Typing tool

Complete norovirus genomes

MH218655  GII.2
 GII.P2

Length: 7,537 | 3 CDS

ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS       MH218655                7537 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_187_01_10_2015, complete genome.
ACCESSION   MH218655
VERSION     MH218655.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7537)
  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 7537)
  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..7537
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_187_01_10_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="01-Oct-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="AWR17623.1"
                     /translation="MKMASNDASAAAAVNSNNDNTKSSSDGMLNNMAVTLKRALGARP
                     KQPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVVFSTAGGVSGLPELTTVGQPP
                     EANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
                     IAKVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDS
                     WLSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGK
                     LKPLNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPED
                     IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
                     KKDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLST
                     KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREL
                     AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
                     PLTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEK
                     AKRDFPGQPDMWKDAYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
                     SGLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTM
                     DELKKAIKNITIRKCQIVYGGNTYTLESDGKGRVVVERVQNASVQINNEIAGAVHHLR
                     CARIRYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATTKEGC
                     PKPRDEEEFVVSSEDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNG
                     KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLV
                     TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSP
                     SLFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG
                     TVATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
                     CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
                     PGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
                     RGKPPKPSVLEAAKRTIINVLEQTIDPPQKWTYAQACASLDKTTSSGFPHHVRKNEHW
                     NGESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDL
                     ATMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWD
                     STQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCT
                     SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLR
                     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="AWR17624.1"
                     /translation="MKMASNDAVPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
                     TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
                     MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
                     VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
                     TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
                     QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
                     IISQRDKQNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
                     PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
                     IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
                     VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
     gene            6713..7492
                     /gene="ORF3"
     CDS             6713..7492
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17625.1"
                     /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
                     SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
                     TRYWAPGSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT
                     GSSHGTASSNSTRSTSLSQSTVSRATSRTSDWVRDQNRNLEPYMYGALQTAFVTPPSS
                     RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgcttc tgctgccgct gctgttaaca gcaacaacga
       61 caacacaaaa tcttcaagtg acggaatgct taacaacatg gccgtcaccc ttaaacgagc
      121 ccttggggcc cggcccaaac agccggcccc gagggaaaaa cccccaagac cccctagacc
      181 accaacacca gaactaatta aaagaatccc ccccccacca cctaatgatg gggatgaacc
      241 aaccgtggtg tttagcactg caggtggtgt gtctggccta cctgagctca caacagtcgg
      301 tcaaccacct gaagctaaca cggcctttag cgtgcctccc cttagccaaa gggaaaacag
      361 ggacgctaag gagccgttaa ctggaactat tctggaaatg tgggacgggg agatttatca
      421 ctatggactg tatgtggaaa aagggcttgt gttaggcgtg cacaagccac cggctgccat
      481 tagcatagcc aaagtggaat taacgcctct ctcactgtat tggaggcctg tgtacacgcc
      541 tcagtacctc atatctccag acaccttgag gaaactccac ggtgaactat ttccctatac
      601 agcctttgaa aacaactgtt atgccttctg ctgttgggtt ttggacctta acgattcatg
      661 gctaagcagg aggatgatta gtaggactac tggctttttc aggccctacc aagagtggaa
      721 caggaaaccc ctcccaacta tggatgactc aaaattgaaa aaggtcgcaa acatcgttct
      781 atgtgcattg tcatcattgt tcactagacc cattaaggat ataattggca agcttaaacc
      841 cctcaacatc ctgaacattc tggcctcgtg cgattggacc ttcgctggca tagttgagtc
      901 actaatcctc ttggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat
      961 gatcgcaccc ctcctcggtg actatgagct acaaggccct gaagacatcg ctgtggagct
     1021 cgtacccgtt gtgatgggtg ggataggtct ggtgctggga ttcaccaaag agaaaatagg
     1081 taagatgctc tcctctgcag catcaacttt gagggcatgc aaagatcttg gagcctatgg
     1141 actggagata ctgaaactag tcatgaaatg gttcttccca aagaaggatg aggccaacga
     1201 actggctatg gttagagcca ttgaagacgc tgtattggac ctggaggcca ttgagaacaa
     1261 tcatatgacc actctattga aagacaagaa cagccttgca gcctacatga aaaccctgga
     1321 catggaagag gaaaaagcta ggaagttatc caccaaatca gcctcccctg acattgtggg
     1381 caccataaat gccctgttgg ctaggatcgc tgccgcgcgt tccttagttc atagggccaa
     1441 ggaggagctc tccagcaggc caaggccggt cgtcttgatg atctctggca agccagggat
     1501 aggaaagacc cacttggcca gagaactggc aaagaaaatc gcctcaacac tcacaggaga
     1561 ccagagagtg ggcctcatcc cacggaatgg agttgaccat tgggatgcct acaaaggtga
     1621 gagagtggtg ctctgggatg attacgggat gagcaacccc atccacgatg cgctgaggtt
     1681 gcaagagctg gcagacacat gtccattgac tctaaattgt gacaggattg aaaacaaggg
     1741 gaaagtcttc gacagcgatg cgatcataat taccaccaat ttggtcaatc ccgcgccgct
     1801 ggattatgtt aactttgagg cctgctccag acgtatagac ttccttgtgt atgctgatgc
     1861 cccagaagtc gagaaagcaa agcgggactt ccccggccaa ccagacatgt ggaaggacgc
     1921 ctatcgccct gacttctcac acatcaaact acaacttgca ccacaaggtg ggtttgacaa
     1981 aaatggtaac acccctcatg gtaaaggagt gatgaagact ctcaccgcca gctcactggt
     2041 tgcgcgtgcc tctggtctct tgcacgagag gctagatgag tacgaattgc aaggtccacc
     2101 cctctcaacc ttcaactttg accgcaacaa aattgcagcg ttcagacaac tcgctgctga
     2161 aaacaagtat ggtctggtag acacgatgag ggtgggtaac cagctcagaa atgtcacgac
     2221 catggatgaa ctcaagaagg ctatcaagaa catcacaatc agaaagtgtc agatagtcta
     2281 tggtggcaac acttacacgc ttgagtctga cggcaagggt agagttgtgg ttgagagggt
     2341 gcagaacgcc agcgtgcaaa tcaacaatga gatcgctggt gcagtacacc accttagatg
     2401 tgccagaata cggtattatg ttaaatgtgt ccaagaggcc atctactcac tcctccaaat
     2461 tgctggcacg gtgtttgtca cttcacgcat cgtaagccgc atgaacatcc aaaatttatg
     2521 gtccaggcca ttaactgaag atgcagatga ggccaccacg aaagaggggt gccctaaacc
     2581 tagggatgaa gaagaatttg tcgtctcctc agaagatatc aagccagagg gcaagaaagg
     2641 taaaaacaag agtggccggg gcaagaaaca cacggcattc tcaagcaaag gtctcagtga
     2701 tgaggagtac gaagagtaca aaaggattag agaggagaga aatggcaaat actccataga
     2761 ggaataccta caggatagag acaagtacta tgaagaggtg gccattgcca gggcaactga
     2821 agaagacttc tgtgaagaag aagaggttaa gattcgtcag aggatcttca ggccaactag
     2881 aaagcaacgc aaggaagaaa gagccaacct tggcctcgtc accggatctg agatcaggaa
     2941 gaggaaccca gatgacttta aaccaaaagg aaagctgtgg gccgacgatg ataggagcgt
     3001 cgactacaac gaaagaatca gctttgaggc cccaccaagc atttggtcta gaattgtcaa
     3061 ctttggttct ggatgggggt tttgggtgtc acctagcctc ttcataacat caacacatgt
     3121 cataccccaa ggcataactg aagcctttgg tgtacccata aggcaagtgc aaatacacaa
     3181 atcgggcgaa ttctgtcgcc tgagattccc aaaacccatc aggacagatg tgtcaggtat
     3241 gatactggag gagggagcgc ctgaaggcac tgttgccacc atactcatca agagaaccac
     3301 tggagaactg atgccccttg cagcaagaat gggcacccac gcgaccatga ggatacaagg
     3361 acgcacggtg ggcggccaaa tgggaatgct gctcactgga tccaatgcaa agagcatgga
     3421 tctcggcacc acgcctggtg actgtgggtg tccctatatt tacaaaaggg gtaatgatta
     3481 catagtcatt ggagttcaca cagcagctgc ccgtggcgga aacactgtca tctgcgccac
     3541 acaaggtagt gagggtgagg ccacactcga gggtggtgac aacaaaggga catactgtgg
     3601 ggcaccaatc ctaggacccg ggagtgcccc gaaactgagc actaagacca aattctggag
     3661 gtcctctaca acaccactcc cacccggcac atacgagccg gcatatctgg gaggaaaaga
     3721 cccccgagtc aaaggtggac catctctgca acaagtcatg cgagatcaac tgaagccatt
     3781 caccgaaccc cgtggtaaac caccaaaacc aagtgtcctt gaagctgcca aaaggacaat
     3841 tatcaatgtg ctagagcaaa caatagaccc cccacagaag tggacgtacg cgcaagcgtg
     3901 cgcatctctt gacaaaacca catctagtgg gtttccccac cacgtgcgca aaaacgagca
     3961 ctggaatggg gaatctttca caggaaaatt ggctgatcag gcatcaaaag caaacctaat
     4021 gtttgaagag ggaaagcaca tgactccagt ttacacagct gcccttaagg atgagttggt
     4081 caaaactgag aaggtgtatg ggaaaataaa gaagaggttg ctttggggct ctgatctggc
     4141 cacaatggtg cggtgcgcgc gctcttttgg tggtttgatg gacgaactta aggcccactg
     4201 tgtaacactt ccgataaggg ttggcatgaa tatgaatgaa gatggaccaa tagtctttga
     4261 gaaacactcc agatacaggt atcactatga tgcagactat tccaggtggg attcaacaca
     4321 gcagagagcc gtcctggctg cggccatgga gattatggtt aaattctcag cagaaccaca
     4381 actagcccaa atagttgcag aggatctact gtcgcctagt gtagttgatg tgggcgactt
     4441 caaaatttcc atcaacgaag ggttaccatc aggtgtccct tgcacctctc aatggaactc
     4501 cattgcacac tggctcctca ccttgtgtgc cctttctgaa gttacagatc tctctcccga
     4561 tattgtgcaa gccaactccc tcttctcctt ctatggtgat gatgaaattg tgagtacaga
     4621 tattaaatta gacccagaaa agttgacggg gaagttgaga gaatacggcc tcaaacccac
     4681 tcggcctgac aagactgagg gccccctgat cattagcgag gacctgaatg gcctgacctt
     4741 cttgaggaga accgtcaccc gtgaccctgc aggatggttt ggcaaactgg accagagctc
     4801 tatactcagg caattgtatt ggaccaaggg tcctaatcat gaagacccct ttgagtcaat
     4861 gattccacac tcccagaggc ccatacaact catgtcactc ttgggcgaag cagcactgca
     4921 tgaaccatcg ttttacagca agatcagcaa gcttgtgata tctgagttga aagaaggtgg
     4981 aatggatttt tacgtgccca ggcaagaacc catgttcagg tggatgagat tctcggattt
     5041 gagcacgtgg gagggcgatc gcaatcttgc tcccagtctt gtgaatgaag atggcgtcga
     5101 atgacgccgt tccatctact gatggtgcag ccggcctcgt gccagaaagt aacaatgagg
     5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccagtcacc ggtcaaacaa
     5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaattcacag
     5281 tttctccccg taatgcccct ggtgaagtgc tattgaatct agagttgggt ccagaattaa
     5341 atccttatct ggcacattta gcaagaatgt ataacgggta tgccggtggg atggaggtgc
     5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gctgtaccac
     5461 ctcacttccc ggttgaaaac cttagcccac agcaaatcac catgttccct catgtgatta
     5521 tagatgtaag gaccttagaa cctgttttat taccacttcc tgatgttagg aacaatttct
     5581 tccactacaa tcagaaagat gatcctaaaa tgagaattgt ggctatgctt tacacccccc
     5641 ttaggtctaa tggttcaggt gatgatgtgt tcacagtctc ctgcagggtg ttgactagac
     5701 cctcccctga ttttgatttc acatatctgg tgccaccaac agtggaatct aaaacaaaac
     5761 cattcactct cccaatcctc acacttgggg aactttccaa ttctaggttc ccagtgtcca
     5821 tagaccagat gtacaccagc cccaatgagg ttatatcagt gcagtgtcaa aatggtagat
     5881 gcacattgga cggggagctt caggggacaa cacaactcca agtcagtggt atttgtgctt
     5941 tcaaggggga agtgaccgcc catttgcacg acaatgacca cctatataat gtcaccatca
     6001 caaacctgaa tgggtccccc tttgacccct ccgaggacat ccctgcccct ctgggcgtgc
     6061 ctgatttcca gggaagggtc tttggtatca tctcccaaag agacaaacag aatagccctg
     6121 ggcacaatga accagcaaac aggggacacg acgctgtggt tcctacttac acagcacagt
     6181 acaccccaaa attgggtcag attcaaattg gcacatggca gaccgacgat ctcacagtca
     6241 accaaccagt caaatttacc ccagttggtc tcaatgacac tgaacatttt aaccaatggg
     6301 tggtccccag atacgctggt gccctaaacc tcaacacaaa tcttgcccct tctgttgctc
     6361 cagtgtttcc aggagagcgt ctgcttttct tcagatcata tattcctctc aagggtggtt
     6421 atggaaatcc agccattgat tgcctactac cacaagagtg ggtgcaacac ttctaccagg
     6481 aggctgcccc atcaatgagt gaggtggccc ttgtcagata catcaacccg gacactggtc
     6541 gggcactgtt tgaggccaag ctccacagag ctggtttcat gacagtctcg agcaacacca
     6601 gtgccccggt ggttgtgcct gccaatggat acttcagatt tgactcttgg gtgaatcaat
     6661 tctattctct cgcccccatg ggaactggaa atgggcgtag aagggttcaa taatggctgg
     6721 agcttttgta gctggtcttg caggggacgt gctcagcaat gggctcagtt cattaattaa
     6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga aattacagca
     6841 aaattctttt aatcatgata aggagatgtt gcaggctcag attcaggcaa ctaagcagct
     6901 gcaggcagac atgatggcta ttaaacaggg ggtcctgacc gctggcggct tttcccctgc
     6961 tgatgcagcc agaggtgccg tgaatgcgcc catgacacag gcgctggact ggaacggtac
     7021 aaggtattgg gcaccaggct ctatgaggac cacatcttat tctgggaaat ttacatcaac
     7081 cgccccagtg agacaggccg actttcagca cacccaaaac cggccatcga gtggctcttc
     7141 tgtgtcctcc tttgccactc aatcttcgag gccaactctg accacaacca ctgggtcctc
     7201 acatggcaca gcctcatcaa attcaactcg cagcacgagc ctctcccaat caacggtctc
     7261 tagagctaca tctaggacta gtgattgggt tagagatcaa aatagaaatt tggaacccta
     7321 tatgtatggt gccttacaga cagcctttgt caccccaccc tccagcaggg cgtctgatgg
     7381 gacagtctca accgtcccaa agggtgtttt ggactcctgg acacctgcgt tcaacacccg
     7441 caggcagccg ctctttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg
     7501 tggaaaattt gtttagaata aattgatttt acctttt
//