Typing tool

Complete norovirus genomes

MH218730  GI.3
 GI.P14

Length: 7,737 | 3 CDS

ORF1: 5..5404
ORF2: 5388..7025
ORF3: 7025..7672
LOCUS       MH218730                7737 bp    RNA     linear   VRL 11-JUN-2018
DEFINITION  Norovirus GI isolate NORO_91_26_02_2015, complete genome.
ACCESSION   MH218730
VERSION     MH218730.1
KEYWORDS    .
SOURCE      Norovirus GI
  ORGANISM  Norovirus GI
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1  (bases 1 to 7737)
  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 7737)
  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..7737
                     /organism="Norovirus GI"
                     /mol_type="genomic RNA"
                     /isolate="NORO_91_26_02_2015"
                     /host="Homo sapiens"
                     /db_xref="taxon:122928"
                     /country="United Kingdom"
                     /collection_date="26-Feb-2015"
                     /note="genotype: GI.Pf_GI.3"
     gene            5..5404
                     /gene="ORF1"
     CDS             5..5404
                     /gene="ORF1"
                     /codon_start=1
                     /product="nonstructural polyprotein"
                     /protein_id="AWR17848.1"
                     /translation="MMMASNDAIAVADVSNNNANTNNENIGSRLMARLRGRIGPQRGE
                     TTTRIKDANMALDLLRRSQTPSPSRQDHPPKDQRDRPPRTALEVKKSMGWDEEPQQQE
                     STAKAWCDLTREEKEEIMRNNEKLFDAGGIAPAVLPSTFERATPQESTGGCQTVVWSA
                     SDGVDIGVDDLKTVRGPHWNMCPLPPLEARIDGPAREPRIGDMIEFYEGHIFHYAIYV
                     GQGKTIGVHSPQAAFSIPRITIHPLVAWWRVCYTPTDQQRLTYDQLKELENEPWPYAS
                     ITNNCYEFCCKVMALDDTWLQRKLVTTGKFNHPTQDWSKDTPDFHQDSKLEMVRDAVL
                     SAINGLVSQPFKDILSKIKPLNLINLLSNCDWTFMGVVELIVLVAELFNVFWTPPDIS
                     SFIASLLPDFHLQGPEDLAKDLVPIILGGIGLAIGFTRDKITKVMKSAVDGLRSATQL
                     GQYGLEIFSIIKKYFFGGDQTERTLRGIEDAVIDMEVLSSTNVTQLVRDKKSAKAYMN
                     ILDIEEEKARKLSVRSADPHIVTSVNNLISRISMARSALAKAQAEMTSRIRPVVIMMC
                     GPPGIGKTKAAEHLASRLATEIRPGGKVGLVPRESIDHWDGYHGEEVLLWDDYGMSKI
                     TEDCNKLQAIADTAPLSLNCDRIENKGMQFVSDAIIITTNAPGPAPVDFVNLGPVCRR
                     VDFLVYCSAPEIEQTRRAHPGDSNAIKDLYKKDFSHLKMDLAPQGGFDNQGNTPFGKG
                     VMKPTTLNRLLIQATALTMERQDEFQLQGKVYNFDEDRVAAFTNLARANGLGLISMAT
                     LGKKLRSVKTMEGLRNALVGYRVEECDIIWNTRIYSIKSDGKSVIVKEKQNQTSSQHQ
                     AVSTATLALSRLRAARAVAYASCLQSAVLSILQVAGSAVVVSRAVKRMFGTSTEQPAL
                     EGGEREHNCRVHRAQAAGRGPIGHDGIIERYGLCESEQEDENEQVVELPSANKEGKNK
                     GKTKKGRGRKSNFNAFSRRGLSDEEYEEYKKIREEKSGNYSIQEYLEDRQRYEEELAE
                     VQAGGDGGIGETEAEIRHRVFYKSKSGMRKQRQEERRQLGLISGTEIRKRKPIDWTPP
                     KNDWSEDTRSVNYDEHISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGVKE
                     VFGEALSNVAIHRVGEFTQFRFSKKMRPDLTGMVLEEGCPEGTVCTIMIKRDSGELLP
                     LAVRMGAVASMKIQGKLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVC
                     GVHAAATKSGNTVVCAIQGGEGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWK
                     STPQPLPPGTYEPAYLGGKDPRVDGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVE
                     TVTNAIEQVMDTPVAWSFSDACMSLDKTTSSGHPHHKKKNDDWNGSSFVRELGDQAAH
                     ANNMYELGKSMKPVYTAALKDELVKPDKVYNKIKKRLLWGADLGTVIRAARAFGPFCD
                     AIKPHVIKLPIKVGMNAIEDGPLIYAEHSKYKYHYDADYTAWDSTQNREIMMESFNIM
                     CKLTANPSLAAVVAQDLLSPSEMDVGDYIISVKDGLPSGFPCTSQVNSINHWILTLCA
                     LSEVTGLAPDVLQSQSYFSFYGDDEIVSTDVEFDPNKLTQVLKEYGLKPTRPDKTDGP
                     IVVKQQVDGLVFLRRTISKDAIGYQGRLDRNSIERQLWWTRGPNHDDPFETLVPHSQR
                     KIQLISLLGEAALHGEKFYRKIASRVIQEVKEGGLEIYIPGWQAMFRWMRFHDMSLWT
                     GDRDLLPDYVNDDGV"
     mat_peptide     5..1219
                     /gene="ORF1"
                     /product="p48"
     mat_peptide     1220..2308
                     /gene="ORF1"
                     /product="NTPase"
     mat_peptide     2309..2908
                     /gene="ORF1"
                     /product="p22"
     mat_peptide     2909..3328
                     /gene="ORF1"
                     /product="VPg"
     mat_peptide     3329..3871
                     /gene="ORF1"
                     /product="Pro"
     mat_peptide     3872..5401
                     /gene="ORF1"
                     /product="RdRp"
     gene            5388..7025
                     /gene="ORF2"
     CDS             5388..7025
                     /gene="ORF2"
                     /codon_start=1
                     /product="VP1"
                     /protein_id="AWR17849.1"
                     /translation="MMMASKDAPTNMDGTSGAGQLVPEVSTAEPISMEPVAGAATAAA
                     TAGQVNMIDPWIMSNYVQAPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLAQMYNG
                     WVGNMKVRVLLAGNAFTAGKIIISCVPPGFAAQNVSIAQATMFPHVIADVRVLEPIEV
                     PLEDVRNVLFHNNDSTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFNFL
                     FLVPPNVEQKTKPFSVPNLPLNVLSNSRVPSLIRSMMVSQDHGQMVQFQNGRVTLDGQ
                     LQGTTPTSASQLCKIRGTVFHATGGQGLNLTEVDGAPYHAFESPAPIGFPDIGECDWH
                     INASPANAFTNGAIIQRLDVVQDSTFAPHLGTIQLHHMLNLSANVSLMCSLEWLSPPS
                     GGASKKVNPWTIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSNFPIANGSDGLSVPC
                     TIPQEFVTHFVNEQAPTRGEAALLHYVDPDTHRNLGEFKLYPEGFMTCVPNSSGSGPQ
                     TLPINGVFTFISWVSRFYQLKPVGTTGPVRRLGIRRS"
     gene            7025..7672
                     /gene="ORF3"
     CDS             7025..7672
                     /gene="ORF3"
                     /codon_start=1
                     /product="VP2"
                     /protein_id="AWR17850.1"
                     /translation="MAQAIFGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQNN
                     TFRHDKEMLGLQVGASTALLQNSLNTRYNMLTNAGLSSSDAARMVVGAPATRVVDWNG
                     TRISAPQSTATTLRSGGFMTIPTLYKGKQQQKPTEIGLSNPNYGSSASSSRVADWVSS
                     QNSSRSSLGPYHPSALQTTWVTPPGSSSTSTISSVSTAPRYFNTERLPLFANMRK"
ORIGIN      
        1 gtgaatgatg atggcgtcta acgacgctat tgccgttgct gatgtcagca ataacaatgc
       61 taacaccaac aatgaaaata tcgggtctcg tcttatggcg agactccgcg gacgcatagg
      121 tccgcaacgt ggtgaaacca ctacaagaat aaaggatgct aacatggcgc ttgacctcct
      181 gcgccgttca caaacacctt ccccatcccg acaagaccac cccccaaaag atcagaggga
      241 tcgtccaccg cgcaccgccc tagaggtgaa aaagtcaatg ggatgggacg aagagccaca
      301 acaacaagag agcaccgcta aggcgtggtg tgatctcaca agagaagaga aagaggagat
      361 aatgcgtaac aatgaaaagc tcttcgacgc tgggggaatt gctcccgcag ttttaccaag
      421 cacattcgag agagctacac cacaagaaag cactggtgga tgccagacag tagtctggtc
      481 tgccagtgac ggtgtggaca ttggtgtgga tgacctgaaa acagtccgtg gccctcattg
      541 gaacatgtgc cccttaccac ccttagaggc gcgcattgac ggtcctgcga gagagccccg
      601 tataggggat atgattgagt tttatgaggg tcatatcttt cattatgcca tttacgttgg
      661 gcaagggaag actattggcg tccactcacc acaagcagcc ttctccatac ctagaataac
      721 catccatccc ttagtagctt ggtggcgtgt gtgctataca cccactgacc agcagaggct
      781 cacctatgat caattgaaag aattggagaa tgagccgtgg ccctatgcct caattaccaa
      841 caattgctat gagttttgct gtaaagtgat ggcccttgat gatacttggc tccaacggaa
      901 attagttacc actggaaaat tcaaccaccc cacacaggat tggtcaaaag acacccccga
      961 tttccatcag gattcaaaac ttgagatggt ccgggatgct gtgttgtcgg ccatcaatgg
     1021 cctcgtgtca cagccattta aggacatttt gtcaaagatc aaacccctca atctgattaa
     1081 tctgttgtca aattgtgatt ggacttttat gggggttgtg gaattaatag tgcttgtggc
     1141 tgaattattc aatgtatttt ggacaccacc agacatatct agttttattg catcattatt
     1201 gcctgacttc caccttcagg gtccagagga tttggcaaaa gatctggtcc ctattatact
     1261 aggtggaatc ggtcttgcaa ttggcttcac aagagacaaa atcactaagg tcatgaagag
     1321 tgccgttgat ggactgcgct cagcaacaca acttgggcaa tacgggttag aaatattttc
     1381 aattataaag aaatacttct ttggaggtga ccagacagag aggaccctac ggggcatcga
     1441 agatgctgtg atagacatgg aagtgttgtc cagcacaaat gtgacacaat tagtcaggga
     1501 taaaaagtca gccaaggcat acatgaacat attggacatc gaggaggaaa aagccagaaa
     1561 actttctgtc cgtagtgctg acccacacat agtaacctca gttaataatt tgatatcccg
     1621 catctccatg gcaagatcag ccttggccaa ggcccaggca gagatgacgt cccgcatacg
     1681 tccagtggtg atcatgatgt gcggtccccc aggcattggc aaaacaaaag ctgctgagca
     1741 tctagctagc cggttggcca ctgagattag accaggtggc aaggtgggcc tcgtaccacg
     1801 tgaatccata gaccactggg atggttacca tggtgaagag gtcttgttgt gggacgacta
     1861 cggcatgtca aaaataacgg aagattgcaa caaattgcag gccattgctg acactgcacc
     1921 actatcgcta aattgtgaca ggatagaaaa caagggcatg caatttgtct ccgatgcaat
     1981 aattataact accaatgccc ccggcccggc cccagttgat tttgtcaatt taggacccgt
     2041 gtgtagacga gtggacttct tggtctactg ctctgcacct gaaattgagc agacccgcag
     2101 ggcccatcca ggcgactcca atgccataaa agacctatac aagaaagatt tctcacactt
     2161 gaaaatggac ctagccccac aagggggttt tgataaccag ggtaacacgc cctttggcaa
     2221 gggtgtaatg aagcccacca cccttaatcg gttgctaatc caagccactg ccctaactat
     2281 ggaaagacaa gatgagttcc agctccaagg taaggtttac aactttgatg aagacagagt
     2341 ggctgcgttc accaacttag cccgcgctaa tggattaggg cttatcagta tggcaaccct
     2401 tggcaagaaa ctaagaagtg ttaaaaccat ggaaggattg cgtaatgcac tagttgggta
     2461 tcgggtggag gagtgcgaca taatttggaa caccagaatc tactcaatca agagtgacgg
     2521 taagagtgtg atagtcaagg agaagcaaaa ccagacctcg tcccaacacc aagctgtcag
     2581 cacggccacc ctcgcacttt ccaggttgcg agctgcccga gcggtagcat atgcgtcctg
     2641 tctgcagagc gccgtcttat ccatactcca ggtggctggt tctgcggtgg tggtgagcag
     2701 agcagtaaaa cgcatgtttg gcacgagtac cgaacagccc gcactggagg gtggggagag
     2761 agaacacaac tgcagggttc accgggcaca ggccgcaggc cgcggtccca tagggcatga
     2821 tgggatcatt gagcgctatg gtttgtgtga gagcgagcaa gaggatgaaa atgaacaagt
     2881 tgtggaacta ccatcagcca acaaggaagg taaaaataag ggcaaaacca agaaaggccg
     2941 tggccgcaag tccaatttca atgctttctc acgacgtgga cttagtgatg aagagtatga
     3001 ggaatacaag aagatcaggg aagaaaagag tggcaattac agcatacagg aataccttga
     3061 agaccgccaa cgttatgaag aagaactcgc cgaagtgcaa gcaggtgggg atggtggaat
     3121 cggtgagact gaggcagaaa ttcgccaccg ggttttctac aagtcaaaat ctggtatgag
     3181 gaagcaacgc caagaggaaa ggcgacagtt agggcttatc agtggaactg agatccgtaa
     3241 acgcaagcct atagattgga ccccccctaa aaatgactgg tctgaggata ccagatcggt
     3301 taattatgat gagcacatca gttttgaagc ccccccctca atttggagta gagttgtcaa
     3361 atttggtagt ggctggggat tttgggtgag ctcaacagtg ttcatcacca caacccatgt
     3421 cataccacct ggagttaaag aagtgttcgg ggaagccctt agcaatgttg ccatccatag
     3481 agttggtgag ttcacccagt tccgtttctc caagaaaatg agacctgacc ttacaggtat
     3541 ggtcctggaa gaaggatgcc cagagggtac ggtgtgcact atcatgataa agagggactc
     3601 tggtgagcta ctaccgctcg ccgtgcgtat gggggcagtg gcctcaatga agattcaagg
     3661 gaagctcatg catggtcagt caggaatgct gctcactggt gccaacgcta agggtatgga
     3721 ccttggtacc atacctggag actgtggggc gccttatgtc cataagagag gtaatgattg
     3781 ggtggtgtgt ggagtgcacg cagcagccac gaaatcaggc aacacagtgg tgtgcgcgat
     3841 ccaaggtggt gagggtgaag ccacactaga gggtggtggt caaaacaaag gtcactatgc
     3901 tggacaccca atactgaggt atgggaatgg accttctcta tcaaccaaaa caaagttctg
     3961 gaaatcaacc ccccaacctc taccccctgg tacctatgaa ccagcctatc taggtggcaa
     4021 agatccaagg gtcgacgggg ggccatcttt gcaacaagtg ctcagagatc agttaaagcc
     4081 attcgctgaa ccccgaggca ggttgccaga agctggacta ctagaggcag cagtggagac
     4141 agtcactaat gcaatagaac aggtcatgga cacgccagtg gcatggagtt ttagcgatgc
     4201 ctgtatgtct ctagataaga ccactagttc tggtcacccc caccacaaaa agaagaatga
     4261 tgattggaat gggagctcat ttgtgcgtga attgggagac caggctgcac acgctaataa
     4321 catgtacgag ctcggaaaat ccatgaaacc agtctacact gcagccctca aagatgagct
     4381 tgtgaagccg gacaaagtgt acaacaaaat taagaaaagg ctgttgtggg gagcggacct
     4441 tggtaccgtc atccgagctg ccagagcatt tggccctttc tgtgatgcta taaaacccca
     4501 tgtcattaag ttacctatca aggtaggcat gaatgccata gaggatggcc cattgatcta
     4561 cgcagagcac tccaagtata aatatcatta tgatgctgac tacacagctt gggactcaac
     4621 tcaaaacagg gaaattatga tggaatcctt taacatcatg tgcaagctca cagccaatcc
     4681 ctctttggct gccgtggttg ctcaagattt gctctctcca tccgaaatgg acgtaggaga
     4741 ctacataata agtgtcaaag atggtttgcc atcaggcttt ccatgcacat cacaggttaa
     4801 cagcatcaat cattggatcc tcactctttg tgctttgtca gaggtcactg gcctcgctcc
     4861 tgatgttctt cagtcacaat cctacttctc cttctatggt gatgatgaaa ttgtctccac
     4921 agatgttgag tttgatccaa acaaattaac acaagtgctc aaggaatatg gtctcaaacc
     4981 caccaggcca gacaaaactg atgggcctat tgtggttaaa cagcaagtgg atggtctggt
     5041 tttcctccgg cgcaccatct caaaagatgc catcgggtac caagggcggc ttgaccgcaa
     5101 ctctattgaa agacaactct ggtggactcg aggccccaat catgatgacc cttttgaaac
     5161 cttggtgcca cattcacaaa gaaagatcca gctaatatct ctactaggtg aagcagcgct
     5221 ccatggcgaa aagttctaca gaaagatagc aagcagggtt atccaagaag tgaaggaagg
     5281 tgggctagaa atctacatcc ctggatggca agccatgttc cgctggatgc gattccatga
     5341 tatgagtttg tggacggggg atcgcgatct cctgcccgat tatgtaaatg atgatggcgt
     5401 ctaaggacgc cccaacaaac atggatggca ccagtggtgc tggtcagctg gttccagagg
     5461 ttagtacagc tgaacctata tcaatggaac ctgtggctgg tgcagctaca gcagcagcaa
     5521 ccgcaggtca agttaatatg attgacccct ggattatgag taattatgtt caagctcctc
     5581 aaggagaatt cacaatctcc cctaataata ctcctggaga catattgttt gatttacaat
     5641 taggccctca tctgaatcca ttcctatcac acctggccca gatgtataac gggtgggtag
     5701 gcaacatgaa ggttagggtc ctactcgctg gtaatgcctt cacggcgggt aagataataa
     5761 tcagttgtgt ccccccagga tttgcagctc aaaatgtttc tatagcccaa gccactatgt
     5821 ttccccatgt tattgcagat gtgcgagtgc tcgaaccaat tgaagttcct ttggaggatg
     5881 tgaggaatgt gcttttccat aacaatgatt ctaccccaac tatgagattg gtttgcatgt
     5941 tgtacacccc tctccgcgct agtggtagct cttctggcac tgatccattc gttatagctg
     6001 gccgggtcct tacctgtcct agtcctgatt ttaatttctt attccttgtg cctcccaatg
     6061 ttgaacagaa aactaaacca tttagtgtac ccaatcttcc tctcaatgtt ctatcaaatt
     6121 ctagggtccc ttctttgata agatccatga tggtttccca agaccacggg cagatggtac
     6181 agttccagaa cggtagggtt acattagatg ggcagctcca aggcactacc cccacttcag
     6241 ctagtcagct ctgcaagatc cgagggacgg ttttccatgc aactggtggt caagggctca
     6301 acttgactga ggttgatggg gccccctacc atgcatttga gagccctgcc ccaattggtt
     6361 ttcctgatat aggtgaatgt gattggcaca ttaatgcatc tcctgctaat gcttttacaa
     6421 atggtgccat catacaaaga cttgatgtgg tccaagattc cacttttgct ccccatttag
     6481 gcactatcca gttacaccac atgctgaatt tgagtgctaa tgttagcctg atgtgttcac
     6541 ttgagtggct ttctcctcca agtggcggtg cttcaaagaa agtgaaccca tggaccattc
     6601 ctcggtatgg ctcaacttta actgaggctg ctcagttggc ccctccaata tacccccctg
     6661 gctttggtga ggcaattgtt ttcttcatgt ctaattttcc catagctaat ggttcagatg
     6721 gtctaagtgt cccttgcacc ataccacaag aatttgtaac ccattttgtc aatgaacaag
     6781 caccaacacg tggggaagct gctctccttc attatgttga ccctgacaca catcgcaatc
     6841 taggtgagtt caaattatac cctgaaggat tcatgacttg tgtgccaaat tctagtggta
     6901 gtggtcccca aacactgcct atcaatggtg tcttcacttt catctcttgg gtttcccgtt
     6961 tctatcaatt aaagcctgtg ggaacgaccg gaccggttcg taggcttgga atcaggagat
     7021 cataatggcc caagcaatat ttggagcaat agctgcgacg gctgctggta gtgctgtggg
     7081 tgcgggcatt caggctggta ctgaggctgc actccaacac cagcgtttcc agcaggactt
     7141 aacgttgcag aataacacct ttagacatga taaggaaatg ttagggttgc aggttggtgc
     7201 ttccactgcc ctcttacaaa atagccttaa cacccgctac aacatgctca ccaatgctgg
     7261 cctctcgtcc tcggacgcag ctcgcatggt ggttggcgca cctgctacgc gtgttgtaga
     7321 ttggaatggc accaggatat cagcaccaca gtccactgcc accactctga ggtctggcgg
     7381 gtttatgaca atcccaactc tatacaaggg taaacagcag cagaagccaa ctgaaattgg
     7441 cctatctaat ccaaattatg ggtcgtctgc ctcatcttca agggttgctg attgggtttc
     7501 ttctcaaaat tcttcccgct cgtccttggg tccatatcac cccagtgcat tgcaaacaac
     7561 atgggtgaca ccacctggct caagttcgac ttctactatc tcttctgtgt ctaccgcacc
     7621 tagatatttt aatactgaaa ggttgcctct attcgcaaac atgaggaaat aattttgtaa
     7681 tatgaaatgt gggcatcata ttcaattgga tttgattaat attaatttgg tttaatt
//