Typing tool

Complete norovirus genomes

MH218667  GII.6
 GII.P7

Length: 7,521 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218667                7521 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_209_15_12_2015, complete genome.
ACCESSION   MH218667
VERSION     MH218667.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7521)
  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 7521)
  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..7521
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_209_15_12_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="15-Dec-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="AWR17661.1"
                     /translation="MKMASNDATTAFGSQNSVNDSTNTAPSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKASSNDQHCPTVKIGTKTLTVPPEPPNGEDSVQFDAKSETVRGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVHPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRKSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGRLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLMAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSVANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGSDLQTYNFDTNRVSAFRKLAADNKYGVMETMRVGAALKS
                     VKTLEDLKAALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
                     LRLRQARARYYVSCFQDLIYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSGSEK
                     EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIIVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
                     KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6722
                     /gene="ORF2"
     CDS             5079..6722
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17659.1"
                     /translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLGHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
                     LVPTQICAFRGTLIGQTSRTSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
                     AIDFKGTVFGVASQRDVSGQQAGATRAHEVHINTTDPRYTPKLGSILMHSESDDFVTG
                     QPIRFTPIGMGDNDWHQWELPDYSGHLTLNMNLAPAVAPAFPGERILFFRSMVPSAGG
                     YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17660.1"
                     /translation="MASAFLAGLAGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
                     SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
                     TRYWAPNSMKTTSYSGQFSSSPVHKSSAPSHTALPKSRLQNDSASVYSFPSSVSSQST
                     HSTVLSAGTGSSRSTSTSTATPTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSKA
                     SSNGTVSTVPKAVLDSWTPMFNTHRQPLFAHLRRRGESQV"
ORIGIN      
        1 gtgaatgaag atggcgtcta atgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagtact aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcat ccagtaatga
      181 tcagcactgt cccacagtta agatcgggac caaaacacta acagttcccc ctgagccccc
      241 aaatggtgaa gacagcgtgc agtttgatgc gaagtcggaa actgtgcgtg ggctaccaga
      301 cttgacaacg gtgcagaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
      361 aagggagcac agaccagcca ctgagccgct tcctggcaca atactggaga tgtgggatgg
      421 tgagttctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
      481 ccctgcagcg ataagcctcg cgacgataga actcacaccc atatctcttt attggaggcc
      541 cgtttacacc cccaactatc tggtccaccc agacacgtta aaaggcctcg ctggtgagaa
      601 gttcccctac acggctttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
      661 caatgatacg tggcttagca ggaagagcat ctccaggacc accggcttct ttaaaccata
      721 ccagtcttgg aataggaagc cccttccaac cgttgatgat ggaaagatca aaaaggtggc
      781 caacgcaatt ctctgcgcac ttggatcact gttttcaaaa ccaatcaagg acctactggg
      841 cagacttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
      901 tatagtagag acagtcatcc tgatggcgga acttttcaac atcttttgga caccgccaga
      961 cgtttccagc ttcatagcct ccctgatagg tgattttgaa ttgcaggggc ctgaggacct
     1021 ggctgtggaa ctcgtccccg tggtcatggg tggcatagga atggttctcg gctttactgc
     1081 tgagaagata ggccgcatgc tgtcgtccgc tgcgtcaaca ctgcgggcgt gcaaagactt
     1141 ggggaattat gctcttgaca tactgaaact ggttatgaag tggttcttcc caaagaaaga
     1201 agagaaggcc gagatggaaa ctctaagggc gatcgaggat gccgtcctgg acatggaagc
     1261 tataggaaac aaccacctca caaccctcct caaggacaag gatagcctta tggccttcat
     1321 gaagactctg gatctagaag aggagaaggc aaggaaattg tccaccaagt catcctcgcc
     1381 agacattgtc ggcactatta atgccatact ggccagaata gctgctgcca ggtccctttt
     1441 acataaggct aaagaagaaa tgtttagtag gatcagaccc gtggttgtta tgatctcggg
     1501 tagacccggc attggcaaaa cccacatggc aagacacttg gctaagagtg tcgccaacac
     1561 catgagcggc gaccagagag taggactcgt tccacgcaac ggggtcgatc actgggacgc
     1621 ctatagggga gagagggtgg ttttatggga tgattatggc atgggaaacc ctgtcaaaga
     1681 tgccctaaca ctgcaagagt tggctgacac ctgcccagta actttgaact gtgataggat
     1741 tgagaacaag ggaaagatgt tcgacagcga tgttatcata atcacaacca atttagtcaa
     1801 cccagcgccc ctcgattacg taaacttcga ggcgtgctcc agaagggtcg actttctggt
     1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagat ttccccggcc aacctgacat
     1921 gtggaaggac cattttaagc cagacttttc ccacataaag ctgactctag ccccacaggg
     1981 tggatttgac aagaatggta acaccccgca tggtaagggc accatgcgat ccctaaccca
     2041 ggggtccctg actgcaaggg tcgcaggtct tgttcatgag aggagagatg agtttcagct
     2101 ccaggggagc gaccttcaaa catacaactt tgacaccaac agggtctctg catttaggaa
     2161 gctggccgca gacaacaagt atggggtcat ggagacaatg agagtgggtg cggcgcttaa
     2221 gagtgtcaag accttggaag atctgaaagc tgccctgagg gatgtgaagt tcaatgagtg
     2281 tgagataatt tacaggaact ccaaataccg agtctcttcc aatggcaaag gctctgtttc
     2341 tgttgacaaa gttgaggatc aaacatccca gactgcaaac gaagtgggtg cagcactcct
     2401 cagactcagg caggcaagag ccagatacta tgtcagctgc ttccaagatc tcatctacac
     2461 tctaatacag gtcgccggag catcattcgt tgtcaacagg atttctaaaa ggttctgctg
     2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt ggatccgaaa aggaagtggc
     2581 ccaaggtaga tgggagattg aacccaagga cacagaacca gaaggtaaga agggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcctga gtgatgagga
     2701 gtatgacgag ttcaagagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
     2761 cctgcaggat cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
     2881 gaggaaggaa gaaagggggg ttcttggttt ggtcactggc tcagacatca ggaagaggag
     2941 accagacgac tttcaaccga aaggcaacct gtgggcagac gacaccagga gtgtagatta
     3001 taacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
     3061 cactggctgg ggcttctggg tctcatccaa cctcctgatc acaacaacac acgtcctgcc
     3121 taaggggatt aaggaacttt ttggagttga aatcaaacag attcagattc acaagtctgg
     3181 agagttctgc aggtttagat tcccgagacc aatcagacca gatgtcacag ggctcgtgct
     3241 ggaggaaggt gctccagaag gcactgtctg ctccatactc gtgaagagac ctacaggtga
     3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatcc atgaagatac agggtaggac
     3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggaccttgg
     3421 caccggccct ggtgactgcg gttgccctta tatctacaaa cgtggcaatg atataattgt
     3481 cgcgggtgtt cacaccgcag cagcccgggg aggtaacact gtcatatgtg ccactcaagg
     3541 gcaagatggg gaggcagtcc ttgagggaaa tgagaatctt ggcacttact gcggtgcccc
     3601 aatcttgggt ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgttcatc
     3661 accagacgct ttgccgccag gcacttatga gcctgcctac ctgggaggca aagaccctag
     3721 agtggaaaaa ggaccatccc tgcagcaagt catgagggac cagctaaagc ccttcacaga
     3781 acccaggggc aagccaccta gacctgcagt tttagaagaa gccaaaaaga cagtgatgaa
     3841 tgttctagaa caaactattg accctgctaa gccatggacc tactcccaag catgtgcctc
     3901 actggacaaa accacttcta gtggtagtcc ccaccatgtc aggaaaaatg accattggaa
     3961 tggggaatcc ttcactggcc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 acaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgagt tagttaaaac
     4081 tgacaagatc tacaaaaaga taaagaaaag gctcttatgg gggtcggatc tcggtacaat
     4141 gatcagatgt gccagggcct tcggcggtct catggatagc atgaaggcaa gttgcatagc
     4201 cctcccatgc agggtaggaa tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
     4261 ttccaagtat aggtaccatt atgatgctga ctactccagg tgggactcaa cccagcaaag
     4321 gagcatcctt tcggccgcta tggaagtgat ggtgcggttc tctgccgagc cagagctggc
     4381 acaagtggtt gcagaggatc tcctggcacc cagccaactg gatgttggcg actttgtcat
     4441 ctcagtccag gagggtctgc catcaggggt cccatgtaca tcacaatgga attcaatagc
     4501 acattggatc ctgaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
     4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 tcttgatccc atgaagttga cacaaaaact cagagaatat ggcctggtcc ctactcgacc
     4681 tgacaaaact gagggccccc tcgtaataac tgaagacctc accggcctaa cgttcctgcg
     4741 taggtcgatt gcacgggacc cagctgggtg gtttggaaaa ttagaccagg actcaatcct
     4801 tagacagtta tactggacaa ggggccccaa tcatgagaac ccatatgaga gtatggtccc
     4861 tcattcccag cgggccacac agctcatggc ccttctcggt gaggcttcac tgcatggccc
     4921 ccagttttac aagaaggtta gcaagatggt catcaatgaa atcaaaagtg gtggtctgga
     4981 attttatgtg cccagacaag aggccatgtt tagatggatg agattctctg acctcagcac
     5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
     5101 ctgctccatc aaatgatggt gctgccaacc tcgtaccaga ggccaacaat gaggttatgg
     5161 cacttgaacc ggtggtggga gcctcaattg cagctcctgt tgtcggccaa caaaacataa
     5221 ttgacccctg gattagagaa aattttgtcc aagcaccaca gggcgagttc accgtctcac
     5281 cgaggaactc gcctggtgag atgctattaa atcttgaatt gggcccagaa ctcaaccctt
     5341 acttaggtca cctgtcccgt atgtataatg ggtatgctgg tggcatgcag gttcaggtgg
     5401 tcctagctgg gaatgcgttc acagctggga aaatcatctt tgccgccgtg ccaccacatt
     5461 tccccgtaga aaacattagt gcagctcaaa taactatgtg cccccatgtg attgtcgatg
     5521 tgagacaact tgagccagtg cttctgcccc ttcctgacat aaggaacagg ttctttcatt
     5581 acaaccagga gaacaccccc cggatgagac ttgtggctat gctctatacc cccctaaggg
     5641 ccaactctgg tgaagatgtg tttactgttt cttgtagggt cttgacccgt cctgcccctg
     5701 attttgaatt tactttctta gtgccaccaa ctgttgaatc aaagactaag ccttttacat
     5761 tgcctatatt aactcttgga gagctatcta actcaaggtt cccagcccca atagatatgt
     5821 tgtacactga cccaaatgag ggaattgtgg tccaaccaca aaatggtagg tgcactcttg
     5881 atggcactct gcaaggtacc acacaattgg tccccaccca aatttgtgct ttcaggggca
     5941 cactaattgg ccaaacatca agaacttcag actcaaccga ctcagcccct cggagaaggg
     6001 atcaccctct ccatgtgcaa ttaaagaacc ttgatggcac gcagtacgac ccaactgatg
     6061 aagtgccagc agtccttggt gccattgact tcaaggggac tgtctttggg gtggccagtc
     6121 agagagatgt gtcaggacaa caagcggggg caactcgagc tcacgaagtg cacatcaaca
     6181 caaccgatcc taggtacaca ccaaaactgg gatccattct catgcactca gagtcggacg
     6241 actttgtgac tggacagccg atccgtttca cacccatagg aatgggtgac aacgactggc
     6301 accaatggga gctgcctgac tactctggac acctaaccct gaacatgaac cttgccccag
     6361 cagttgctcc tgctttcccg ggcgagagga ttcttttctt caggtcaatg gtcccgtctg
     6421 ctggtggcta tgggtccgga caaatagatt gcctcatacc acaggaatgg gttcagcatt
     6481 tctaccaaga agctgcacca tctcaatccg ccgtggcact cattaggtat gtcaatcctg
     6541 acacaggcag aaacatcttt gaggccaaat tgcacaggga aggtttcatc accgtggcaa
     6601 attctggcaa caaccccatt gttgtccccc ctaatgggta ctttaggttt gaggcttggg
     6661 tgaatcaatt ttatactttg acccccatgg gaactggtca ggggcgtagg aggaatcaat
     6721 aatggctagt gcttttcttg caggtcttgc tggcgacgtc ataacaaatg gcgttggatc
     6781 tttaataaat gctggagcta atgcagttaa tcagaaagtt gaatatgatt ttaataaaca
     6841 gcttcaaatg gcatcattta aacatgataa agagatgttg caatcacaag tgttggcaac
     6901 caaacagttg cagcaggaga tgatgaacat aaggcagggg gtgttgaccg ctggcggctt
     6961 ctcccccgcg gatgctgcta gaggggccgt caatgcccca atgacaaaga ttctggactg
     7021 gaatggcacc agatattggg caccaaacag catgaaaacc acaagttatt caggacagtt
     7081 ttctagcagc cctgttcaca agtcctctgc tccttctcac accgctttgc cgaagagtag
     7141 attgcaaaat gattctgcta gtgtatatag ctttccttcc tctgtttcct cacaatcaac
     7201 ccattcaaca gtgctgtcag caggaaccgg gtcttccagg tccacctcca catccacagc
     7261 gacccctacc ttgtctagaa ccagcgactg ggttagggga cagaacgaga ggctcagccc
     7321 gtttatggat ggtgctctcc aaactgcctt tgtcacacct ccatcgagca aagcttcttc
     7381 aaatggtacg gtctcaaccg ttcccaaagc tgttttggac tcctggaccc ctatgtttaa
     7441 cacacacagg cagcctctct tcgcccatct acgtagacga ggggagtcac aagtttagtg
     7501 aaaagagtga ttaggttttc t
//