Typing tool

Complete norovirus genomes

MH218692  GII.7
 GII.P7

Length: 7,502 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS       MH218692                7502 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_236_29_01_2016, complete genome.
ACCESSION   MH218692
VERSION     MH218692.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7502)
  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 7502)
  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..7502
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_236_29_01_2016"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="29-Jan-2016"
                     /note="genotype: GII.P7_GII.7"
     gene            5..5098
                     /gene="ORF1"
     CDS             5..5098
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17736.1"
                     /translation="MKMASNDATAALGSQKSANDSNNATPSNKEEVGTFSNIKVGFKK
                     MLGAVPKGTKAPSSDQHCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTIDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGMVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
                     VKTLEDLKVALRDVKFNECEIIYKSSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSAL
                     LRLRQARARYYISCFQDLVYTLIQVAGASFVVSRISRRFCWERWVKPTEAQEVNEFEK
                     EAAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRG
                     KPPRPAILEEAKKTVMNVLEQTIDPAKPWSYSQACASLDKTTSSGSPHHVKKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHMQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6701
                     /gene="ORF2"
     CDS             5079..6701
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17734.1"
                     /translation="MKMASNDAAPSTDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
                     QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
                     MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
                     IRNNFFHYNQGNDPKLRLIAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
                     TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
                     PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
                     GVASQRNKNEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
                     AGDNSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
                     CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
                     MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
     gene            6701..7474
                     /gene="ORF3"
     CDS             6701..7474
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17735.1"
                     /translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
                     SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
                     TRYWAPGAMRTTGYSGTFTHLPPVQSASYVNNQSRQPLKVDSPPPSSSSSSVSSVKTQ
                     STTLSGTSRVGSSSQSTLSTRPSTRTSDWVRSQNERLSPFMEGALQTTYVTPPSSRAS
                     SISTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cgctgccctt ggcagtcaaa aatctgccaa
       61 tgacagtaat aatgccaccc cttctaacaa agaagaggtt ggtacattct ccaacattaa
      121 agttggattc aagaaaatgc tgggtgccgt acccaaaggt accaaagcac ccagcagtga
      181 tcagcattgc cccacagtta agatcggacc taaaacatta acaatccccc ctgaaccccc
      241 aaacggtgag gataccgtac aatttgatgc aaagtcagaa actataattg ggctaccgga
      301 cttgacaacg gtgcaaaacg aacacgaaaa tactccatac actgtccccc cattaagtga
      361 gagggagcac aggccggcca ctgaaccact tcctggcaca atattggaga tgtgggatgg
      421 tgagttttac cattactccg tgtacgtcag cgatggcaaa gctctgggag ttcacaaacc
      481 accggcggct ataagtctcg cgacgataga gctcaccccc atatcactct actggagacc
      541 cgtctacacc cccaactact tggtctcccc agacacatta aagggccttg ctggtgagaa
      601 gttcccctac acggccttta gcaacaactg ttacaacttc tgttgttggg tgcttgagct
      661 caacgacact tggcttaaca gaagatgcat ctccagaact accggcttct ttaaaccata
      721 ccagtcttgg aataggaaac ctctcccaac tatcgatgat ggaaagatta aaaaggtggc
      781 caacgcgatc ctctgcgcac tcggctcgct gttctcaaaa ccaatcaaag atctattagg
      841 caaactcaag ccattgaatc tactacactt gctcgcgtct tgtgattgga cgtttgcggg
      901 tatggtggag acagtcatct taatggcgga gcttttcaat gtcttctgga ctccgccaga
      961 tgtctccaat ttcatagcct ccttgatagg tgattttgaa ttgcaagggc ctgaagattt
     1021 ggctgtggag ctcgttcccg tggttatggg tggcataggg atggttctcg gcttcaccgc
     1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctgcgggcgt gcaaagacct
     1141 agggaactat gcccttgaca tactcaaatt agtcatgaaa tggttcttcc caaagaagga
     1201 ggagaaagct gagatggaga ccttgagggc gattgaagat gctgtccttg atatggaagc
     1261 tatagggaat aaccacctca caaccctcct caaggacaaa gacagcctca cagctttcat
     1321 gaaaaccttg gatctagaag aggagaaggc gaggaaactg tccactaaat catcttcgcc
     1381 ggacatagtc ggcaccatta acgccatact agctaggata gctgctgcta ggtccctact
     1441 acataaggcc aaagaggaga tgttcagcag gatcagacca gtagtcgtca tgatctcagg
     1501 cagacctggc attggaaaaa cccacatggc gagacacttg gctaagagca tcgccaacac
     1561 catgagtggc gatcagagag tcggactcgt cccacgcaat ggtgtcgatc actgggacgc
     1621 ctacagggga gagagagtgg tcttgtggga tgactacggt atggggagcc ctgttaaaga
     1681 cgccctgaca ctgcaagaat tggccgatac gtgtccagtc actttaaatt gtgataggat
     1741 cgagaataag gggaagatgt ttgatagtga tgtcatcata atcacgacca acctagtcaa
     1801 ccccgcgccc ctcgactatg tgaacttcga ggcgtgttcc aggagagttg atttcctggt
     1861 ctatgcagag tcaccagaaa ttgagaaggt caagagagat ttccctggcc agcctgacat
     1921 gtggaaagat catttcaagc cagacttttc ccacattaag ctgactctag cccctcaggg
     1981 cggttttgac aaaaatggca acaccccaca cggtaagggc accatgcggt ccttgaccca
     2041 ggggtcccta actgcgagag ttgcaggcct tgtccatgag aggagggatg agttccagct
     2101 ccaaggaaat gacctccaaa catacaattt tgacaccaac agagtctccg catttaggaa
     2161 attggccgca gacaacaagt atgggatcat ggagacgatg agagttggca cagcactcaa
     2221 gagtgtgaag accttggaag atctcaaagt tgcattgagg gatgtaaaat tcaatgagtg
     2281 tgaaataatt tacaagagct ctaagtaccg agtctcttcc aacggtaaag gctcagtctc
     2341 tgttgacaaa gttgaagaca atgcttccca gactgtgaac gaggtacact cagcactcct
     2401 cagactcagg caggcaaggg ccagatacta catcagctgc ttccaagacc tcgtctacac
     2461 tcttatacag gttgccgggg catcatttgt tgtcagtagg atctccagaa ggttctgctg
     2521 ggaaaggtgg gtcaaaccga ccgaggccca ggaggtgaat gagttcgaaa aggaagcggc
     2581 ccaaggtaga tgggaaattg agcccaagga cacagaacca gaaggcaaga agggtaagaa
     2641 caagaaagga aggggcaaga aacacacagc cttctctagc aaaggtctga gtgatgaaga
     2701 gtatgacgag ttcaagagga tcagggaaga aagaaatgga aagtactcca ttgaggaata
     2761 cctgcaggac cgagaccgct attatgaaga agtagcagtt gctcgggcaa cagaggagga
     2821 cttctgtgaa gaggaagagg ccaagataag acaaaggatt ttccgcccga caaggaaaca
     2881 gaggaaggag gaaaggggcg tgcttggctt ggtcaccggc tcagacatca gaaagaggag
     2941 accagacgat ttccaaccaa aaggtaacct gtgggcagac gacaccagaa gtgtagacta
     3001 caatgaaagg cttgattttg aagcaccccc gagtgtctgg tcaagaatag tcccattagg
     3061 cactggttgg gggttttggg tttcatccaa ccttttgatc acaacaacac acgtcctgcc
     3121 taaagggatt aaggaactct ttggagttga aatcaaacaa attcaaattc ataaatctgg
     3181 agagttttgc aggtttagat tcccaagacc tatcaggcca gatgttacag gactcgtgct
     3241 ggaggagggc gccccagagg gcactgtctg ttctgtactc gtgaaaagac ccacaggtga
     3301 aatgatcccc cttgcagtga ggatgggcac acacgcatcc atgaaaatac agggcaggac
     3361 cgttggtggc cagatgggaa tgcttctcac aggagcaaac gcaaagaaca tggatcttgg
     3421 caccggccct ggtgactgcg gttgccccta catctacaaa cgtggcaacg acattgttgt
     3481 tgcgggcgtc cacaccgcag cagcccgggg aggcaacact gtaatatgtg ccacccaagg
     3541 gcaagatggg gaagcagtcc ttgagggaaa tgaggatctt ggtacctact gtggtgcccc
     3601 aattctgggc cctggtaagg cgcctaaact cagcacgaag accaagttct ggcgctcatc
     3661 accagatgcc ctgccacctg gcacatatga acctgcttac ctaggaggca aagaccctag
     3721 agtggaaaaa ggcccctccc tgcaacaagt catgagagac cagttgaggc cctttacaga
     3781 acccagaggc aagccaccta gacctgcaat cttagaggaa gccaaaaaga cagtgatgaa
     3841 tgttctagag caaaccattg accctgccaa gccatggtcc tattcgcagg catgtgcctc
     3901 attggacaaa actacctcta gtggtagtcc ccaccacgtt aagaaaaatg accactggaa
     3961 tggggagtcc ttcactggtc cccttgcgga tcaggcttct aaagccaacc tcatgtatga
     4021 gcaggccaaa catatgcagc ccgtgtatac ggccgcactt aaagatgagc ttgttaagac
     4081 tgataagatc tacaagaaga taaagaagag gcttctatgg gggtcagacc ttggcacaat
     4141 gatcaggtgc gccagggctt ttggtggtct catggacagc atgaaggcaa gttgtatagc
     4201 tcttccttgc agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
     4261 ctctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccaacaaag
     4321 gagcattctc tctgccgcta tggaagtgat ggtgcggttt tctgctgaac cagaattggc
     4381 acaagtggtt gcagaggacc ttttggcacc tagccagctt gatgttggcg actttgtcat
     4441 ctcagttcag gagggcctgc catcaggagt cccatgcaca tcacaatgga attcaatagc
     4501 gcactggata ctcactttga gtgcgatggc agaagtgtca ggtctctcac cagatgttgt
     4561 tcaagctcac tcttgttttt cattttatgg ggacgatgag atcgtcagca ctgatatcaa
     4621 ccttgacccc atgaagttaa cacaaaaact cagggagtat ggcctggttc ccacccggcc
     4681 tgacaaaact gaaggtcccc tcgtcataac tgaagacctc actggcctga cgttccttcg
     4741 taggtcgatt gctcgggacc cagctggctg gtttggaaaa ctagaccaag attcaatcct
     4801 caggcaactg tactggacaa gggggcctaa ccatgagaac ccgtacgaga gcatggttcc
     4861 tcattcccag cgggccacac aactcatggc ccttcttggt gaggcctcgt tgcatggtcc
     4921 tcaattttac aagaaagtta gcaaaatggt catcaatgaa attaagagtg gtggtctgga
     4981 gttttacgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
     5041 gtgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
     5101 cagccccatc tactgatggt gcagcaggcc tcgtaccaga gatcaacaat gaggtcatgc
     5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa caaaatataa
     5221 ttgatccctg gataagaaat aattttgtac aggctcctgc aggtgagttt acagtttccc
     5281 ctagaaattc ccctggtgag attttgcttg atttggagtt ggggccagaa ctgaacccct
     5341 atctcgctca tctggcccgt atgtacaatg ggcacgctgg tggcatggaa gtgcaaattg
     5401 tgctggctgg gaacgcgttc acagctggca agatcatatt tgctgccatc cccccagggt
     5461 tcccatatga aaatttgtca ccttcacaga tcacaatgtg ccctcatgtt ataattgatg
     5521 ttagacaatt agaaccagtt ctattaccta tgccagatat tagaaataac ttcttccatt
     5581 acaatcaggg caatgacccg aaattgagat tgatagctat gctctatacc cctctaaggg
     5641 ctaacaattc tggtgatgat gtgttcacag tttcttgtag ggtcctcact aaaccgtcac
     5701 ctgattttga attcacattt ttggtccccc ctacggttga atctaagacc aaacagttca
     5761 cattgcccat cctcaaaata tcagagatga ccaactcaag atttccagtg ccagtggaaa
     5821 tgatgtatac agccaggaat gagaaccaag ttgtgcaacc acagaatggt agggtcacac
     5881 ttgatggtga actattaggc accacaccct tgctggctgt caacatctgc aagttcaagg
     5941 gggaggttat tgctaagaat ggagatgtga gatcctatag gatggacatg gaaattacca
     6001 acactgatgg cactccaatt gaccccacgg aagacacacc tggtcccatt ggttcacctg
     6061 actttcaagg tatacttttt ggcgttgcca gccaacgcaa caagaatgaa caaaaccccg
     6121 ccacgagagc ccatgaagcc aacattaata ctggtgggga ccaatatgcc cccaaattgg
     6181 cccaagtgaa attcttttca gagtcccagg atttcgaggt gcaccagccc acagttttca
     6241 ccccagttgg tgtggcaggc gacaactccc accctttcag acagtgggtc ctgcctcgat
     6301 acggcggaca tctcaccaac aacacccact tggctccagc ggtggccccc ctgtttccag
     6361 gtgagcagat tctgttcttt agatcacaaa tacccagctc aggcggccat gaattgggct
     6421 acatggactg ccttgtccca caagaatggg tccaacactt ctatcaagaa gctgccacag
     6481 ctcagtctga agtggcactc ataaggttca ttaacccaga cactggcaga gtcctctttg
     6541 aggccaagtt acacaagcaa ggctttataa ctgtggctca tactggtgat aacccaattg
     6601 tcatgccacc aaatgggtac ttcagatttg aagcctgggt caatcagttt tactcactcg
     6661 cccccgtggg aactgggaat gggcgcagga ggatccaata atggctagtg ctttctttgc
     6721 aaatttggca ggaggcgttg cctccaatgg aattagttca cttataaatg ctggggctaa
     6781 tgctattaac caaaaggttg agtttgatta taataaacaa ctccaaaatg catccttctc
     6841 tcatgataaa gaaatgctcc aagctcaaat tgaagccacc aaacgtctgc aacaagagat
     6901 gattgacata aaacaagggg tgctgacagc tgcgggattc tctcccacgg atgccgcgag
     6961 gggttcagtc ggcgcaccaa tgacaaaatt agttgattgg agtggcacta gatattgggc
     7021 acctggtgcc atgaggacaa ctggctattc agggactttt actcatttgc cccctgtgca
     7081 gtctgcttca tatgtcaaca atcaaagtag acaacctctt aaagtagatt ctcctcctcc
     7141 ttcttcgagt agttcttctg tttcttctgt taaaacacaa tcaactaccc tctcaggcac
     7201 ctcaagggtg ggctcatcat ctcagtcgac cctgtcgacc aggccgagca caaggacatc
     7261 tgattgggtg cgcagccaga atgaaaggtt gagtcccttc atggaaggag cgttgcaaac
     7321 aacgtatgta acgccaccat ccagtagggc atcaagtatc agcacagtct cgaccgtgcc
     7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cactcttcgc
     7441 ccatttgcgt aggcgagggg agtcacagat ttagtgaaaa gattggttag gaaagttgat
     7501 ta
//