Typing tool

Complete norovirus genomes

MH218639  GII.6
 GII.P7

Length: 7,550 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218639                7550 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_170_23_09_2014, complete genome.
ACCESSION   MH218639
VERSION     MH218639.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7550)
  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 7550)
  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..7550
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_170_23_09_2014"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="23-Sep-2014"
                     /note="genotype: GII.P7_GII.6"
     gene            5..5098
                     /gene="ORF1"
     CDS             5..5098
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17577.1"
                     /translation="MKMASNDATTAFGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EVEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
                     VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
                     LRLRQARARYYVSCFQDLIYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
                     EVAQGRWEIEPKDTESEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
                     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="AWR17575.1"
                     /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVMGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFSAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQENNPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
                     LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
                     AIDFKGTVFGVASQRNTTGGSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG
                     QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
                     YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17576.1"
                     /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNRQLQLA
                     SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
                     TRHFAPNSMKTTSYSGQFSSNPVHRQPTSPRSDSPKIKVNSDSASVYSSASIAPSQST
                     HSTALTAGSSSSRTTPSSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
                     SSYGSVSTVPKAILDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagcatc aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggtttt aagaaaatgc tgggtgccgt tcctaagggg accaaagcac ccagtagtga
      181 tcagcactgc ccatcagtta agatcgggac taagacatta acagttcccc ctgagccccc
      241 aaatggtgaa gacaccgtgc agtttgatgc gaagtcggaa actgtgcgcg ggctaccaga
      301 cttgacaacg gtgcagaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
      361 aagggagcac agaccagcca ctgagccgct tcctggcaca atactggaga tgtgggatgg
      421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gcccttgggg tccacaagcc
      481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
      541 cgtttacacc cccaactatc tggtctgccc agacacgttg aaaggccttg ctggtgagaa
      601 gttcccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
      661 caatgacacg tggcttagca ggaggagcat ctctaggact accggcttct tcaaaccata
      721 tcagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca aaaaggtggc
      781 caacgcaatt ctctgcgcac ttggatcact gttttcaaaa ccaatcaagg acctattggg
      841 caaacttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga catttgcggg
      901 tatagtagag acagtcatcc taatggcgga acttttcaac atcttttgga caccgccaga
      961 tgtttccagt ttcatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaggacct
     1021 ggctgttgag cttgtccccg tggtcatggg tggcatagga atggttctcg gctttactgc
     1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctacgggcat gcaaagactt
     1141 ggggaattat gcccttgaca tattgaaact ggttatgaag tggttcttcc caaagaaaga
     1201 agagaaagcc gagatggaaa ccctaagggc gattgaggat gccgtcctag acatggaagc
     1261 tataggaaat aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
     1321 gaagactcta gatctagaag aggagaaggc aaggaagctg tccaccaaat catcctcgcc
     1381 agacatcgtt ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
     1441 gcacaaagcc aaagaagaaa tgtttagcag gatcagacct gtggttgtca tgatctcggg
     1501 tagacctggt attggcaaaa cccacatggc aagacacttg gctaagagca tcgccaacac
     1561 catgagcggc gaccagagag tagggctcgt cccacgcaac ggggtcgatc attgggacgc
     1621 ctacagggga gagagggtgg tcttgtggga tgattatggc atgggaaacc ctgtcaaaga
     1681 tgccctaaca ctgcaagagt tggccgacac ctgcccagta actctaaact gtgataggat
     1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca acttagtcaa
     1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctagt
     1861 ctatgcagag tcaccagaag ttgagaaggt taagagagac ttccccggcc aacctgacat
     1921 gtggaaggac cattttaagc cagacttttc ccacataaaa ctgactctag ccccacaggg
     1981 tggatttgac aagaatggca acaccccaca tggtaagggc accatgcgat ccctaaccca
     2041 ggggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
     2101 ccaggggaac gaccttcaaa catacaactt tgacaccaac agggtctctg catttaggaa
     2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
     2221 gagtgtcaag accttggaag atttgaaagt tgcactgagg gatgtgaagt tcaatgagtg
     2281 tgagataatt tacagaaact ccaaataccg agtctcttcc aatggtaaag gttctgtctc
     2341 tgttgacaaa gttgaggacc aaacatccca gactgcaaac gaagtgggtg cagcactcct
     2401 cagactcagg caggcaagag ccagatatta tgtcagctgc ttccaagatc tcatttacac
     2461 cctaatacag gtcgccggag catcattcgt tgtcaacagg atctctaaaa ggttctgctg
     2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt gaatccgaaa aggaagtggc
     2581 ccaaggcaga tgggagattg agcccaagga cacagaatca gaaggtaaga aaggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
     2701 atatgacgag ttcaagagaa ttagagaaga gaggaacgga aaatactcca ttgaggaata
     2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
     2881 gaggaaggaa gaaagggggg tgcttggttt ggtcactggc tcagacatca gaaagagaag
     2941 accagacgat tttcaaccga agggtaacct gtgggcagac gacaccagga gtgtggacta
     3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
     3061 cactggctgg ggcttctggg tctcatcaaa cctcctgatc acaacaacac acgtcctgcc
     3121 caagggaatt aaggaacttt ttggggttga aatcaaacag attcaaattc ataagtctgg
     3181 agagttctgc aggttcagat tcccgagacc aattagacca gatgtcacag ggctcgtgtt
     3241 ggaggaaggc gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
     3301 gatgatcccc ctagcagtga ggatgggcac gcatgcgtcc atgaaaatac agggtaggac
     3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggaccttgg
     3421 caccggtccc ggtgactgcg gttgccctta catctacaaa cgtggcaatg atatagttgt
     3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaatact gtcatatgtg ccactcaagg
     3541 gcaagatggg gaagcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgcccc
     3601 aatcctgggt ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgctcatc
     3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggta aggaccccag
     3721 agtggaaaaa ggaccatccc tgcagcaagt catgagggac cagctaaaac ctttcacgga
     3781 acccagaggc aagccaccta gacctgcagt cttagaagaa gctaaaaaga cagtgatgaa
     3841 tgttctagag caaaccattg accccgctaa gccgtggacc tattcccaag catgtgcctc
     3901 actggacaag accacttcca gtggtagccc ccatcatgtt aggaaaaatg accattggaa
     3961 tggggaatcc ttcactggtc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgaac tagttaaaac
     4081 tgacaagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
     4141 gatcaggtgt gccagggcct tcggcggtct catggatagc atgaaggcaa gttgcatagc
     4201 cctcccatgt agggtaggta tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
     4261 ttctaagtat aggtaccatt atgatgctga ctactccagg tgggactcaa cccagcaaag
     4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgccgagc cagagctggc
     4381 acaagtggtt gcagaggacc tcctggcacc cagtcaactc gatgttggag atttcgtcat
     4441 ctcagtccag gagggtctgc catcgggggt tccatgcaca tcacaatgga attcaatagc
     4501 acactggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
     4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 ccttgatccc atgaagttga cacagaaact cagagagtat ggcctggtcc ccactcgacc
     4681 tgacaaaact gagggtcccc tcgtaataac tgaagatctc accggcctaa cgttcctgcg
     4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccagg actcaatcct
     4801 cagacagttg tattggacaa ggggccccaa tcatgagaac ccatatgaga gcatggtccc
     4861 tcattcccag cgggccacac agcttatggc ccttctcggt gaggcttcac tgcatggccc
     4921 ccagttttac aagaaggtta gcaagatggt cattaatgag atcaaaagtg gtggtctgga
     4981 attctatgtg cccagacaag aggccatgtt cagatggatg agattctctg acctcagcac
     5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
     5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaccaat gaggttatgg
     5161 cacttgagcc ggtgatggga gcctcaattg ctgctcctgt cgtcggccaa caaaatataa
     5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttt actgtttcac
     5281 caaggaactc acctggtgag atgcttctaa atcttgaatt aggtcctgag ctcaaccctt
     5341 atttgagtca cttgtcccgc atgtataatg gctatgctgg tggtatgcag gttcaggtgg
     5401 tcctagctgg gaatgcgttc acagctggta aaatcatctt ttccgccgtc ccaccacatt
     5461 tccctgttga gaacattagt gcagcccaaa ttacaatgtg cccccatgta attgttgatg
     5521 taagacagct tgagccagtg cttttgcccc tccctgacat aaggaataga ttcttccatt
     5581 ataaccagga aaacaacccc cggatgagac ttgtggctat gttgtataca ccccttagag
     5641 caaattctgg tgaggatgtg tttacggtgt cttgtagagt cctgacccgc cctgcccccg
     5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccctttacac
     5761 tccctattct gactcttgga gagctatcca actccagatt ccccgctccg atagacatgt
     5821 tgtacaccga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcactctag
     5881 atggaacact tcaagggact acccaactgg tgcccaccca aatttgctcc ttcaggggca
     5941 cgctaattag ccagacgtcg aggtctgcag attcaacaga ttcagcccca cgggtgagga
     6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatatgac ccaacagatg
     6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gtcgctagtc
     6121 aaagaaacac cacagggggc tctataggag caacccgcgc ccatgaagtg cacatagaca
     6181 ccacaaaccc tagatatacc ccaaagcttg gctctgtgtt gatgtattct gaatccactg
     6241 attttgatga tggacaaccc acccgcttta cccctattgg catgggagcc gatgattggc
     6301 accaatggga attgcccgaa tattctggtc acctcactct caacatgaat ttggcccctg
     6361 cagttgctcc tgctttccct ggtgagcgca ttctcttctt cagatcagtg gtgccgtctg
     6421 ctggtggcta tggatcaggt cacatagatt gcctcatccc acaggagtgg gttcaacatt
     6481 tctaccagga ggccgcccca tcacagtctg cggtggctct tatcagatat gtcaaccctg
     6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcaa
     6601 attctggaaa taaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
     6661 tcaatcaatt ctatacactc acccccatgg gaactggaca ggggcgcaga agagttcaat
     6721 aatggcggga gctttcttag ctggattggc aggtgacgcc ataacaagtg gtgtcgggtc
     6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaatagaca
     6841 gctccaattg gcatccttca aacatgacaa agagatgttg cagtcacaag tactggccac
     6901 taaacagctc cagcaggaaa tgatgaatat acggcaaggg gttttgtccg ctggcggctt
     6961 ttcccctaca gatgccgcga gaggtgctgt gaacgcaccg atgacaaaaa ttttggactg
     7021 gaatggaaca aggcactttg ccccaaatag tatgaagaca accagttatt cgggccagtt
     7081 ttccagcaac cctgtacaca ggcaacccac ttcaccccgt tctgattccc caaaaatcaa
     7141 agttaatagt gattctgcta gtgtgtatag ttctgcatct attgctcctt cacaatcaac
     7201 ccactcaacg gctctgactg cggggtccag ctcatctagg acaacaccct cttctgcagt
     7261 agcttccact ctatctagga ctagtgattg ggtgagagga caaaatgaga ggcttagccc
     7321 gtttatggat ggtgctctcc aaacaacttt tgtcacacca ccatcgagca aggcttcatc
     7381 atatgggtcg gtctcgaccg ttcccaaagc tattttggac tcctggactc ctatgtttaa
     7441 tacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
     7501 aaaagattga ttaggttttc tttctttctt cttttccttt tctttctttt
//