Typing tool

Complete norovirus genomes

MH218650  GII.6
 GII.P7

Length: 7,550 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218650                7550 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_182_19_09_2015, complete genome.
ACCESSION   MH218650
VERSION     MH218650.1
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_182_19_09_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="19-Sep-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="AWR17610.1"
                     /translation="MKMASNDATTAFGSQNSVNDSINTALSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSDQHCPSVKIGAKTLTVPPEPPNGEDTVQFDAKSETVRGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLRPLNLLHLLASCDWTFAGIVETVILMAELFGILWTPPDVSSFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDANRVSAFRKLAADNKYGIMETMRVGTALKS
                     VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
                     LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
                     EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGINELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     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="AWR17608.1"
                     /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGELLLNLELGPELNPYLSHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCALDGTLQGTTQ
                     LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
                     AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIDTTNPRYTPKLGSVLMYSESGDFDDG
                     QPTRFTPIGMGADDWRQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
                     YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17609.1"
                     /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
                     SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
                     TRYFAPNSMKTTSYSGQFSSNPVHRQSTSPRSESPKIKVNSDSASVYSSVSTTPSQST
                     HSTALTAGSSSSRTTSSSAVASTISRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
                     SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagtatc aacaccgccc tttctaacaa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagtagtga
      181 tcagcactgc ccctcagtta agatcggggc 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 cgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
      481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
      541 cgtttacacc cccaactatc tggtctgccc agacacgttg aagggccttg ctggtgagaa
      601 gttcccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
      661 caatgacaca tggcttagta ggagaagcat ctctaggacc accggcttct tcaaaccata
      721 ccagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca aaaaggtggc
      781 caacgcaatt ctctgtgcac ttgggtcact gttttcaaaa ccaatcaagg acctattagg
      841 caagcttaga ccattgaact tgctgcattt gctcgcatca tgtgactgga cgtttgcggg
      901 tatagtagag acagtcatcc taatggcgga acttttcggc atcctttgga caccgccaga
      961 tgtttccagt ttcatagcct ccctgatagg tgattttgaa ttgcaagggc ctgaggacct
     1021 ggctgtggag cttgtacccg tggtcatggg tggtatagga atggttctcg gctttactgc
     1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctacgggcgt gcaaagactt
     1141 agggaattat gctctagaca tattgaaact agttatgaag tggttcttcc caaagaaaga
     1201 agagaaagcc gagatggaaa ccctaagggc gattgaggat gccgtcctgg acatggaagc
     1261 tataggaaat aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
     1321 gaagactcta gacctagaag aagagaaggc aaggaagctg tccaccaaat catcctcgcc
     1381 agacattgtc ggcaccatta atgccatact agctagaata gctgctgcca ggtccctctt
     1441 gcacaaggct aaagaagaaa tgttcagcag gatcagaccc gtggttgtca tgatctcggg
     1501 tagacctggc attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
     1561 catgagcggc gaccagagag tggggctcgt cccacgcaac ggggttgatc attgggacgc
     1621 ctacagggga gagagggtgg ttttatggga tgattatggc 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 cattttaagt cagacttttc ccacataaaa ctgactctag ccccacaggg
     1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
     2041 agggtccctg actgcaaggg ttgcaggtct tgttcatgag aggagagacg agtttcagct
     2101 ccaggggaac gaccttcaaa catataactt tgatgccaac agagtctctg catttaggaa
     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 gactgcaaac gaagtgggtg cagcactcct
     2401 tagactcaga caggcaagag ccagatacta tgtcagctgc ttccaagacc tcgtttacac
     2461 tctaatacag gtcgccggag catcattcgt cgtcaacagg atctctaaaa ggttctgctg
     2521 ggagagatgg gtcaaaccaa ccgagaccca ggagacaagt gaatccgaaa aggaagtggc
     2581 ccaaggtaga tgggagattg agcccaagga cacagaacca gaaggtaaga agggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcctga gtgatgagga
     2701 gtatgacgag ttcaagagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
     2761 cctgcaagac cgggatcgct actatgagga agtggcggtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
     2881 gaggaaggaa gaaagggggg tgcttggttt ggttactggt tcagacatca ggaagaggag
     2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacaccagga gtgtggacta
     3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
     3061 cactggctgg ggtttctggg tctcatcaaa cctcttgatc acaacaacgc acgtcctacc
     3121 taaggggatt aatgaactct ttggagttga gatcaaacaa attcagattc ataagtctgg
     3181 agagttctgt aggttcagat tcccaagacc aattagacca gatgtcacag ggctcgtgtt
     3241 ggaggaaggc gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
     3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatct 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 aatcttgggc ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgttcatc
     3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggta aggaccctag
     3721 agtggaaaaa ggaccatccc tgcagcaagt catgagagac cagctaaaac cttttacaga
     3781 acccaggggt aagccaccta gacctgcagt tttagaagaa gccaaaaaga cagtgatgaa
     3841 tgttctagag caaaccattg accctgctaa accgtggacc tattcccaag catgtgcctc
     3901 actggataag accacttcca gtggtagccc ccatcatgtt aggaaaaatg accattggaa
     3961 tggggaatcc ttcactggcc ccctcgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactt aaagatgaac tagtcaaaac
     4081 tgacaagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
     4141 gatcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gctgcatagc
     4201 cctcccatgt agggtgggaa tgaacatgaa tgaagatggc cccatcatat ttgacaagca
     4261 ttctaagtat aggtaccatt atgatgccga ctattccagg tgggactcaa cccagcaaag
     4321 gagcattctc tcagccgcta tggaagtgat ggtgcggttc tctgctgaac cagagctggc
     4381 gcaagtggtt gcagaggatc tcctggcacc cagccaacta gatgttggcg atttcgtcat
     4441 ctcagtccag gagggtctgc catcaggggt cccatgtaca tcacaatgga attcaatagc
     4501 acactggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
     4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 ccttgatccc atgaagttga cacagaagct cagagagtat ggcctggtcc ccacccgacc
     4681 tgacaaaact gaaggtcccc tcgtaataac tgaagatctc actggcctaa cgtttctgcg
     4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccaag attcaatcct
     4801 cagacagttg tactggacaa ggggccccaa ccatgagaac ccatatgaga gcatggtccc
     4861 tcattcccag cgagccacac aacttatggc ccttctcggt gaggcctcac tgcatgggcc
     4921 ccagttttac aagaaagtta gcaagatggt tattaatgag 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 ggtggtggga gcctcaattg ctgctcctgt cgtcggtcaa caaaatataa
     5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttt actgtttcac
     5281 caaggaactc acctggtgag ttgcttctaa atcttgaatt aggccctgag ctcaaccctt
     5341 atctgagtca cttgtcccgc atgtataatg gctatgctgg tggtatgcag gttcaggtgg
     5401 tcctagctgg gaatgcgttc acagctggta aaatcatctt tgccgccgtc ccaccacatt
     5461 tccctgttga aaacattagt gcagcccaaa tcacgatgtg cccccatgta attgttgatg
     5521 taagacagct tgagccagtg cttttgcccc tccctgacat aaggaataga ttctttcatt
     5581 ataatcagga aaatacctcc cggatgagac ttgtggctat gttgtataca ccccttagag
     5641 caaattctgg tgaggatgtg tttacggtgt cttgcagagt tctgacccgc cctgcccccg
     5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccctttacac
     5761 tccctattct gactcttgga gagctgtcca actccagatt ccccgctccg atagacatgt
     5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcgctctag
     5881 atggaacact tcaaggaacc acccaactgg tacccaccca aatttgctcc ttcaggggca
     5941 cgctaattag ccagacgtcg aggtctgcag attcaacaga ttcagcccca cgggtgagga
     6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatatgac ccaacagatg
     6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gttgctagcc
     6121 aaagaaacac cacagggaac tctataggag caacccgcgc ccatgaagtg cacatagaca
     6181 ccacaaaccc tagatacacc ccaaagcttg gctctgtgtt gatgtattct gaatctggtg
     6241 attttgatga tggacaaccc acccgcttta cccccattgg tatgggagcc gatgattggc
     6301 gccaatggga attgcccgaa tattctggtc acctcactct taatatgaat ttggcccccg
     6361 cagttgcccc tgctttccct ggtgagcgca ttctcttctt cagatcagtg gtgccgtctg
     6421 ctggtggcta tgggtcaggt cacatagatt gcctcatccc acaggagtgg gttcagcatt
     6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcagatat gtcaaccctg
     6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcaa
     6601 attctggaaa taaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
     6661 tcaatcaatt ctacacactc acccccatgg gaactgggca ggggcgcaga agagtccaat
     6721 aatggcagga gctttcttag ctggattggc aggtgacgcc ataacaagtg gtgtcgggtc
     6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaataaaca
     6841 gctccaattg gcatccttca aacatgacaa agagatgctg caatcacaag tactggccac
     6901 taaacagctc cagcaggaga tgatgaacat aaggcaaggg gtcttgtccg ctggcggctt
     6961 ttcccctaca gatgccgcga gaggtgctgt gaacgcaccg atgacaaaaa ttttggattg
     7021 gaatggaaca aggtactttg ccccaaatag tatgaagaca accagttatt cgggccagtt
     7081 ttccagcaac cctgtgcata ggcaatccac ttcaccccgt tccgaatccc caaaaattaa
     7141 ggttaatagt gattctgcta gtgtgtatag ttctgtatct actactcctt cacaatcaac
     7201 tcactcaacg gctttgactg cggggtctag ctcatctagg acaacatcct cctctgcagt
     7261 agcttccacc atatctagga ctagtgactg ggtgagagga caaaatgaaa ggcttagccc
     7321 gtttatggat ggtgctctcc aaacaacttt tgtcacacca ccatcgagca aagcttcatc
     7381 atatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
     7441 tacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
     7501 aaaagattga ttaggtcttc tttctttctt cttttccttt tctttctttt
//