Typing tool

Complete norovirus genomes

MH218661  GII.7
 GII.P7

Length: 7,538 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6701
ORF3: 6701..7474
LOCUS       MH218661                7538 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_200_25_11_2015, complete genome.
ACCESSION   MH218661
VERSION     MH218661.1
KEYWORDS    .
SOURCE      Norovirus GII
  ORGANISM  Norovirus GII
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7538)
  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 7538)
  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..7538
                     /organism="Norovirus GII"
                     /mol_type="genomic RNA"
                     /isolate="NORO_200_25_11_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="25-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="AWR17643.1"
                     /translation="MKMASNDATAAFGSQNSVNDSNNATPSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSNQNCPTVKIGPKTLTIPPEPPNGEDTVQFDAKSETIIGLPDLTT
                     VQNEHENNPYTVPPLSEREYRPATEPLPGTILEMWDGEFYHYSVYVSDGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVSPDTLKGLAGEKFPYTAFSNNCYNFCCWVLD
                     LNDTWLNRRCISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNVFWTPPDVSNFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGSPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGAALKS
                     VKTLEDLKAALRDVKFNECEIIYKNSKYRVSSNGKGSVSVDKVEDNASQTVNEVHSAL
                     LRLRQARARYYISCFQDLVYTLMQVAGASFVVSRISRRFCWERWVKPTETQEVNEPEK
                     EVAQGGWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIKEERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTRKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSVLVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNEDLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLRPFTEPRG
                     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="AWR17641.1"
                     /translation="MKMASNDAAPSNDGAAGLVPEINNEVMPLEPVAGASLATPVVGQ
                     QNIIDPWIRNNFVQAPAGEFTVSPRNSPGEILLDLELGPELNPYLAHLARMYNGHAGG
                     MEVQIVLAGNAFTAGKIIFAAIPPGFPYENLSPSQITMCPHVIIDVRQLEPVLLPMPD
                     IRNNFFHYNQGNDPKLRLVAMLYTPLRANNSGDDVFTVSCRVLTKPSPDFEFTFLVPP
                     TVESKTKQFTLPILKISEMTNSRFPVPVEMMYTARNENQVVQPQNGRVTLDGELLGTT
                     PLLAVNICKFKGEVIAKNGDVRSYRMDMEITNTDGTPIDPTEDTPGPIGSPDFQGILF
                     GVASQRNKSEQNPATRAHEANINTGGDQYAPKLAQVKFFSESQDFEVHQPTVFTPVGV
                     AGDPSHPFRQWVLPRYGGHLTNNTHLAPAVAPLFPGEQILFFRSQIPSSGGHELGYMD
                     CLVPQEWVQHFYQEAATAQSEVALIRFINPDTGRVLFEAKLHKQGFITVAHTGDNPIV
                     MPPNGYFRFEAWVNQFYSLAPVGTGNGRRRIQ"
     gene            6701..7474
                     /gene="ORF3"
     CDS             6701..7474
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17642.1"
                     /translation="MASAFFANLAGGVASNGISSLINAGANAINQKVEFDYNKQLQNA
                     SFSHDKEMLQAQIEATKRLQQEMIDIKQGVLTAAGFSPTDAARGSVGAPMTKLVDWSG
                     TRYWAPGAMRTTGYSGTFTHLPPMQSASYVNNQNRQLFKVDPSPSSSSGSSVSSVKTQ
                     STALSGTSRVDSSSQSTLSTRPSSRTSDWVRSQNERLSPFMNGALQTAYVTPPSSRAS
                     SVSTVSTVPKEVLDSWTPMFNTHRQPLFAHLRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cgctgccttt ggcagtcaaa actctgtcaa
       61 tgacagtaac aacgccaccc cttctaacaa agaagaggtt ggtgcattct ccaacattaa
      121 agttggattt aagaaaatgc tgggcgccgt acccaaaggt accaaagcgc ccagcagtaa
      181 tcaaaattgc cccacagtta aaatcgggcc taaaacgtta acaattcctc ctgagccccc
      241 aaatggtgaa gacaccgtac aatttgatgc aaagtcagaa actataattg ggctaccaga
      301 cttgacaacg gtgcaaaacg aacacgaaaa caatccatac actgtccctc cattaagtga
      361 gagggagtac aggccggcca ctgaaccact tcctggcaca atactggaga tgtgggatgg
      421 tgagttttac cattactccg tgtacgtcag tgatggcaaa gctctggggg tccacaaacc
      481 accggcggct ataagcctcg cgacgataga gctcaccccc atatcactct actggaggcc
      541 cgtttacacc cccaactact tggtctctcc agacacatta aagggcctcg ctggtgagaa
      601 gttcccctac acggccttca gtaataactg ttacaacttc tgctgttggg tgcttgatct
      661 caacgacacg tggcttaata gaagatgcat ttccagaact accggcttct tcaaaccata
      721 ccagtcttgg aatagaaaac ctctcccaac tgttgatgat ggaaagatca aaaaggtggc
      781 caatgcaatc ctctgtgcac tcggttcgct gttttcaaaa ccaatcaaag acctattagg
      841 caaactcaag ccattgaatc tactacactt gctcgcgtcc tgtgattgga cgtttgcagg
      901 catagtggag acagtcatct taatggcgga acttttcaac gtattctgga ccccaccaga
      961 tgtctctaat tttatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaagacct
     1021 ggctgtagag ctcgtccccg tggttatggg tggcataggg atggttctcg gcttcaccgc
     1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctgcgggcgt gcaaagacct
     1141 agggaactac gcccttgaca tactcaaatt ggtcatgaaa tggttcttcc caaagaagga
     1201 agagaaggct gagatggaaa ccttgagggc gattgaagat gccgtccttg atatggaagc
     1261 tatagggaac aaccacctca cgacccttct caaggacaaa gacagcctca cagctttcat
     1321 gaagaccttg gatctagaag aggagaaggc gagaaaactg tccactaaat catcttcacc
     1381 ggacatagtc ggcaccatca acgccatatt agctaggata gctgctgcta gatccctact
     1441 acataaggcc aaagaggaga tgttcagtag gatcagacca gtggtcgtca tgatctcagg
     1501 cagacctggc attggaaaaa cccacatggc gaggcacttg gctaagagca tcgccaatac
     1561 catgagtggc gatcagagag tcggactcgt tccacgcaac ggtgtcgatc actgggacgc
     1621 ctacagggga gagagggtgg tcttgtggga tgactacggc atggggagcc ctgttaaaga
     1681 cgccctgaca ctgcaagagt tggccgacac atgtccagtc actttaaatt gtgataggat
     1741 tgagaataag ggaaagatgt ttgatagcga tgtcatcata atcacgacca acctagtcaa
     1801 ccccgcaccc ctcgactatg tgaacttcga ggcgtgttct aggagagttg acttcctggt
     1861 ctatgcagag tcaccagaaa ttgaaaaggt caagagagac ttccctggcc agcctgacat
     1921 gtggaaagac cattttaaac cagacttttc ccatattaag ttgactctag ccccccaggg
     1981 tgggtttgat aagaatggca ataccccaca cggcaagggt accatgcggt ccttaaccca
     2041 ggggtcccta actgcgagag tcgcaggcct tgtccatgag aggagggacg aattccagct
     2101 ccaaggaaat gacctccaaa catacaactt tgacaccaac agagtctccg catttagaaa
     2161 attggctgca gataacaagt atgggatcat ggagacgatg agagttggtg cagcgctcaa
     2221 gagtgtgaag accttggaag atcttaaagc tgcattgagg gatgtgaaat tcaatgagtg
     2281 tgaaataatt tacaaaaact ctaagtaccg agtctcttcc aacggcaaag gctcggtttc
     2341 tgttgacaaa gttgaagaca atgcttccca gactgtgaac gaggtgcatt cagcacttct
     2401 tagactcagg caggcaaggg ccagatacta catcagctgc ttccaagacc tcgtttacac
     2461 tctcatgcag gttgcagggg catcattcgt cgtcagtagg atctccagaa ggttctgctg
     2521 ggaaaggtgg gtcaaaccga ccgagaccca ggaagtgaat gagcccgaaa aggaagtggc
     2581 ccaaggtgga tgggaaattg agcccaagga cacagaacca gaaggcaaga agggcaagaa
     2641 caagaaagga aggggcaaga aacacacagc cttctctagc aaaggcctga gtgatgaaga
     2701 gtatgatgag ttcaagagaa tcaaggaaga aaggaacgga aagtactcca ttgaggaata
     2761 cctgcaggac cgagaccgct attatgaaga ggtggcagtt gctcgggcaa cagaggagga
     2821 cttctgcgaa gaggaggaag ccaagataag acaaagaatt ttccgtccga caaggaaaca
     2881 gaggaaggag gaaaggggcg tgcttggctt ggtcactggc tcagacatca gaaagaggag
     2941 acccgatgac ttccaaccaa agggcaacct gtgggcagat gacaccagaa gtgtggacta
     3001 caatgagagg cttgattttg aagcacctcc gagtgtttgg tcaagaatag tcccattagg
     3061 cactggttgg gggttttggg tttcatccaa ccttctgatc acaacaacac acgtcctgcc
     3121 taaagggatc aaggaactct ttggagttga aatcaagcaa atccaagttc ataagtctgg
     3181 agagttttgc aggtttaggt ttccaagacc catcaggcca gatgtcacag gactcgtgtt
     3241 ggaggaaggc gccccagagg gcactgtctg ttctgtactc gtaaaaagac ccacaggtga
     3301 aatgatcccc cttgcagtga ggatgggcac gcacgcatcc atgaaaatac agggcaggac
     3361 cgttggtggc caaatgggga tgctcctcac aggagcaaac gcgaagaaca tggatctcgg
     3421 tactggtcct ggtgactgcg gttgccccta catctacaaa cgtggcaacg acatagttgt
     3481 cgcgggtgtt cacaccgcag cagcccgggg gggcaacact gttatatgcg ccacccaagg
     3541 gcaagacggg gaagcagtcc ttgagggaaa tgaggacctt ggcacctact gtggcgcccc
     3601 aattctgggt cctggcaagg cgcccaaact cagcacgaag accaagttct ggcgctcatc
     3661 accagatgcc ttgccacctg gcacatacga acctgcttac ctaggaggca aagaccctag
     3721 ggtggaaaaa ggtccctccc tgcagcaagt catgagagac cagttgagac ccttcacaga
     3781 acccaggggc aaaccgccca gacctgcagt cctagaggaa gccaaaaaga cagtgatgaa
     3841 tgttttagaa caaaccattg accccgccaa gccatggtcc tactcccagg catgtgcctc
     3901 acttgacaaa accacctcta gtggtagtcc ccaccacgtt aagaaaaatg accactggaa
     3961 tggggagtcc ttcactggtc cccttgcaga tcaggcatct aaagccaacc tcatgtatga
     4021 acaggccaaa catgtgcagc ccgtgtatac ggcagcgctt aaagatgagc ttgttaagac
     4081 tgacaagatc tacaagaaga taaagaagag gctcctatgg gggtcggacc ttggcacaat
     4141 gatcaggtgc gccagggctt ttggtggtct catggacagc atgaaggcaa gttgtatagc
     4201 tcttccttgc agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
     4261 ctctaagtac aggtaccact atgatgctga ctattctagg tgggactcaa cccaacagag
     4321 gagcattctc tctgccgcta tggaagtaat ggtgcggttt tctgctgaac cagaactggc
     4381 acaagtggtt gcagaggacc ttttggctcc tagccagctt gacgttggcg actttgtcat
     4441 ctcagtccag gagggtctac catcaggagt cccatgcaca tcacaatgga attcaatagc
     4501 gcactggatc ctgactttga gtgcaatggc agaagtgtca ggtctctcac cagatgttgt
     4561 ccaagctcac tcctgctttt cattttacgg ggacgatgag atcgtcagta ctgatatcaa
     4621 tcttgacccc atgaagttga cacagaaact cagggagtat ggtctggtcc ccacccggcc
     4681 tgataaaact gaaggccccc tcgttataac tgaagacctc accggcctga cattcctccg
     4741 taggtcgatt gctcgggacc cagctggttg gtttggaaaa ctggaccaag actcaattct
     4801 cagacagcta tactggacaa gggggcctaa ccatgagaac ccgtatgaga gcatggttcc
     4861 tcattctcag cgggccacac agctcatggc ccttcttggt gaggcctcgc tgcatggtcc
     4921 ccagttttac aagaaagtta gcaagatggt catcaatgag attaagagcg gtggtctgga
     4981 gttttatgtg cccagacaag aggccatgtt caggtggatg agattctctg acctcagcac
     5041 atgggagggc gatcgcaatc ttgctcccga aggtgtgaat gaagatggcg tcgaatgacg
     5101 cagctccatc taatgatggt gcagcaggcc tcgtgccaga gatcaacaat gaggtcatgc
     5161 cccttgagcc cgtggctggt gcatcgctgg cgacaccagt tgtcgggcaa caaaatataa
     5221 ttgatccctg gataagaaat aattttgtac aagctcctgc aggtgagttt acagtttccc
     5281 ccagaaattc ccctggtgaa attttacttg atttggagtt gggaccagag ttgaacccct
     5341 atctcgctca tttggcccgt atgtacaatg ggcacgctgg tggcatggaa gtgcaaattg
     5401 tgttggctgg gaacgcgttc acagctggca agatcatatt tgctgccatc cctccagggt
     5461 tcccatacga aaatttgtca ccttcacaaa ttacaatgtg cccccatgtt ataattgatg
     5521 ttagacaatt agaaccagtc ctattaccta tgccagatat tagaaataat ttcttccatt
     5581 acaatcaggg caatgatcca aaattgaggt tggtagctat gctctacact cctttaaggg
     5641 ctaacaattc tggtgatgat gtgttcacag tttcttgtag ggttctcact aaaccgtcac
     5701 ctgattttga attcacattt ttggttcccc ctacagttga atccaagacc aagcaattca
     5761 cattgcccat cctcaaaata tcagagatga ccaactcaag attcccagtg ccggtggaaa
     5821 tgatgtacac agcaaggaat gagaatcaag ttgtccagcc acagaatggt agggtcacac
     5881 tcgatggcga actattgggc accacaccct tgttggctgt caacatctgt aaattcaagg
     5941 gagaggtcat agctaagaat ggagatgtga gatcctatag gatggacatg gaaatcacca
     6001 acactgatgg caccccaatt gaccccactg aagatacacc tggtcccatt ggatcacctg
     6061 attttcaagg tatactcttt ggcgttgcca gtcaacgcaa caagagtgag caaaatcctg
     6121 ccacgagagc ccacgaagcc aacatcaata ctggtgggga ccaatatgcc cccaaattgg
     6181 cccaagtgaa attcttctca gagtcccagg atttcgaggt gcatcagccc acagttttca
     6241 ccccagttgg tgtggcaggt gacccttccc accctttcag acagtgggtc ctgcctcgat
     6301 atggtggaca tctcaccaac aatacccact tggctccagc agtggcccct ctattcccag
     6361 gtgagcagat tctgttcttt agatcacaaa tacctagttc aggcggccat gaattgggtt
     6421 acatggactg ccttgtccca caagaatggg tccaacactt ctatcaagaa gctgccacag
     6481 ctcagtctga ggtggcactc ataaggttca tcaacccaga cactggtaga gtcctctttg
     6541 aggccaagct acacaagcaa ggctttataa ctgtggctca cactggtgac aacccaattg
     6601 ttatgccacc aaatgggtat ttcagatttg aagcctgggt caatcagttt tactcactcg
     6661 cccccgtggg aactgggaat gggcgtagga ggatccaata atggctagtg ccttctttgc
     6721 aaatttggca gggggcgttg cctccaatgg aattagttca ctcataaatg ctggggctaa
     6781 tgctattaac caaaaggttg agtttgatta taataaacaa ctccaaaatg catccttctc
     6841 ccacgataag gaaatgctcc aagcccaaat tgaagccact aaacgcttgc aacaagagat
     6901 gattgacata aaacaagggg tgctgacggc tgcgggattc tctcccacgg atgccgcgag
     6961 gggttctgtc ggcgcgccaa tgacaaaatt agttgattgg agtggcacta gatattgggc
     7021 tcctggtgcc atgaggacaa caggctactc agggaccttc actcacttgc ctcctatgca
     7081 atctgcttca tatgttaata atcagaatag acaacttttt aaagtggatc cttctccctc
     7141 ttcttcaagt ggttcttctg tttcttctgt taaaacacaa tcaactgctc tctcaggcac
     7201 ttcaagggtg gactcttcat ctcagtcaac cctgtcgacc aggccgagct caaggacatc
     7261 tgattgggtg cgtagccaaa atgaaagatt gagccccttt atgaatggag cattgcaaac
     7321 agcgtatgta acgccaccat ctagcagggc atcaagtgtc agcacagtct cgaccgtgcc
     7381 gaaagaggtt ttggactcct ggacgcctat gtttaacact cacaggcagc cgctcttcgc
     7441 ccacctgcgt aggcgagggg agtcacagat ttagtgaaaa gattaattag gaaagtttga
     7501 ttagttttct tttctattat tcctttaatt tttctttt
//