Typing tool

Complete norovirus genomes

MH218642  GII.6
 GII.P7

Length: 7,524 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218642                7524 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_173_08_05_2015, complete genome.
ACCESSION   MH218642
VERSION     MH218642.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7524)
  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 7524)
  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..7524
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_173_08_05_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="08-May-2015"
                     /note="genotype: GII.P7_GII.6"
     gene            5..5098
                     /gene="ORF1"
     CDS             5..5098
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17586.1"
                     /translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNIKVGFKK
                     ILGAVPKGTKAPSSDQHCPTVKIGTKTLTVPPEPPNGEDTVQFDVKSETVRGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
                     VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
                     LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTEAQETSESEK
                     EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
                     KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MIRCARAFGGLMDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6722
                     /gene="ORF2"
     CDS             5079..6722
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17584.1"
                     /translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQEDTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPVLTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
                     LVPTQICAFRGTLIGQTSRSSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
                     AIDFKGTVFGVASQRDVSGQQVGATRAHEVHINTTDPRYTPKLGSILMYSESEDFVTG
                     QPVRFTPIGMGDNDWHQWELPDYSGHLTLNMNLAPAVAPAFPGERILFFRSIVPSAGG
                     YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17585.1"
                     /translation="MASAFLAGLAGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
                     SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
                     TRYWAPNSMKTTSYSGQFSSSPVHKSPAPSHAVSSKSRLQNDSVSVYSSPSSVSSQST
                     HSTVLSAGTGSSRSISTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSKA
                     SSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQV"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagtacc aacaccgccc cttccaataa agaagaggtt ggtgcattct ccaacatcaa
      121 agtaggtttt aagaaaatac tgggtgctgt tcccaaggga accaaagcac ccagtagtga
      181 tcagcactgc cccacagtta agatcgggac caagacatta acagttcccc ctgagccccc
      241 aaatggtgaa gacaccgtac agtttgatgt gaagtcggaa actgtgcgtg ggctaccaga
      301 cttgacaacg gtgcaaaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
      361 aagggagcac agaccagcca ccgaaccgct tcctggcaca atattagaga tgtgggatgg
      421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
      481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
      541 cgtttacacc cccaactacc tggtctgtcc agacacgttg aaaggcctcg ctggtgagaa
      601 gttcccctac acggccttca gcaacaattg ttacaacttc tgttgctggg tgcttgagct
      661 caatgacacg tggcttagca ggagaagcat ctccaggacc accggcttct tcaaaccata
      721 ccagtcttgg aataggaaac ccctcccaac cgttgatgat ggaaagatca aaaaggtggc
      781 caacgcaatt ctctgcgctc ttgggtcact gttttcaaaa ccaatcaagg acctattggg
      841 caaacttaaa ccattgaact tgctgcactt actcgcatca tgtgattgga cgtttgcggg
      901 tatagtagag acagtcatcc taatggcgga acttttcaac atcttttgga caccgccaga
      961 tgtttccagc ttcatagctt ccctaatagg tgattttgaa ttgcaagggc ctgaggacct
     1021 ggctgtggag cttgtccccg tggtcatggg tggcatagga atggtcctcg gctttactgc
     1081 tgagaagata ggccgcatgc tgtcgtcagc tgcatcaacg ctgcgggcat gcaaagactt
     1141 ggggaattat gcccttgaca tattgaagct ggttatgaag tggttcttcc caaagaagga
     1201 agagaaagcc gagatggaga ccctaagggc gattgaggat gccgtcctag acatggaagc
     1261 tataggaaac aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
     1321 gaagactctg gatctagaag aggagaaggc aaggaagctg tccaccaaat catcctcgcc
     1381 agacatcgtc ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
     1441 acacaaggcc aaagaagaaa tgtttagcag gatcagacct gtggttgtca tgatctcggg
     1501 tagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
     1561 catgagcggt gaccagagag tagggctcgt cccacgcaac ggggtcgatc actgggacgc
     1621 ctacagggga gagagggtgg tcttatggga tgattatggc atgggaaacc ctgtcaagga
     1681 tgccctgaca ctgcaagagc tggctgacac ctgcccagta actctaaact gtgataggat
     1741 tgagaacaag gggaagatgt tcgacagtga tgtcatcata atcacgacta atttagtcaa
     1801 cccagcgccc ctcgattatg tgaacttcga ggcgtgctct agacgggtcg actttctggt
     1861 ctatgcggag tcaccagaaa ttgagaaggt taagagagat tttcccggcc aacctgacat
     1921 gtggaaagac cattttaagc cagacttttc ccacataaaa ctgactctag ccccacaggg
     1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
     2041 ggggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
     2101 ccaggggaat gaccttcaaa catacaactt tgataccaac agggtctctg catttaggaa
     2161 gctggccgca gacaacaagt acgggatcat ggagacaatg agagtgggca cagcgcttaa
     2221 gagtgtcaag accttggaag atctgaaagt tgccctgagg gatgtgaaat tcaatgagtg
     2281 tgagataatt tacaggaact ccaaatatcg agtctcttcc aatggtaaag gttctgtctc
     2341 tgttgacaaa gttgaggacc aaacatccca gactgcaaac gaagtgggtg cagcactcct
     2401 cagacttagg caggcaagag ccagatacta tgtcagctgc ttccaagatc ttgtctacac
     2461 cctaatacag gtcgccggag catcattcgt tgtcaacagg atctctaaga gattctgctg
     2521 ggagagatgg gtcaaaccaa ccgaggccca ggaaacgagt gaatccgaaa aggaagtagc
     2581 ccaaggcaga tgggagattg aacccaagga cacagaacca gaaggtaaga agggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
     2701 gtatgacgag tataagagaa ttagagaaga aaggaacgga aaatactcca ttgaggaata
     2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
     2881 gaggaaggaa gaaagggggg tgctcggttt ggtcactggc tcagacatca ggaagaggag
     2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacaccagga gtgtggatta
     3001 caacgagaga cttgatttcg aagctccccc gagtgtctgg tcaagaatag ttccattggg
     3061 cactggctgg ggcttctggg tctcatccaa cctcctgatc acaacaacac acgtcctgcc
     3121 taaggggatt aaggaacttt ttggagttga agtcaaacag atccaaattc ataagtctgg
     3181 agagttctgc aggttcagat tcccgagacc aattagacca gatgtcacag ggctcgtgtt
     3241 ggaggagggt gctccagaag gcactgtctg ctccatactc gtgaagagac ctacaggtga
     3301 gatgatccct ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
     3361 cgtcggtggt cagatgggaa tgcttctcac aggggcaaat gcgaagaaca tggatcttgg
     3421 caccggccct ggtgactgcg gttgtcctta catctacaaa cgtggcaatg atatagttgt
     3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaagg
     3541 gcaagatggg gaggcagtcc ttgagggaaa tgagaacctt ggaacttact gcggtgcccc
     3601 aattttgggt ccaggcaagg cgcccaaact tagcacaaag accaagttct ggcgttcatc
     3661 accagacgct ctgccgccag gcacttatga gcctgcctac ttgggaggca aggaccctag
     3721 agtagaaaaa ggaccatccc tgcagcaagt catgagagac cagctaaaac ctttcacaga
     3781 acccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
     3841 tgttctagaa caaactattg accctgctaa gccatggacc tactcccaag catgcgcctc
     3901 actggacaag accacctcca gtggtagccc tcatcatgtc aggaaaaatg accattggaa
     3961 tggggaatcc ttcactggcc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgagc tagtcaaaac
     4081 tgacaagatc tataagaaga taaagaaaag gctcttgtgg gggtcggatc ttggtacaat
     4141 gatcaggtgt gccagggctt ttggtggtct catggatagc atgaaggcaa gttgcataac
     4201 cctcccatgt agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
     4261 ctctaagtat aggtaccatt atgatgctga ctattccagg tgggactcaa cccagcaaag
     4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgccgaac cagagctggc
     4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggcg actttgtcat
     4441 ctcagtccag gagggtctgc cgtcaggggt cccatgcaca tcacaatgga attcaatagc
     4501 acattggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
     4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 ccttgatccc atgaagttga cacagaaact cagagagtat ggtctagtcc ctactcgacc
     4681 tgacaaaact gagggtcccc ttgtaataac tgaagacctc accggcctaa cgttcctgcg
     4741 taggtcaatt gcacgggatc cagctgggtg gtttggaaaa ttagaccaag actcaatcct
     4801 caggcagttg tactggacaa ggggccccaa tcatgagaac ccatatgaga gcatggtccc
     4861 ccattcccag cgggccacac agcttatggc ccttctcggt gaggcttcac tgcatggccc
     4921 ccagttttat aagaaggtca gcaagatggt cattaacgaa atcaaaagtg gtggtctgga
     4981 attctatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
     5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
     5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
     5161 cacttgagcc ggtagtggga gcttcaatcg cagctcctgt cgtcggccaa caaaacataa
     5221 ttgacccctg gattagagaa aattttgtcc aagcaccaca gggtgagttc accgtctcgc
     5281 cgaggaactc gcctggtgaa atgctattaa atcttgaatt aggcccagaa ctcaaccctt
     5341 acctaagcca tctgtcccgt atgtataatg ggtatgctgg tggcatgcag gttcaggtgg
     5401 tcctagctgg gaatgcgttc acagctggga aaatcatctt tgccgctgtg ccaccacatt
     5461 tccccgtaga aaacatcagt gcagctcaaa taactatgtg cccccatgta attgttgatg
     5521 tgagacaact tgagccagta ctcctacccc ttcctgacat aaggaatagg ttctttcatt
     5581 acaatcagga ggacaccccc cggatgagac ttgtggctat gctttacact cccctgaggg
     5641 ccaactctgg tgaagatgtg tttactgtct cttgtagggt cttgacccgt cctgcccctg
     5701 attttgaatt cactttcttg gtaccaccaa ctgttgaatc aaagactaaa ccttttacac
     5761 tacccgtatt aactcttggt gagctatcta attccagatt cccagcccca atagatatgt
     5821 tgtacactga tccaaatgag ggaattgtgg tccaaccaca aaatggtagg tgcactcttg
     5881 atggcacttt gcaaggcacc acacaactgg tccccaccca aatttgtgct ttcaggggca
     5941 cactaattgg ccaaacatca agatcttcag actcaaccga ctcagcccct cggaggaggg
     6001 atcacccact ccacgtgcaa ttaaagaacc ttgatggcac gcagtatgac cctactgatg
     6061 aagtgccagc agtccttggt gccattgatt tcaaggggac tgtctttggg gtggccagtc
     6121 agagagacgt gtcaggacaa caagtgggag caactcgagc ccatgaagtg cacatcaaca
     6181 caaccgatcc taggtataca ccaaaactgg ggtccattct catgtactca gagtcggaag
     6241 actttgtgac tggacagccg gtccgcttca cacccatagg aatgggtgac aacgactggc
     6301 atcagtggga gctgcccgac tattctggac acctaaccct aaacatgaac ctcgccccag
     6361 cagttgctcc tgcattcccg ggtgagagga ttcttttctt caggtcaatt gtcccgtctg
     6421 ctggtggcta cggctctggg caaatagact gcctcatacc acaggagtgg gttcagcatt
     6481 tctaccaaga agctgcacca tcccaatctg ccgtggcact cattaggtat gtcaaccctg
     6541 acacaggcag aaacatcttt gaggctaaat tgcacaggga aggtttcatc accgtggcta
     6601 attctggcaa caaccctatt gttgtccccc ctaatgggta ttttaggttt gaggcttggg
     6661 tgaatcaatt ttacactttg acccccatgg gaactggtca ggggcgtagg aggaatcaat
     6721 aatggctagt gcttttcttg caggtcttgc tggtgacgtc ataacaaatg gcgttggatc
     6781 tctaataaat gctggagcta atgcagttaa tcagaaagtt gaatatgatt ttaataaaca
     6841 gcttcaaatg gcatcattta aacatgataa agagatgtta caatcacaag tgttggcaac
     6901 caagcagttg cagcaggaga tgatgaacat taggcagggg gtgttgaccg ctggcggctt
     6961 ctcccccgcg gatgctgcta gaggggctgt caatgcccca atgacaaaga ttctggactg
     7021 gaatggcacc aggtattggg caccaaacag catgaaaacc acaagttatt caggacagtt
     7081 ctctagcagc cctgttcata agtcccctgc tccttcccat gctgtttcat caaagagtag
     7141 attgcaaaat gattctgtta gtgtatatag ttccccttct tctgtttctt cacaatcaac
     7201 ccattcaaca gtgctgtcag caggaactgg gtcttccagg tccatctcca catctacagc
     7261 tacccccacc ttgtctagaa ccagcgactg ggttagggga cagaatgaga ggcttagccc
     7321 gtttatggat ggtgctctcc aaactgcctt tgtcacacct ccatcgagca aagcttcttc
     7381 aaatggtacg gtctcaaccg ttcccaaagc tgttttggac tcctggaccc ctatgtttaa
     7441 cacacatagg cagcctctct tcgcccatct gcgcaggcga ggggagtcac aagtttagtg
     7501 aaaagagtga ttaggttttt cttc
//