Typing tool

Complete norovirus genomes

MH218643  GII.6
 GII.P7

Length: 7,550 | 3 CDS

ORF1: 5..5098
ORF2: 5079..6722
ORF3: 6722..7498
LOCUS       MH218643                7550 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GII isolate NORO_174_03_06_2015, complete genome.
ACCESSION   MH218643
VERSION     MH218643.1
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_174_03_06_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122929"
                     /country="United Kingdom"
                     /collection_date="03-Jun-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="AWR17589.1"
                     /translation="MKMASNDATTAFGSQNSVNDSINTAPSNKEEVGAFSNIKVGFKK
                     MLGAVPKGTKAPSSDQHCPSVKIGTKTLTVPPEPPNGEDTVKFDAKSETVRGLPDLTT
                     VQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKALGVHKPP
                     AAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNFCCWVLE
                     LNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLFSKPIKD
                     LLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFGIFWTPPDVSSFIASLIGDFELQ
                     GPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDILKLVMK
                     WFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDLEEEKAR
                     KLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPGIGKTHM
                     ARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDALTLQEL
                     ADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFLVYAESP
                     EIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRSLTQGSL
                     TARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRVGTALKG
                     VKTLEDLKVALRDVKFNECEIIYRSSKYRVSSNGKGSVSVDKVEDQTSQTANEAGAAL
                     LRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQETSEPEK
                     EVARGRWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIREERNGKY
                     SIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGVLGLVTG
                     TDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGFWVSSNL
                     LITTTHVLPKGINELFGVEIKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEGAPEGTV
                     CSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGTGPGDCG
                     CPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGAPILGPG
                     KAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKPFTEPRG
                     KPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRKNDHWNG
                     ESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYKKIKKRLLWGSDLGT
                     MIRCARAFGGLMDSMKASCIALPCRVGMNMNEDGPIIFDKHSKYRYHYDADYSRWDST
                     QQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSGVPCTSQ
                     WNSIAHWILTLSAMAEVSGLSPDVVQAHSCFSFYGDDEIVSTDINLDPMKLTQKLREY
                     GLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYWTRGPNH
                     ENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVISEIKSGGLEFYVPRQEAM
                     FRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
     gene            5079..6722
                     /gene="ORF2"
     CDS             5079..6722
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17587.1"
                     /translation="MKMASNDAAPSNDGAANLVPEATNEVMALEPVVGASIAAPVVGQ
                     QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
                     MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
                     IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
                     VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEAIVVQPQNGRCTLDGTLQGTTQ
                     LVPTQICSFRGTLISQTSRSADSTDSAQRVRDHPLHVQLKNLDGTPYDPTDEVPAVLG
                     AIDFKGTVFGVASQRNTTGNSIGATRAHEVHIVTTNPRYTPKLGTVLMYSESNDFDDG
                     QPTRFTPIGMGDDDWHQWELPEYSGHLTLNMNLAPAVAPAFPGERILFFRSVVPSAGG
                     YGSGHIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
                     SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRVQ"
     gene            6722..7498
                     /gene="ORF3"
     CDS             6722..7498
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17588.1"
                     /translation="MAGAFLAGLAGDAITSGVGSLINAGANAINQKVEYDFNKQLQLA
                     SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLSAGGFSPTDAARGAVNAPMTKILDWNG
                     TRYFAPNSMKTTSYSGQFSSNPVHRQPTLPPSASPKIKANSDSASVYSSTSTAPSQST
                     HSTALTVGSSSSRTTSSSAVASTLSRTSDWVRGQNERLSPFMDGALQTAFVTPPSSKA
                     SSYGSVSTVPKAVLDSWTPMFNTHRQPLFAHVRRRGESQI"
ORIGIN      
        1 gtgaatgaag atggcgtcta acgacgctac cactgccttt ggcagccaaa actctgtcaa
       61 tgacagtatc aacaccgccc cttctaataa agaagaggtt ggtgcattct ccaacatcaa
      121 agttggtttt aagaaaatgc tgggtgccgt tcccaagggg accaaagcac ccagtagtga
      181 tcagcactgc ccctcagtta agatcgggac caagacatta acagttcccc ctgagccccc
      241 aaatggtgaa gacaccgtga agtttgatgc gaagtcggaa actgtgcgcg ggttgccaga
      301 cttgacaacg gtgcagaatg aacacgaaaa cacaccatat actgtccccc cattgagtga
      361 aagagagcac agaccagcta ctgaaccgct tcctggcaca atactggaga tgtgggatgg
      421 tgaattctac cattactctg tgtacgtcag cggtggcaaa gccctagggg ttcataaacc
      481 ccctgcagcg ataagcctcg cgacgataga gctcacaccc atatctcttt attggaggcc
      541 cgtttacacc cccaactatc tggtctgccc agacacgttg aagggccttg ctggtgagaa
      601 gttcccctac acggccttca gcaacaactg ttacaacttc tgttgctggg tgcttgagct
      661 caatgacacg tggcttagca ggagaagcat ctctaggacc accggcttct tcaaaccata
      721 ccagtcttgg aataggaaac cccttccaac cgttgatgat ggaaagatca aaaaggtggc
      781 caacgcaatt ctctgtgcac ttggatcact gttttcaaaa ccaatcaagg acctattggg
      841 caaacttaaa 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 ggccgcatgc tatcgtccgc tgcatcaaca ctacgggcgt gcaaagactt
     1141 ggggaactat gctcttgaca tattgaaact ggttatgaag tggttcttcc caaagaaaga
     1201 agagaaagcc gagatggaaa ccctgagggc gattgaggat gccgtcctgg acatggaagc
     1261 tataggaaat aaccatctca cgaccctcct caaggacaag gatagcctca cggctttcat
     1321 gaagactcta gatctagaag aagagaaggc aaggaagctg tccaccaagt catcctcgcc
     1381 agacattgtc ggcaccatta atgccatact tgctagaata gctgctgcca ggtccctctt
     1441 gcacaaggct aaagaagaaa tgttcagcag gatcagaccc gtggttgtca tgatctcggg
     1501 tagacctggt attggcaaaa cccacatggc aagacacttg gctaagagta tcgccaacac
     1561 catgagcggc gaccagagag tgggactcgt cccacgcaac ggggttgatc attgggacgc
     1621 ctacagggga gagagggtgg ttttatggga tgattatggc atgggaaacc ctgtcaaaga
     1681 tgccctaacg ctgcaagagc tggccgacac ctgcccagta actctaaact gtgataggat
     1741 tgagaacaag gggaagatgt ttgacagtga tgtcatcata atcacgacca atttagtcaa
     1801 cccagcgccc ctcgattatg taaacttcga ggcgtgctcc agaagggtcg actttctggt
     1861 ctatgcagag tcaccagaaa ttgagaaggt taagagagac tttcccggcc aacctgacat
     1921 gtggaaggac cattttaagc cggatttttc ccacataaaa ctgactctag ccccacaggg
     1981 tgggtttgac aagaatggca acaccccgca tggtaagggc accatgcgat ccctaaccca
     2041 ggggtccctg actgcaaggg ttgcaggtct tgtccatgag aggagagacg agtttcagct
     2101 ccaggggaac gaccttcaaa catataactt tgataccaac agagtctctg catttaggaa
     2161 gctggccgca gacaacaagt atgggatcat ggagactatg agagtgggca cagcgcttaa
     2221 gggtgtcaag accttggaag atctgaaagt tgcactgagg gatgtgaagt tcaatgagtg
     2281 tgagataatt tacagaagct caaaataccg agtctcttcc aatggtaaag gttctgtctc
     2341 tgttgacaaa gttgaggacc agacatccca gaccgcaaac gaagcgggtg cagcactcct
     2401 tagactcaga caggcaagag ccagatacta tgtcagctgc ttccaagacc tcgtttacac
     2461 tctaatacag gtcgccggag catcattcgt tgtcaacagg atctctaaaa ggttctgctg
     2521 ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt gaacccgaaa aggaagtggc
     2581 ccgaggcaga tgggagattg agcccaagga cacagaacca gaaggtaaga agggtaagaa
     2641 caagaaagga agaggcaaga aacacacagc tttctccagt aaaggcttga gtgatgagga
     2701 gtatgacgag ttcaagagaa tcagagaaga aaggaacgga aaatactcca ttgaggaata
     2761 cctgcaagac cgggatcgct actatgagga agtggcagtt gcccgggcga cagaggagga
     2821 cttctgtgaa gaggaggagg ccaagataag acaaagaatc tttcgcccca caaagaaaca
     2881 gaggaaggaa gaaagggggg tgcttggttt ggttactggc acagacatca ggaagagaag
     2941 accagacgat tttcaaccga agggcaacct gtgggcagac gacactagga gtgtggacta
     3001 caacgagaga cttgatttcg aggctccccc gagtgtctgg tcaagaatag tcccattggg
     3061 cactggctgg ggcttctggg tctcatcaaa cctcctgatc acaacaacgc acgtcctacc
     3121 taaggggatt aatgaactct ttggagttga gatcaaacag attcagattc ataagtctgg
     3181 ggagttctgc aggttcagat tcccaagacc aattagacca gatgtcacag ggctcgtgtt
     3241 ggaggaaggc gctccagaag gcactgtctg ctccatactc gtaaagagac ctacaggtga
     3301 gatgatcccc ctggcagtga ggatgggcac gcatgcatcc atgaaaatac agggtaggac
     3361 cgttggtggc cagatgggaa tgctcctcac aggggcaaat gcgaagaaca tggatcttgg
     3421 caccggtcct ggtgactgcg gttgccctta catctacaaa cgtggcaatg atatagttgt
     3481 cgcgggtgtt cacaccgcag cagcccgggg aggcaacact gtcatatgtg ccactcaagg
     3541 gcaagatggg gaagcagtcc ttgagggaaa tgagaacctt ggcacttact gcggtgctcc
     3601 aatcttgggt ccaggcaagg cgcccaaact cagcacgaag accaagttct ggcgttcatc
     3661 accagacgct ttgccgccag gcacttatga gcctgcctac ttgggaggta aggaccctag
     3721 agtggaaaaa ggaccatccc tgcagcaagt catgagggac cagctaaaac ctttcacaga
     3781 gcccaggggc aagccaccta gacctgcagt cttagaagaa gccaaaaaga cagtgatgaa
     3841 tgttctagag caaaccattg accctgctaa accgtggacc tattcccaag catgtgcctc
     3901 actggacaag accacttcca gtggtagccc ccatcatgtc aggaaaaatg accattggaa
     3961 tggagaatcc ttcactggcc ccctcgcaga ccaagcatcc aaagccaacc tcatgtacga
     4021 gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc aaagatgaac tagtcaaaac
     4081 tgataagatc tacaagaaga taaagaaaag gctcttatgg gggtcggatc ttggtacaat
     4141 gatcaggtgt gccagggcct ttggcggtct catggatagc atgaaggcaa gctgcatagc
     4201 cctcccatgt agggtaggaa tgaacatgaa tgaagatggc cccatcatat ttgacaaaca
     4261 ttctaagtat aggtaccatt atgatgctga ctattccagg tgggactcaa cccagcaaag
     4321 gagcattctc tcggccgcta tggaagtgat ggtgcggttc tctgctgaac cagagctggc
     4381 acaagtggtt gcagaggacc tcctggcacc cagccaacta gatgttggcg atttcgtcat
     4441 ctcagtccag gagggcctgc catcaggagt cccatgcaca tcacaatgga attcaatagc
     4501 acactggatc ctaaccttga gtgcaatggc agaagtatcg ggtctctcac cagatgttgt
     4561 tcaagcccac tcctgtttct cattctacgg tgatgatgag atcgtcagca ctgacatcaa
     4621 ccttgatccc atgaagttga cacagaagct cagagagtat ggcctggtcc ccacccgacc
     4681 tgacaaaact gagggtcccc tcgtaataac tgaagatctc accggcctaa cgttcctgcg
     4741 taggtcaatt gcacgggacc cagctgggtg gtttggaaag ttggaccaag actcaatcct
     4801 cagacagttg tactggacaa gaggccccaa ccatgagaac ccatatgaga gcatggtccc
     4861 tcattcccag cgggccacac aacttatggc ccttctcggt gaggcctcac tgcatggtcc
     4921 ccagttttac aagaaagtta gcaagatggt tattagtgag 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 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 ttcctgacat taggaataga ttctttcatt
     5581 ataatcagga aaataccccc cggatgagac ttgtggctat gttgtataca ccccttagag
     5641 caaattctgg tgaggatgtg tttacggtgt cttgcagagt tctgacccgc cctgcccccg
     5701 actttgagtt cacgtttttg gtgccaccaa ctgtggagtc aaagactaag ccctttacac
     5761 ttcctattct gactcttgga gagctgtcca actctagatt ccccgctccg atagacatgt
     5821 tgtacactga ccccaatgag gcaattgtgg tgcaaccaca aaatggcagg tgcactctag
     5881 atggaacact tcaagggacc acccaactgg tacccaccca aatttgctcc ttcaggggca
     5941 cgctaattag ccagacgtcg aggtctgcag attcaactga ttcagctcaa cgggtgaggg
     6001 accaccctct ccacgttcag ctgaagaacc tcgatgggac accatatgac cctacagatg
     6061 aggtgccagc agttttgggt gccatagatt tcaaaggaac tgtgtttggg gtcgctagcc
     6121 aaagaaacac cacagggaac tctataggag caacccgcgc ccatgaagtg cacatagtca
     6181 ccacaaaccc tagatatacc ccaaagcttg gcactgtgtt gatgtattct gaatctaatg
     6241 attttgatga tggacaaccc acccgcttca cccccattgg catgggagac gatgattggc
     6301 accaatggga attgcccgaa tattctggtc acctcactct taacatgaat ttggcccccg
     6361 cagttgcccc tgcttttcct ggcgagcgca ttctcttctt cagatcagtg gtgccgtctg
     6421 ctggtggcta tggatcaggt cacatagatt gcctcatccc acaggagtgg gttcagcatt
     6481 tctaccagga ggccgctcca tcacagtccg cggtggctct tatcagatat gtcaaccctg
     6541 acactggaag aaacatcttt gaggcaaaac tgcatagaga agggttcatc actgtggcaa
     6601 attctggaaa caaccccata gttgtgcccc caaatggtta cttcaggttt gaggcctggg
     6661 tcaatcaatt ctacacactc acccccatgg gaactggaca ggggcgcaga agagttcaat
     6721 aatggcagga gctttcttag ctggattagc aggtgacgcc ataacaagtg gtgtcgggtc
     6781 cctaatcaat gctggggcca atgcaattaa ccaaaaggta gagtatgact ttaataaaca
     6841 gctccaattg gcatccttca aacatgacaa agagatgttg caatcacaag tactggccac
     6901 taaacagctc cagcaggaga tgatgaacat aaggcaaggg gtcttgtccg ctggcggctt
     6961 ttcccctaca gacgccgcga gaggtgctgt gaacgcgccg atgacaaaaa ttttggattg
     7021 gaatggaaca aggtactttg ccccaaatag tatgaagaca accagttatt cgggccagtt
     7081 ttccagcaac cctgtgcata ggcaacccac tttaccccct tctgcatccc caaaaattaa
     7141 ggctaatagt gattctgcta gtgtatatag ttctacatct actgctcctt cacaatcaac
     7201 tcactcaacg gctttgactg tggggtctag ctcatctagg acaacatcct cttctgcagt
     7261 agcttccacc ctatctagga ctagtgactg ggtgagagga caaaatgaaa ggcttagccc
     7321 gttcatggat ggtgctctcc aaacagcttt tgtcacacca ccatcgagca aagcttcatc
     7381 atatgggtcg gtctcaaccg ttcccaaagc tgttttggac tcctggactc ctatgttcaa
     7441 tacccatagg cagcctctct tcgctcatgt gcgcaggcga ggggagtcac agatttagtg
     7501 aaaagattga ttaggttttc tttctttctt ctttcccttt tctttctttt
//