Typing tool

Complete norovirus genomes

MH218734  GII.2
 GII.P2

Length: 7,536 | 3 CDS

ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS       MH218734                7536 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_95_25_01_2015, complete genome.
ACCESSION   MH218734
VERSION     MH218734.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7536)
  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 7536)
  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..7536
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_95_25_01_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="25-Jan-2015"
                     /note="genotype: GII.P2_GII.2"
     gene            5..5104
                     /gene="ORF1"
     CDS             5..5104
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17860.1"
                     /translation="MKMASNDASAAAAVNSNNDNTKSSSDGMLNNMAVTLKRALGARP
                     KQPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTAGGVSGLPELTTVGQPP
                     EANTAFSVPPLSQRENRDAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
                     IAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDS
                     WLSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGK
                     LKPLNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPED
                     IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
                     KKDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLST
                     KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREL
                     AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
                     PLTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEK
                     AKRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
                     SGLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTM
                     DELKKAIKNIMIRKCQIVYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLR
                     CARIRYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLSEDADEATIKEGC
                     PKPRDEEEFIVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNG
                     KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLV
                     TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSP
                     SLFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG
                     TVATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
                     CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
                     PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
                     RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHW
                     NGESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGRIKKRLLWGSDL
                     ATMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWD
                     STQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKVSINEGLPSGVPCT
                     SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEVVSTDIKLDPEKLTGKLR
                     EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGP
                     NHEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQE
                     PMFRWMRFSDLSTWEGDRNLAPSLVNEDGVE"
     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="AWR17861.1"
                     /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
                     TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
                     MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
                     VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
                     TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
                     QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
                     IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
                     PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
                     IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
                     VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
     gene            6713..7492
                     /gene="ORF3"
     CDS             6713..7492
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17862.1"
                     /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
                     SFNHDKEMLQAQIQATKQLQADMMAIKQGILTAGGFSPADAARGAVNAPMTQALDWNG
                     TRYWAPSSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLITTT
                     GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
                     RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgcttc tgctgccgct gctgtcaaca gcaacaacga
       61 caacacaaaa tcttcaagtg acggaatgct taataacatg gccgtcaccc ttaaacgagc
      121 ccttggggcc cggcccaaac agccagcccc gagggaaaaa cccccaagac cccctagacc
      181 accaacacca gaactaatca aaagaatccc ccccccacca cctaatgatg gggacgaacc
      241 aaccgtgatg tttagcactg caggtggtgt gtctggccta cctgagctca caacagtcgg
      301 tcaaccacct gaagctaaca ctgcctttag tgtgcccccc cttagccaaa gggaaaacag
      361 ggacgctaag gaaccgttaa ctggggctat tctggaaatg tgggatgggg agatttatca
      421 ttatggactg tatgtggaaa aagggcttgt gctaggcgtg cacaagccgc cggctgccat
      481 cagcatagcc aaagtggaat tgacacctct ctcactgtat tggaggcctg tgtacacgcc
      541 tcagtacctc atatctcctg acaccttgag gaaactccac ggtgagttat ttccctatac
      601 agcctttgaa aacaactgtt atgccttctg ctgttgggtt ttggacctca acgattcatg
      661 gctaagcaga aggatgatta gtaggactac tggcttcttc aggccctacc aagagtggaa
      721 caggaaacct ctcccaacta tggatgactc aaaattgaag aaggtcgcaa acatcgttct
      781 gtgtgcatta tcatcattgt tcactaggcc cattaaggat ataattggca aacttaaacc
      841 ccttaacatc ctaaacattc tggcctcatg cgattggacc ttcgctggca tagtagaatc
      901 actaatcctc ttggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat
      961 gatcgcaccc ctcctcggcg actatgagct acaaggtccc gaagacatcg ctgtggagct
     1021 cgtgcccgtt gtgatgggtg ggataggtct ggtgttggga ttcaccaaag agaaaatagg
     1081 caagatgctc tcctctgcag cgtcaactct gagggcgtgc aaagatcttg gagcctatgg
     1141 attggagata ctgaaactag tcatgaaatg gtttttccca aagaaggatg aggccaacga
     1201 actggctatg gttagagcca ttgaagacgc tgtgttagac ctggaggcta ttgaaaacaa
     1261 ccatatgacc actctattga aggacaagaa cagccttgca gcatacatga agaccctgga
     1321 catggaagag gaaaaagcta ggaagctatc caccaaatca gcctcccctg acattgtggg
     1381 cactataaac gccctgctgg ctaggatcgc tgccgcgcgt tccctagttc atagggccaa
     1441 ggaggagctc tccagcaggc caagaccggt cgttttgatg atctctggca agccagggat
     1501 aggaaagacc cacttggcca gagaactggc aaagaaaatt gcctcaacac tcacaggaga
     1561 ccaaagggtt ggtcttatcc cacggaatgg agttgaccat tgggacgcct acaaaggtga
     1621 gagagtggtg ctctgggatg actatgggat gagcaacccc atccacgatg cgctgaggct
     1681 gcaggaattg gcagacacat gtccattaac tctaaattgt gacaggattg aaaacaaggg
     1741 gaaagtcttc gacagtgacg cgatcataat caccaccaat ttggtcaacc ccgcgccgct
     1801 ggattatgtc aactttgagg cctgctccag acgtatagac ttccttgtgt atgctgatgc
     1861 cccagaagtc gagaaagcaa agcgggactt tcccggtcaa ccggacatgt ggaaggacgc
     1921 ctatcgctct gacttctcac acattaaact acaacttgca ccacaaggtg ggtttgacaa
     1981 aaatggcaac accccacatg gtaaaggagt gatgaagact ctcactgcca gctcactggt
     2041 cgcacgtgcc tctggtctct tacacgagag attagatgag tacgagttgc aaggtccgcc
     2101 cctctcaact ttcaactttg accgtaacaa aattgcagca ttcagacaac tcgccgctga
     2161 aaacaagtac ggtctggtag acacgatgag ggtgggcaac cagctcagaa atgtcacgac
     2221 catggatgaa ctcaagaagg ctatcaagaa catcatgatc agaaagtgcc agatagtcta
     2281 tggtggcaac acttacacgc ttgagtctga cggtaagggc aaggttgtag ttgagagggt
     2341 gcagagcgcc agcgtgcaaa tcaacaatga gatcgctggt gcagtacacc atcttagatg
     2401 tgccagaata aggtattatg tcaagtgtgt ccaagaggcc atatactcac tcctccagat
     2461 tgccggcacg gtgtttgtca cttcacgcat cgtaagccgc atgaacatcc aaaatctgtg
     2521 gtctaggcca ctatctgaag atgcagatga ggccaccata aaagaggggt gccctaaacc
     2581 tagggatgaa gaagaattta tcgtctcctc agatgatatc aagccagagg gtaagaaagg
     2641 taaaaacaag agtggccggg gcaagaaaca cacggcattc tcaagtaagg ggctcagtga
     2701 tgaggagtac gaagagtaca aaagaatcag agaggagaga aatggcaagt actccataga
     2761 ggaataccta caggacagag acaagtacta tgaagaggtg gccattgcca gggcaactga
     2821 agaagacttc tgtgaagaag aagaggttaa gattcgtcag aggatcttca ggccaacaag
     2881 aaagcaacgc aaggaagaaa gagccaacct tggcctcgtt accgggtctg agatcaggaa
     2941 gagaaaccca gatgacttca aaccaaaagg aaagctgtgg gccgacgacg acaggagcgt
     3001 cgactacaat gaaagaatca gctttgaggc cccaccaagc atttggtcta gaattgtcaa
     3061 ctttggttct ggatgggggt tctgggtgtc acctagcctc ttcataacat caacacacgt
     3121 catacctcaa ggcataactg aggcctttgg tgtacccata aggcaggtgc aaatacacaa
     3181 gtcgggcgag ttctgtcgcc tgagattccc aaaacccatc agaacagatg tgtcaggcat
     3241 gatactggag gagggagcgc ctgaaggtac tgttgccacc atactcatca aaagaaccac
     3301 tggagagctg atgcctctag cagcaaggat gggcacccac gcgaccatga ggatacaagg
     3361 gcgcacagtg ggcggccaga tgggaatgtt gctcactggg tccaatgcaa agagcatgga
     3421 tcttggcacc acgcccggtg actgtgggtg tccctacatt tacaaaaggg gcaatgatta
     3481 catagtcatt ggagttcaca cagcagccgc tcgtggcgga aacactgtta tctgcgccac
     3541 acaaggtagt gagggtgagg ctactctcga gggtggtgac aataaaggaa catattgtgg
     3601 ggcaccaatc ttaggccccg gaaatgcccc aaaactgagc actaaaacca agttctggag
     3661 gtcctctaca acaccactcc cacccggcac gtacgagccg gcatatctgg gaggaaaaga
     3721 cccccgagtc aaaggtgggc catctctgca acaagtcatg cgagaccaac tgaagccatt
     3781 caccgaaccc cgtggcaagc caccaaaacc aagtgtcctt gaagctgcta aaaagacaat
     3841 tatcaatgtg ttagagcaaa caatagaccc tccacagaag tggacgtacg cgcaagcgtg
     3901 cgcgtctctt gacaaaacca catctagtgg gtacccccac cacgtgcgca aaaacgagca
     3961 ctggaatggg gaatctttca caggaaaatt ggctgatcag gcttcgaagg caaacctaat
     4021 gtttgaagag gggaaacaca tgaccccagt ttatacagct gcccttaagg acgagttggt
     4081 caaaactgag aaagtgtatg ggaggataaa gaagaggttg ctctggggtt ctgacttggc
     4141 caccatggtg aggtgtgcgc gctcctttgg cggtttgatg gacgaactca aggcccactg
     4201 tgtgacactc ccgataaggg ttggcatgaa tatgaatgaa gatggaccaa tagtctttga
     4261 gaaacattcc agatataggt atcactatga tgcagactac tccaggtggg attcaacaca
     4321 gcagagagcc gttctggccg cggccatgga gattatggtt aaattctcag cagaaccaca
     4381 attagcccaa atagttgcag aggatctgtt gtcgcccagt gttgttgacg tgggcgactt
     4441 caaagtttcc atcaacgaag gattaccatc gggtgtccct tgcacctctc aatggaactc
     4501 catcgcacac tggctcctca ccttgtgtgc cctttctgaa gttacagacc tctctcctga
     4561 cattgtgcaa gccaactccc tcttctcctt ctatggtgat gatgaagttg tgagcacaga
     4621 tatcaaatta gacccagaaa agttgacggg gaagttgagg gaatatggtc tcaaacccac
     4681 ccgtcctgac aaaactgagg gccccttgat tattagtgag gatctgaatg gcctgacctt
     4741 cctgaggaga accgttaccc gcgaccctgc aggatggttt ggcaaactgg accaaagctc
     4801 catacttagg caattgtact ggaccaaagg ccctaaccat gaagacccct ttgagtcaat
     4861 gattccacat tcccagagac ccatacaact catgtcactc ttgggtgaag cagcactgca
     4921 tgaaccatca ttttacagca agatcagcaa gcttgtgata tccgagttga aagaaggtgg
     4981 aatggatttt tacgtgccca ggcaagaacc tatgtttagg tggatgagat tctcggattt
     5041 gagcacgtgg gagggcgatc gcaatcttgc tcccagtctc gtgaatgaag atggcgtcga
     5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aacaatgagg
     5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccggtcacc ggtcaaacaa
     5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag
     5281 tctctccccg aaatgcccct ggtgaagtgc tactgaatct agagttgggt ccagaattaa
     5341 atccttatct ggcacattta gcaagaatgt acaatgggta tgccggtggg atggaggtgc
     5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgct gccgtgccac
     5461 ctcacttccc ggttgaaaat cttagcccac agcaaatcac catgttccct catgtgatca
     5521 tagatgtgag aaccttggaa cctgttttat taccactccc tgatgttagg aataatttct
     5581 tccattataa ccagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc
     5641 ttaggtctaa tggttcaggt gatgatgtgt ttacagtctc ctgcagagtg ttgactagac
     5701 cttcccctga ttttgatttt acatacctgg tgccaccaac agtggagtct aaaacaaaac
     5761 cattcaccct cccaatcctc acacttgggg aactttccaa ttctaggttc ccagtgtcca
     5821 tagaccagat gtacaccagc cctaatgaag ttatatcagt gcagtgtcaa aatggtaggt
     5881 gtacattgga cggggagctc caagggacaa cacaactcca agtcagtggc atttgtgctt
     5941 tcaaaggaga agtgaccgcc cacttgcatg acaatgatca cctatataat gtcaccatca
     6001 caaacttgaa tgggtcccct tttgatccct ccgaggatat ccctgcccct ctgggtgtgc
     6061 ctgatttcca gggaagggtc tttggtatca tctcccaaag agacaaacac aatagtcccg
     6121 ggcataatga accagcaaac aggggacacg acgctgtggt ccctacttac acagcacagt
     6181 acactccaaa actgggacaa attcaaattg gcacatggca gactgacgac cttacagtca
     6241 accaaccagt caaattcacc ccggttggac tcaatgacac tgaacatttt aaccaatggg
     6301 tggtccctag gtatgctggt gccctaaatc tcaatacaaa ccttgcccct tctgttgctc
     6361 cagtatttcc aggagagcgc ctgctcttct tcagatcata cattcccctc aagggtggtt
     6421 atggaaaccc agccatcgat tgcctactac cacaagagtg ggtgcaacac ttctatcagg
     6481 aagcagcccc ttcaatgagt gaggtggccc ttgtcagata catcaacccg gatactggtc
     6541 gggcactgtt tgaggccaag cttcacagag ctggtttcat gacagtctcg agcaacacca
     6601 gtgccccggt ggttgtgcct gccaacggat acttcaggtt tgattcttgg gtgaatcaat
     6661 tctattctct cgcccccatg ggaactggga atgggcgtag aagggttcaa taatggctgg
     6721 agcttttgta gctggtcttg caggggacgt gctcagcaat gggctcagtt cattaatcaa
     6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattgcagca
     6841 aaattctttt aatcatgaca aggagatgtt gcaggctcag attcaggcaa ctaagcagct
     6901 gcaggcagac atgatggcta ttaaacaagg gatcttgacc gctggcggct tttcccctgc
     6961 tgatgcagcc agaggtgctg tgaacgcgcc catgacacag gcgctggatt ggaatggcac
     7021 aagatattgg gcaccaagct ccatgaggac cacatcttat tctggaaaat tcacatcaac
     7081 cgccccagtg aggcaggccg acttccagca cacccaaagc cggccttcga gtggctcttc
     7141 tgtgtcttcc tttgccactc agtcttcaag accaactctg atcacaacca ctggttcctc
     7201 acatggcaca gcctcatcaa attcaactcg cagcacaagc ctctcccaat caacggtctc
     7261 cagagctaca tctaggactg gtgagtgggt tagagatcaa aatagaaatt tggaacctta
     7321 catgcatggt gccttacaga cagcctttgt caccccgcct tccagcaggg cgtctgacgg
     7381 gacagtctca accgtcccga aaggtgtttt ggactcctgg acacctgcgt ttaacacccg
     7441 caggcagccg ctttttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg
     7501 tgaaaatata tttaggatga attgatttta cctttt
//