Typing tool

Complete norovirus genomes

MH218719  GII.6
 GII.P7

Length: 7,550 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218719                7550 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_68-7_18_03_2015, complete genome.
ACCESSION   MH218719
VERSION     MH218719.1
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_68-7_18_03_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="18-Mar-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="AWR17817.1"
                     /translation="MKMASNDATTAFGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSDQHCPSFKVGTKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRRSISRTTGFFKPHQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFGIFWTPPDVSSFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRTRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNNLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
                     VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
                     LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
                     EVAQGRWEIEPRDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNPWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGINELFGVEIKQIQVHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
                     KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MVRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6722
                     /gene="ORF2"
     CDS             5079..6722
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17815.1"
                     /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
                     LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
                     AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESTDFDDG
                     QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
                     YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRSIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17816.1"
                     /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
                     SFKHDKEMLQSQVLATKQLQQEMINIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
                     TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPRSEPPKIKVNSDSASVYSSTSTAPSQST
                     HSTALTAGSSSSRTTSSSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
                     SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagtatc aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggtttt aagaaaatgc tgggtgccgt tcctaagggg accaaagcac ccagtagtga
      181 tcaacactgc ccctcattta aagtcgggac caagacatta acagttcccc ctgagccccc
      241 aaatggtgaa gacaccgtgc agtttgatgc gaagtcggaa actgtgcgcg ggttaccaga
      301 cttgacaacg gtgcagaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
      361 aagggagcac agaccagcta ctgaaccgct tcctggcaca atactggaga tgtgggatgg
      421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
      481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
      541 cgtttacacc cccaactatc tggtctgccc agacacgttg aagggccttg ctggtgagaa
      601 gttcccttac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
      661 caatgacaca tggcttagta ggagaagcat ctctaggacc accggcttct tcaaaccaca
      721 ccagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca aaaaggtggc
      781 caacgcaatt ctctgtgcac ttgggtcact gttttcaaaa ccaatcaagg acctattggg
      841 caagcttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
      901 tatagtagag acagtcatcc taatggcgga acttttcggc atcttttgga caccgccaga
      961 tgtttccagt ttcatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaggacct
     1021 ggctgtggag cttgtacccg tggtcatggg tggcatagga atggttctcg gctttactgc
     1081 tgagaagata ggccgcatgt tatcgtccgc tgcatcaaca ctacgggcgt gcaaagactt
     1141 ggggaattat gctcttgaca tattgaaatt agttatgaag tggttcttcc caaagaaaga
     1201 agagaaagcc gagatggaaa ccctaagggc gattgaggat gccgtcctgg acatggaagc
     1261 tataggaaac aaccatctca caaccctcct caaggataag gatagcctca cggctttcat
     1321 gaagactcta gatctagaag aagagaaggc aaggaagctg tccaccaaat catcctcgcc
     1381 agacattgtt ggcaccatta atgccatact agctagaata gctgctgcca ggtccctctt
     1441 gcacaaggct aaagaagaaa tgttcagcag gaccagaccc gtggttgtca tgatctcggg
     1501 tagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
     1561 catgagcggc gaccagagag tggggctcgt tccacgcaac ggggttgatc attgggatgc
     1621 ctacagggga gagagggtgg ttttatggga tgattacggc atgggaaacc ctgtcaaaga
     1681 tgccctaaca ctgcaagagc tggccgacac ctgcccagta actctaaact gtgataggat
     1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca atttagtcaa
     1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctggt
     1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagac ttccccggcc aacctgacat
     1921 gtggaaggac cattttaagc cagacttttc ccacataaaa ctgactctag ccccacaagg
     1981 tgggtttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
     2041 ggggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
     2101 ccaggggaac aaccttcaaa catataactt tgacaccaac agagtctctg cgtttaggaa
     2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
     2221 gagtgtcaag accttggaag atctgaaagt tgcactgagg gatgtgaagt tcaatgagtg
     2281 tgagataatt tacagaaact ccaaataccg agtctcttcc aatggtaaag gttctgtctc
     2341 tgttgacaaa gttgaggacc aaacatccca gaccgcaaac gaagtgggtg cagcactcct
     2401 tagactcaga caggcaagag ctagatacta tgtcagctgc ttccaagacc tcgtctacac
     2461 tctaatacag gttgccggag catcattcgt tgtcaacagg atctctaaaa ggttctgctg
     2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt gaatccgaaa aggaagtggc
     2581 ccaaggcaga tgggagattg agcccaggga cacagaacca gaaggtaaga agggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcctga gtgatgagga
     2701 gtatgacgag ttcaagagaa tcagagaaga aaggaacgga aaatattcca ttgaggaata
     2761 cctgcaagac cgggatcgct actatgagga agtggcggtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
     2881 gaggaaggaa gaaagggggg tgcttggttt ggttactggc tcagacatca ggaagagaag
     2941 gccggacgac tttcaaccga agggcaaccc gtgggcagac gacaccagga gcgtggacta
     3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
     3061 cactggctgg ggcttctggg tctcatcaaa cctcctgatc acaacaacgc acgtcctacc
     3121 taaggggatt aatgaactct ttggagttga gatcaaacag attcaggttc ataagtctgg
     3181 ggagttctgc aggttcagat tcccaagacc aattagacca gatgtcacag ggctcgtgtt
     3241 ggaggaaggc gctccagaag gcactgtctg ctccatactc gtaaagagac ccacaggtga
     3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
     3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggatcttgg
     3421 caccggtcct ggtgactgcg gttgccctta catctacaaa cgtggcaatg atatagttgt
     3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaagg
     3541 gcaagatggg gaagcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgctcc
     3601 aatcttgggt ccaggcaagg cgcccaaact tagcacgaaa accaagttct ggcgttcatc
     3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggta aggaccctag
     3721 agtggagaaa ggaccatccc tgcagcaagt catgagggac cagctaaaac ccttcacaga
     3781 acccaggggt aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
     3841 tgttctagag caaaccattg accctgctaa accgtggacc tattcccaag catgcgcctc
     3901 actggacaag accacttcca gtggtagccc ccatcatgtc aggaaaaacg accattggaa
     3961 tggggaatcc ttcactggcc ccctcgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactt aaagatgaac tagtcaaaac
     4081 tgacaagatc tacaagaaga taaagaaaag gctcttatgg gggtcggacc ttggtacaat
     4141 ggtcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gctgcatagc
     4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggc cccatcatat ttgacaagca
     4261 ttctaagtat aggtaccatt atgatgctga ctattccagg tgggactcaa cccagcaaag
     4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgctgaac cagagctggc
     4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggcg attttgtcat
     4441 ctcagtccag gagggtctgc catcaggggt tccatgcaca tcacaatgga attcaatagc
     4501 gcactggatc ctaaccttga gtgcaatggc agaagtatcg ggtctctcac cagatgttat
     4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 ccttgatccc atgaagttga cacagaagct tagagagtat ggcctggtcc ccacccgacc
     4681 tgacaaaact gagggtcccc tcgtaataac tgaagatctc accggcctaa cgttcctgcg
     4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccaag actcaatcct
     4801 caggcagttg tactggacaa ggggccccaa ccatgagaac ccatatgaga gtatggtccc
     4861 tcattcccag cgggccacac aacttatggc ccttctcggt gaggcctcac tgcatggtcc
     4921 ccagttttac aagaaagtta gcaagatggt tattaatgag atcaaaagtg gtggtctgga
     4981 attctatgtg cccagacaag aggccatgtt tagatggatg agattctctg acctcagcac
     5041 atgggagggc gatcgcaatc ttgctcccga gggtgtgaat gaagatggcg tcgaatgacg
     5101 ctgctccatc gaatgatggt gctgccaacc tcgtaccaga ggccaccaat gaggttatgg
     5161 cacttgagcc ggtggtggga gcctcaattg ctgctcctgt cgtcggccaa caaaatataa
     5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttt actgtttcac
     5281 caaggaactc acctggtgag atgcttctaa atcttgaatt aggccctgag ctcaaccctt
     5341 atctgagtca cttgtcccgc atgtacaacg gctatgctgg tggtatgcag gttcaggtgg
     5401 tcctagctgg gaatgcgttc acagctggta aaatcatctt tgccgccgtc ccaccacatt
     5461 tccctgttga gaacattagt gcagcccaaa tcacaatgtg cccccatgta attgttgatg
     5521 taagacagct tgagccagtg cttttgcccc tccctgacat aaggaatagg ttctttcatt
     5581 ataatcagga aaataccccc cggatgagac ttgtggctat gttgtataca ccccttagag
     5641 caaattctgg tgaggatgtg tttacggtgt cttgcagagt tctgactcgc cctgcccccg
     5701 actttgagtt cacgttcttg gtgccaccaa ctgtggagtc aaagactaag ccctttacac
     5761 tccctattct gactcttgga gagctgtcca actccagatt ccccgctccg atagacatgc
     5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcactctag
     5881 atggaacact tcaagggacc acccaactgg tacccaccca aatttgctcc ttcaggggca
     5941 cgctaattag ccagacgtcg aggtctgcag attcaacaga ttcagcccca cgggtgagga
     6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatatgac ccaacagatg
     6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gtcgctagcc
     6121 aaagaaacac cacagggaac tctataggag caacccgcgc ccatgaagtg cacatagaca
     6181 ccacaaaccc taggtatacc ccaaaacttg gctctgtgtt gatgtattct gaatctactg
     6241 attttgatga tggacaaccc acccgcttta cccccattgg catgggagcc gatgattggc
     6301 accaatggga actgcccgaa tattctggtc acctcactct taacatgaat ttggcccccg
     6361 cagttgcccc tgctttccct ggtgagcgca ttctcttctt cagatcagtg gtgccgtctg
     6421 ctggtggcta tggatcaggt cacatagatt gcctcatccc acaggagtgg gttcagcatt
     6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcagatat gttaaccctg
     6541 acactggaag aagcatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcaa
     6601 attctggaaa caaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
     6661 tcaatcaatt ctacacactc acccccatgg gaactggaca ggggcgcaga agagttcaat
     6721 aatggcagga gctttcttag ctggattggc aggtgacgcc ataacaagtg gtgtcgggtc
     6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gaatatgact ttaataaaca
     6841 gctccaattg gcatccttca aacatgacaa agagatgctg caatcacaag tactggccac
     6901 taaacagctc cagcaggaga tgataaacat aaggcaaggg gttttgtccg ctggcggctt
     6961 ttcccctaca gatgccgcga gaggtgctgt gaacgcgccg atgacaaaaa ttttggattg
     7021 gaatggaaca aggtactttg ccccaaatag tatgaagaca accagttatt cgggccagtt
     7081 ttccagcaac cctgtgcata ggcaacccac tttaccccgt tctgaacccc caaaaattaa
     7141 ggttaatagt gattctgcta gtgtgtatag ttctacatct actgctcctt cacaatcaac
     7201 tcactcaacg gctttgactg cggggtctag ctcatctagg acaacatcct cttctgcagt
     7261 agcttccacc ctgtctagga ctagtgactg ggtgagagga caaaatgaaa ggcttagccc
     7321 gtttatggat ggtgctctcc aaacaacttt tgtcacacca ccatcgagca aagcttcatc
     7381 atatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
     7441 tacccatagg cagcctctct tcgctcatgt gcgtaggcga ggggagtcac agatttagtg
     7501 aaaagattga ttaggttttc tttctttctt cttttccttt tctttctttt
//