Typing tool

Complete norovirus genomes

MH218658  GII.7
 GII.P7

Length: 7,542 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS       MH218658                7542 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_197_04_11_2015, complete genome.
ACCESSION   MH218658
VERSION     MH218658.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7542)
  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 7542)
  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..7542
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_197_04_11_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="04-Nov-2015"
                     /note="genotype: GII.P7_GII.7"
     gene            5..5098
                     /gene="ORF1"
     CDS             5..5098
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17634.1"
                     /translation="MKMASNDATAAFGSQNSVNDSNNATPSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSGQHCPTAKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFVASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKN
                     VKTLEDLKIALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDSASQTVNEVQSAI
                     LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTETQEVNESEK
                     EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEIKQVQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILIKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQIMRDQLRPFTEPRG
                     KPPRPAVLEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6701
                     /gene="ORF2"
     CDS             5079..6701
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17632.1"
                     /translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
                     QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
                     MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
                     IRNNFFHYNQGNDPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
                     TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
                     PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
                     GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
                     AGDTSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
                     CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
                     MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
     gene            6701..7474
                     /gene="ORF3"
     CDS             6701..7474
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17633.1"
                     /translation="MASAFLANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
                     SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
                     TRYWAPGAMRTTGYSGTFTHLPPVQSASYVNNQNRQPLKVDSSPPSSSGSSVSSVRTQ
                     STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMNGALQTTYVTPPSSRAS
                     SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQS"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cgctgccttt ggcagtcaaa actctgtcaa
       61 tgacagcaac aacgccaccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggattc aagaaaatgc tgggtgccgt tcccaagggc accaaagcac ccagcagtgg
      181 tcaacattgc cccacagcta agatcgggcc taaaacatta acaattcccc ctgagccccc
      241 aaatggtgaa gacaccgtac aatttgatgc aaagtcagaa actataattg gattgccgga
      301 cttgacaaca gtgcaaaatg aacatgaaaa caccccatac actgtccctc cattaagtga
      361 gagggagcac agaccggcca ccgaaccact tcccggcaca atattggaaa tgtgggatgg
      421 cgagttttac cattattccg tgtacgtcag cgacggcaaa gctctggggg tccacaaacc
      481 accggcagct ataagcctcg cgacgataga gctcaccccc atatcacttt actggaggcc
      541 tgtttacact cccaattact tggtctcccc ggacacatta aagggtctcg ctggtgagaa
      601 gttcccctat acggccttca gtaataactg ttataatttt tgttgttggg tgcttgagct
      661 caacgacacg tggcttaaca gaagatgcat ttctagaacc actggcttct tcaagccata
      721 ccagtcttgg aacagaaaac ctctcccaac cgttgatgat ggaaagatta aaaaggtggc
      781 caacgcaatc ctctgtgcac tcggctcact gttctcaaaa ccaatcaaag acctgttagg
      841 caaactcaag ccactgaatc tactgcactt gcttgcgtct tgtgattgga cgtttgcggg
      901 tatagtggag acagtcatct tgatggcgga gcttttcaat gtcttttgga cccccccaga
      961 tgtctctaat tttgtagcct ccctaatagg tgattttgaa ttgcaagggc ctgaggacct
     1021 ggctgtggag ctcgtccccg tggttatggg tggcataggg atggttctcg gtttcaccgc
     1081 cgagaagata ggtcgcatgt tgtcgtccgc tgcatcaaca ctgcgggcgt gcaaagacct
     1141 aggaaactat gcccttgaca tactcaaatt ggtcatgaag tggttcttcc cgaagaagga
     1201 agagaaagct gagatggaaa ccttgagagc gattgaagat gccgtcctag atatggaagc
     1261 tatagggaac aaccacctca caacccttct caaggacaaa gatagcctca cggctttcat
     1321 gaagaccctg gatctggaag aggagaaggc aaggaaactg tccactaaat catcttcacc
     1381 ggacatagtc ggcaccatca atgccatact ggctaggata gctgctgcta gatcccttct
     1441 acataaggcc aaagaggaga tgttcagcag gattaggcca gtggttgtta tgatctcagg
     1501 caggcctggc attggaaaaa cccacatggc gagacatttg gctaagagca tcgccaacac
     1561 catgagtggc gaccagaggg tcgggcttgt tccgcgcaac ggcgtcgacc actgggatgc
     1621 ctacagggga gagagggtgg tcttgtggga tgattacggc atggggagcc ccgttaagga
     1681 cgctctaaca ctacaagagc tggccgacac atgcccagtc actttgaatt gtgacaggat
     1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca acctagtcaa
     1801 ccccgcgccc ctcgactatg tgaacttcga ggcgtgttct aggagggttg acttcctggt
     1861 ctatgcagag tcaccagaaa ttgaaaaggt caagagagac ttccctggcc agcctgacat
     1921 gtggaaagac cattttaaac cagacttctc tcacatcaag ctgactctag ccccccaggg
     1981 tgggtttgac aaaaatggca acaccccaca cggtaaggga accatgcggt ccctaaccca
     2041 ggggtccctg actgcgagag ttgcaggcct tgtccatgag aggagagatg aattccaact
     2101 ccaaggaaat gacctccaaa catacaactt tgacaccaac agagtctccg cattcagaaa
     2161 attggctgca gataacaagt atgggatcat ggaaacgatg agagtaggtg cggcactcaa
     2221 gaatgtgaag accctggaag atcttaaaat tgcattgagg gatgtaaaat tcaatgagtg
     2281 tgaaataatc tacagaaact ctaagtatcg ggtctcttcc aacggtaaag gctcagtttc
     2341 tgttgacaaa gttgaggaca gtgcatccca gactgtaaac gaggtacaat cagcaattct
     2401 caggctcagg caagcgaggg ccagatatta catcagctgc ttccaagatc tcgtctacac
     2461 tcttatacag gttgccggag catcattcgt tgtcagcagg atctccagaa ggttctgctg
     2521 ggaaaggtgg gtcaaaccga ccgagaccca ggaggtaaat gagtccgaaa aggaagtggc
     2581 acagggcaga tgggaaattg agcccaagga tacagaacca gaaggcaaga agggaaagaa
     2641 taagaaagga aggggtaaga aacacacagc tttctctagc aaaggcctga gtgatgaaga
     2701 gtatgatgag ttcaagagaa tcagggaaga aagaaacgga aagtactcca ttgaggaata
     2761 cctgcaagac cgggaccgct attatgaaga agtggcagtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaagagg ccaagataag acaaagaatt ttccgcccga caaagaaaca
     2881 gaggaaggag gaaaggggtg tgcttggcct agtcaccggc tctgacatca ggaagagaag
     2941 accagatgac ttccaaccaa aaggcaactt atgggcagat gacaccagaa gcgtggacta
     3001 caatgagagg ctcgactttg aagcgccccc gagtgtttgg tcaagaatag tcccattagg
     3061 cactggttgg ggattctggg tttcatccaa ccttctgatc acaacaacac acgtcctgcc
     3121 taaagggatt aaggagctct ttggagttga aatcaagcaa gtccaagttc ataagtctgg
     3181 agagttttgc aggttcagat tcccaagacc tatcagacca gatgtcacag gactcgtgct
     3241 ggaggaaggc gccccagaag gcactgtctg ttctatactc ataaaaagac ccacaggtga
     3301 gatgatcccc ttagcagtga ggatgggcac acatgcgtcc atgaaaatac agggcaggac
     3361 tgttggtggc cagatgggaa tgcttctcac aggagcaaac gcgaagaaca tggacctcgg
     3421 caccggtcct ggtgactgcg gttgtcctta catctacaaa cgcggcaacg acattgttgt
     3481 cgcaggtgtt cataccgcag cagcccgagg aggcaacact gttatatgtg ccacccaagg
     3541 gcaagatggg gaagcagtcc ttgaggggaa tgaggacctt ggcacctatt gtggcgcccc
     3601 aattctgggc cctggcaagg cgcctaaact cagcacgaag accaagtttt ggcgttcatc
     3661 accagatgcc ttaccacctg gcacgtatga acctgcttac ctagggggca aagaccctag
     3721 agtggaaaaa ggtccttccc ttcaacaaat tatgagagat cagttgagac ccttcacaga
     3781 acccaggggc aaaccaccta gacctgcagt tttggaagaa gccaaaaaga cagtgatgaa
     3841 cgttctagag caaaccattg accccgctaa gccatggtcc tactcgcagg catgtgcctc
     3901 actggataaa accacctcca gtggtagtcc ccatcatgtt aagaaaaatg accactggaa
     3961 tggggagtcc ttcactggcc cacttgcaga tcaggcatct aaagccaacc tcatgtatga
     4021 gcaggctaag catgtgcaac ccgtgtatac ggctgcgctc aaagatgagc ttgttaagac
     4081 tgacaagatc tacaaaaaga taaagaagag gctcctatgg gggtcggacc ttggcacaat
     4141 gatcaggtgc gccagggcct ttggtggtct catggacagc atgaaggcaa gctgtatagc
     4201 tctcccttgc agggtaggga tgaacatgaa tgaagatggc cctattatat ttgacaaaca
     4261 ttctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccaacaaag
     4321 gagcattctt tctgctgcca tggaagtgat ggtgcggttc tctgctgaac cagaattggc
     4381 acaagtggtt gcagaggacc ttttagcacc tagccagctt gatgttggcg attttgtcat
     4441 ctcagtccag gagggtctac catcaggagt cccatgtaca tcacaatgga attcaatagc
     4501 acactggatc ctaactttga gtgcaatggc agaagtatca ggtctctcac cagatgtcgt
     4561 ccaagctcac tcttgttttt ccttttatgg ggacgatgag atcgtcagta ctgatatcaa
     4621 ccttgacccc atgaagttga cacagaaact cagagagtat ggcctggttc ccactcggcc
     4681 tgataaaact gaaggtcccc tcgtcataac tgaagacctc accggcctga cattccttcg
     4741 taggtcgatt gctcgggacc cagctggttg gtttggaaag ctggaccaag actcaatcct
     4801 taggcagctg tactggacaa gggggcccaa ccatgagaac ccgtacgaga gcatggttcc
     4861 tcattctcag cgggccacac aactcatggc ccttcttggt gaggcctcac tacatggtcc
     4921 ccagttttac aagaaagtta gcaagatggt catcaatgag attaagagtg gtggtctgga
     4981 gttttatgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
     5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
     5101 cagctccatc taacgatggt gcagcaggcc tcgtaccaga gatcaacaat gaggtcatgc
     5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa caaaatataa
     5221 ttgatccctg gataagaaat aattttgtac aagctcctgc aggtgagttt acagtctccc
     5281 ctagaaattc ccctggtgaa attttgcttg atttggagtt gggaccagaa ctgaacccct
     5341 atctcgctca tctggcccgt atgtataatg ggcacgctgg tggcatggaa gtgcaaattg
     5401 tgttggctgg gaatgcgttc acagctggca agatcatatt tgctgccatc cctccagggt
     5461 tcccatatga aaatttgtca ccttcacaaa tcacaatgtg ccctcatgtt ataattgatg
     5521 ttagacaatt agaaccagtt ctattaccta tgccagatat tagaaacaat ttcttccatt
     5581 acaatcaggg caatgaccca aaattgagat tgatagccat gctctacacc cctttaaggg
     5641 ctaacaattc tggtgatgat gtgttcacag tttcttgtag ggtcctcact aaaccgtcac
     5701 ctgattttga attcacattt ttggtccccc ctacggttga atctaagacc aaacagttca
     5761 cattgcccat cctcaaaata tcagagatga ccaactcaag attcccagtt ccagtggaaa
     5821 tgatgtacac agccaggaat gagaaccaag ttgtccagcc acagaatggt agggtcacac
     5881 ttgatggcga gctattaggc accacaccct tgttggctgt caacatctgc aaattcaagg
     5941 gggaggttat agctaagaat ggggatgtga gatcctatag gatggacatg gaaattacca
     6001 acactgatgg caccccaatt gaccccacag aagacacacc tggtcccatt ggttcacctg
     6061 actttcaagg tatactcttt ggcgttgcca gtcaacgcaa caagaatgag cagaaccctg
     6121 ccacgagagc ccatgaagcc aacattaaca ctggtgggga ccaatatgcc cccaaattgg
     6181 cccaagtgaa attcttttca gagtcccagg atttcgaggt gcaccagccc acagttttca
     6241 ccccagttgg tgtggcaggc gacacctccc accctttcag acagtgggtc ttgcctcgat
     6301 acggtgggca tctcaccaac aacacccatt tggctccagc agtggccccc ttattcccag
     6361 gtgagcagat tctattcttt agatcacaaa tacccagctc gggtggccat gaattgggct
     6421 acatggactg ccttgtcccg caagaatggg tccaacactt ctaccaagaa gctgccacag
     6481 ctcagtctga ggtggcactc atacggttca tcaacccaga cactggcaga gtcctctttg
     6541 aggccaagtt gcacaagcaa ggctttataa ccgtggctca cactggtgat aacccaattg
     6601 tcatgccacc aaatgggtac tttagatttg aagcctgggt taatcagttt tactcactcg
     6661 cccccgtggg aactgggaat gggcgcagga ggatccaata atggccagtg ctttccttgc
     6721 aaatttggct ggaggcgttg cctccaatgg aattagttca ctcataaatg ctggggctaa
     6781 tgctattaat caaaaggttg agtttgatta caacaaacaa ctccaaaatg catccttctc
     6841 ccatgataag gaaatgctcc aagcccaaat tgaagccacc aaacgtctgc aacaagaaat
     6901 gattgacata aaacaagggg tgctgacagc tgcgggattc tcccctacgg atgccgcgag
     6961 gggttctgtc ggcgcgccaa tgacaaaatt agttgattgg agtggcacta gatattgggc
     7021 gcctggtgcc atgaggacaa caggctattc agggactttt actcacttgc ctcctgtgca
     7081 gtctgcttca tatgttaata atcaaaatag acaacctctt aaagtagatt cttctcctcc
     7141 ttcttcgagt ggttcttctg tctcttctgt cagaacacaa tcaactaccc tctcaggcac
     7201 ttcaagggtg ggctcctcat ctcagtcaac cctgtcgacc aggccgagca caaggacatc
     7261 tgattgggtg cgcagccaga atgaaaggtt gagtcccttc atgaatggag cgttgcaaac
     7321 aacgtatgta acgccaccgt ccagtagggc atcaagtgtc agcacagtct cgactgtgcc
     7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cactcttcgc
     7441 ccatttgcgt agacgagggg agtcacagag ttagtgaaaa gattggttag gaaagttgat
     7501 tagtttgttt ttctttctac tgttccttta attctttctt tt
//