaaatact cttctttagg tcccacatac cacttaacgg aggtacttcc aacggtgcca
     6421 ttgactgtct actccctcag gagtggatcc agcatttcta tcaggaatca gccccgtcac
     6481 ccacagatgt tgctctgatt aggtacacca accctgacac gggccgtgtc ctttttgagg
     6541 ccaaactaca tagacaggga tttatcacag tagcaaattc tggttctaga cctattgttg
     6601 tcccccctaa tggctatttt aggtttgatt cttgggttaa tcagttttat tctctcgccc
     6661 ccatgggaac tgggaatggg cgtagaaggg tgcagtaatg gctggagctt ttgtagcagg
     6721 tcttgccggt gatataatca ccaatagcat tggttcactt gtgaacgctg gagccaatgc
     6781 aataaaccaa aaagtagatt ttgaaaacaa caaacaacta cagcaggcct ctttcaacca
     6841 tgataaggaa atgttgcaag ctcaaattca ggccacaaaa caattacagg ctgacatgat
     6901 tgcgctcaga caaggggtgt tgaccgcagg cggcttctcc cctactgatg cagcaagagg
     6961 ggcgattaat gcgcccatga cacaagtctt ggactggaat gggactaggt actgggcccc
     7021 cggggccacc aaaacaactg tcttctccgg tgggttcaca agctctccca ataccaggac
     7081 tgttgatttg cctaggaaaa catcaaccac accagccccc acgcctatat ctaggcctag
     7141 ttcttctgct tctactgttt ctacccgctc aacaattgtt agcgggactt ctggcctttc
     7201 ttcttcgact aggagctctt ttaattccca gcccacctcc tcttcttctc ggactagcga
     7261 atgggtgcgt agtcaaaaca gggcgctgga gccctacatg aggggagcgc tgcaaactgc
     7321 ttacgtgacg cctccctcta gtagagcatc cagcaatggc acagtctcaa ccgtgccaaa
     7381 agaagttttg gactcctgga catctgtgtt caacacccac agacaaccgc ttttcgctca
     7441 tctccgtcgg agaggggagt cacaggttta gtgaaaagat gatttttctt ccattctt
//