Typing tool

Complete norovirus genomes

MH218641  GII.6
 GII.P7

Length: 7,550 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218641                7550 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_172_02_04_2015, complete genome.
ACCESSION   MH218641
VERSION     MH218641.1
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_172_02_04_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="02-Apr-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="AWR17583.1"
                     /translation="MKMASNDATTAFGSQNSVNDSINTTPSSKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGEDTVQFDAKSETVLGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPSYLVCPDTLKGLAGERFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSNFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRIDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKSDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKS
                     VKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTANEVGAAL
                     LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSESEK
                     EVAQGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     SDIRKRRPDDFQPKGNLWADDTRSVDYSERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGIKELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
                     KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVKKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRNILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6722
                     /gene="ORF2"
     CDS             5079..6722
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17581.1"
                     /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQENTSRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
                     LVPTQICSFRGTLISQTSRSADSTDSAPRVRNHPLHVQLKNLDGTPYDPTDEVPAVLG
                     AIDFKGTVFGVASQRNTTGGSIGATRAHEVHIDTKNPRYTPKLGSVLMHSESTDFDDG
                     QPTRFTPIGMGADDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
                     YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17582.1"
                     /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
                     SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
                     TRYFAPSSMKTTSYSGQFSSNPVHRQPTLPRSDSPKTKVNSDSASVYSSASTAPSQST
                     HSTALTAGSSSSRTTSYSAVASTLSRTSDWVRGQNERLSPFMDGALQTTFVTPPSSKA
                     SSHGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta atgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagtatc aacaccaccc cttctagtaa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggtttt aagaaaatgc tgggtgctgt tcccaagggg accaaagcac ccagtagtga
      181 tcagcactgc ccctcagtta aaatcgggac caagacatta acagttcctc ctgagccccc
      241 aaatggtgaa gacactgtgc agtttgatgc gaagtcggaa actgtgctcg ggctaccaga
      301 cttgacaaca gtgcagaatg aacacgaaaa cacaccatac actgtccccc cattgagtga
      361 aagggagcac agaccagcca ctgaaccgct tcctggcaca atactggaga tgtgggatgg
      421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcacaagcc
      481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt actggaggcc
      541 tgtttacacc cccagctatc tggtctgtcc agacacgttg aagggccttg ctggtgagag
      601 gttcccctac acggccttca gcaacaattg ttacaacttt tgttgctggg tgcttgagct
      661 caatgacacg tggcttagca ggagaagcat ctctaggact accggcttct tcaaaccata
      721 tcagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca agaaggtggc
      781 caacgcaatt ctctgcgcac ttggatcact gttttcaaaa ccaatcaagg acctattggg
      841 caaacttaaa ccattgaact tgctgcactt gctcgcatca tgtgactgga cgtttgcggg
      901 catagtagag acagtcatcc taatggcgga acttttcaac atcttttgga caccgccaga
      961 tgtttccaat ttcatagcct ccctgatagg tgattttgaa ctgcaagggc ctgaggacct
     1021 ggctgtggag cttgtccccg tggtcatggg tggcatagga atggttctcg gctttactgc
     1081 tgagaagata ggccgcatgc tgtcgtccgc tgcatcaaca ctacgggcat gtaaagactt
     1141 ggggaattat gcccttgaca tattgaagct ggttatgaag tggttcttcc caaagaaaga
     1201 agagaaagcc gagatggaaa ccctaagggc gattgaagat gccgtcctgg acatggaagc
     1261 cataggaaac aaccatctca caaccctcct caaggacaag gatagcctca cggctttcat
     1321 gaagactcta gatctagaag aggagaaggc aaggaagcta tccaccaaat catcctcgcc
     1381 agacatcgtc ggcactatta atgccatact ggccagaata gctgctgcca ggtccctctt
     1441 gcacaaggct aaagaagaaa tgtttagcag gatcagaccc gtggttgtca tgatctcggg
     1501 tagacctggc ataggcaaaa cccacatggc aagacacttg gctaagagta tcgccaatac
     1561 catgagcggc gaccagagag taggactcgt cccacgcaac ggggtcgatc attgggacgc
     1621 ctacagggga gagagggtgg tcttatggga tgattatggc atgggaaacc ctgttaaaga
     1681 tgccctaaca cttcaagagt tggccgacac gtgtccagta actctaaact gtgataggat
     1741 tgagaacaag gggaagatgt ttgacagcga tgtcatcata atcacgacca atttagtcaa
     1801 tccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaaggatcg actttctggt
     1861 ctatgcagag tcaccagaaa ttgagaaggt caagagagat ttccccggcc aacctgacat
     1921 gtggaaggac cattttaagt cagatttttc ccacataaaa ctgactctgg ccccacaggg
     1981 tggatttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccttaaccca
     2041 ggggtccctg actgcaaggg ttgcgggtct tgttcatgag aggagagacg agtttcagct
     2101 ccaggggaac gaccttcaaa catacaactt tgacaccaac agggtctctg catttaggaa
     2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
     2221 gagtgtcaag accttggaag atctgaaagt tgcactgagg gatgtgaagt tcaatgagtg
     2281 tgagataatt tacagaaact ccaaataccg agtctcttcc aatggtaaag gttctgtttc
     2341 tgttgacaaa gtcgaagacc aaacatccca gactgcaaac gaagtgggtg cagcacttct
     2401 tagactcagg caggcaagag ccaggtacta tgtcagctgc ttccaagatc tcgtttacac
     2461 tctaatacag gtcgccggag catcattcgt cgtcaacagg atctctaaaa ggttctgctg
     2521 ggagagatgg gtcaaaccaa ccgagactca ggaaacgagt gaatccgaaa aggaagtggc
     2581 ccaaggcaga tgggagattg agcccaagga cacagaacca gaaggtaaga agggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagc aaaggcctga gtgatgagga
     2701 gtatgacgag ttcaagagaa tcagagaaga aaggaatggt aaatactcca ttgaggaata
     2761 cctgcaagac cgggatcgct actatgagga agtggcagtc gcccgggcaa cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag gcaaagaatc tttcgtccca caaagaaaca
     2881 gaggaaggaa gaaaggggag tacttggttt ggtcactggc tcagacatca ggaagagaag
     2941 accagacgat tttcaaccga agggtaacct gtgggcagac gacacaagga gtgtggacta
     3001 cagcgagaga cttgactttg aggctccccc gagtgtctgg tcgagaatag tcccattggg
     3061 cactggttgg ggtttctggg tctcatcaaa cctcctgatc acaacaacgc acgtcctgcc
     3121 taaggggatt aaggaacttt ttggagttga aatcaaacag attcaaattc ataagtctgg
     3181 agagttctgc aggttcagat tcccgagacc aatcagacca gatgtcacgg ggctcgtgtt
     3241 ggaggaaggc gccccagaag gcactgtctg ctccatactc gtgaagagac ctacaggtga
     3301 gatgatcccc ctggcagtga ggatgggcac gcacgcatcc atgaaaattc agggtaggac
     3361 cgtcggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggatcttgg
     3421 caccggtcct ggtgactgcg gttgtcctta catctacaaa cgtggcaatg atatagttgt
     3481 cgcgggtgtc cacaccgcag cagcccgggg aggcaacact gttatatgtg ccactcaagg
     3541 gcaagatggg gaagcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgcccc
     3601 aatcttgggt ccaggcaagg cgcccaaact tagcacgaag accaagttct ggcgctcatc
     3661 accagacgct ttgccgccag gcacctatga gcctgcctac ttgggaggta aggaccccag
     3721 agtagaaaaa gggccatccc tgcagcaagt tatgagggac cagctaaaac ctttcacaga
     3781 acccaggggc aagccaccta gacctgcagt cttagaagag gccaaaaaga cagtgatgaa
     3841 tgtcctagaa caaaccattg accctgctaa gccgtggacc tattcccaag catgtgcctc
     3901 actggacaag accacttcca gtggtagccc ccatcatgtc aagaaaaatg accattggaa
     3961 tggggaatcc ttcactggcc cccttgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactt aaagatgaat tagtcaaaac
     4081 tgacaagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
     4141 gatcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gttgcatagc
     4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggt cccatcatat ttgacaaaca
     4261 ttctaagtat aggtatcatt atgatgctga ctattccagg tgggactcaa ctcagcaaag
     4321 gaacatcctc tcggccgcta tggaggtgat ggtgcggttc tctgctgagc cagagctggc
     4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggtg attttgtcat
     4441 ctcagtccag gagggtctgc catcaggggt tccatgcaca tcacaatgga attcaatagc
     4501 acactggatc ctaaccttga gtgcaatggc agaagtgtcg ggtctctcac cagatgttgt
     4561 tcaagcccac tcctgtttct cattttacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 ccttgatccc atgaaattga cacagaaact cagagagtat ggcctggtcc ccactcgacc
     4681 tgacaaaact gagggtcccc ttgtgataac tgaagatctt accggcctaa cgttcctgcg
     4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaaa ttggaccaag actcaatcct
     4801 cagacagttg tactggacaa ggggccccaa tcatgagaac ccatatgaga gtatggtccc
     4861 tcattcccag cgggccacac agctcatggc acttctcggt gaggcttcac tgcatggccc
     4921 ccagttttac aagaaggtta gcaagatggt catcaatgag 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 gcctcaatcg ctgctcctgt cgtcggccaa caaaatataa
     5221 ttgacccctg gattagagaa aattttgttc aggcaccaca gggtgagttc accgtttcac
     5281 caaggaactc acctggtgag atgcttctga atcttgaatt aggccctgag ctcaacccct
     5341 atctgagtca tttgtcccgc atgtataacg gctatgctgg tggtatgcag gttcaggtgg
     5401 tcctagctgg gaacgcgttc acagctggta aaatcatctt tgccgccgtt ccgccacatt
     5461 tccctgttga gaacattagt gcagcccaaa ttacaatgtg ccctcatgta attgttgatg
     5521 taagacagct tgagccagtg cttttgcccc tccccgatat aaggaacaga ttcttccatt
     5581 ataatcagga aaatacctcc cggatgagac ttgtggctat gttgtacaca ccccttagag
     5641 ctaattctgg cgaggatgtg ttcacggtgt cttgcagagt tctgacccgt cctgcccccg
     5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccttttacac
     5761 tccctattct aactcttgga gagctgtcca attccagatt ccccgctccg atagatatgt
     5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcactcttg
     5881 atggaacact tcaagggacc acccagctgg tacccaccca aatttgctcc ttcaggggca
     5941 cgctaattag ccagacgtcg aggtctgcag attcaacaga ttcagcccca cgggtgagga
     6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatacgac ccaacagatg
     6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gtcgctagtc
     6121 aaagaaacac cacagggggc tctataggag caacccgcgc ccatgaagtg cacatagaca
     6181 ccaaaaaccc tagatacacc ccaaagcttg gctctgtgtt gatgcactct gaatctactg
     6241 attttgatga tggacaaccc acccgcttta cccccattgg catgggagcc gatgattggc
     6301 accaatggga attgcccgaa tattctggtc accttaccct taacatgaac ttggctcccg
     6361 cagttgctcc tgctttccct ggtgagcgca ttctcttctt cagatcagta gtgccgtctg
     6421 ctggtggcta tggatcaggt cacatagatt gcctcatccc acaggaatgg gtccagcatt
     6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcaggtat gtcaaccctg
     6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcta
     6601 attctggaaa caaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
     6661 tcaatcaatt ctacacactc acccccatgg gaactgggca ggggcgcaga agagttcaat
     6721 aatggcagga gctttcttag caggattggc aggtgacgcc ataacaagtg gtgtcgggtc
     6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaataaaca
     6841 gctccaattg gcatccttca agcatgacaa agagatgttg cagtcacaag tactggccac
     6901 taaacagctc cagcaggaaa tgatgaacat aaggcaaggg gtcttgtccg ctggcggctt
     6961 ttcccctaca gatgccgcga gaggtgctgt gaacgcgccg atgacaaaaa ttttggattg
     7021 gaatggaaca aggtacttcg ccccaagtag tatgaagaca accagttatt cgggccagtt
     7081 ttccagtaac cctgtacata ggcaacccac tttacctcgt tctgattccc caaaaaccaa
     7141 ggttaatagt gattctgcta gtgtgtatag ttctgcatct actgctcctt cacaatcaac
     7201 ccactcaacg gctctgactg cggggtctag ctcatctagg acaacatcct attctgcagt
     7261 agcttccact ctatctagga ctagtgactg ggtgagggga caaaatgaga ggcttagccc
     7321 gtttatggat ggcgctctcc aaacaacttt tgtcacgcca ccatcgagca aggcttcatc
     7381 acatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
     7441 tacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
     7501 aaaagattga ttaggttttc tttctttctt cttttccttt tctttctttt
//