Typing tool

Complete norovirus genomes

AB447427  GII.4 Den Haag
 GII.P4 Den Haag

Length: 7,511 | 3 CDS

ORF1: 3..5102
ORF2: 5083..6705
ORF3: 6705..7511
LOCUS       AB447427                7511 bp    RNA     linear   VRL 05-NOV-2008
DEFINITION  Norovirus Hu/GII-4/Hokkaido1/2006/JP genomic RNA, complete genome.
ACCESSION   AB447427
VERSION     AB447427.1
KEYWORDS    .
SOURCE      Norovirus Hu/GII-4/Hokkaido1/2006/JP
  ORGANISM  Norovirus Hu/GII-4/Hokkaido1/2006/JP
            Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
            Picornavirales; Caliciviridae; Norovirus.
REFERENCE   1
  AUTHORS   Motomura,K., Oka,T., Yokoyama,M., Nakamura,H., Mori,H., Ode,H.,
            Hansman,G.S., Katayama,K., Kanda,T., Tanaka,T., Takeda,N. and
            Sato,H.
  CONSRTM   and the Norovirus Surveillance Group of Japan
  TITLE     Identification of monomorphic and divergent haplotypes in the
            2006-2007 norovirus GII/4 epidemic population by genomewide tracing
            of evolutionary history
  JOURNAL   J. Virol. 82 (22), 11247-11262 (2008)
   PUBMED   18768979
REFERENCE   2  (bases 1 to 7511)
  AUTHORS   Motomura,K. and Sato,H.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JUL-2008) Contact:Kazushi Motomura National Institute
            of Infectious Diseases, Center for Pathogen Genomics; Gakuen 4-7-1,
            Musashi-Murayama, Tokyo 208-0011, Japan
COMMENT     These sequences were determined at our laboratory.
FEATURES             Location/Qualifiers
     source          1..7511
                     /organism="Norovirus Hu/GII-4/Hokkaido1/2006/JP"
                     /mol_type="genomic RNA"
                     /strain="Hu/GII-4/Hokkaido1/2006/JP"
                     /isolation_source="stool"
                     /db_xref="taxon:546951"
                     /country="Japan:Hokkaido"
     CDS             3..5102
                     /note="contains N-terminal, NTPase, 3A, VPg, 3Cpro and
                     3Dpol"
                     /codon_start=1
                     /product="polyprotein"
                     /protein_id="BAG70427.1"
                     /translation="MKMASNDASAAAVVNSNNDTAKSSSDKMFSSMAVTFKRALGARP
                     KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
                     ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
                     LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
                     WLSRRMIQRTTGFFRPYQDWNRKPLPTTDDSKLKKVANIFLCTLSSLFTRPIKDVIGK
                     LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
                     LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
                     KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST
                     KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
                     AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
                     PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
                     AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
                     SGLLHERLDEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
                     PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLR
                     CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENIEEATNKDGC
                     PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
                     KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
                     TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
                     SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
                     TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
                     CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
                     PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
                     RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
                     NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
                     ATMIRCARAFGGLMDEFKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
                     STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
                     SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
                     EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
                     NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
                     PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
     CDS             5083..6705
                     /codon_start=1
                     /product="VP1"
                     /protein_id="BAG70428.1"
                     /translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
                     QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
                     FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
                     VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
                     TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSGAFVVQPQNGRCTTDGVLLGTT
                     QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
                     TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
                     STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
                     CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
                     IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
     CDS             6705..7511
                     /codon_start=1
                     /product="VP2"
                     /protein_id="BAG70429.1"
                     /translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
                     SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
                     APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPTRGSSSTSS
                     NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
                     SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN      
        1 gaatgaagat ggcgtctaac gacgcttccg ctgccgctgt tgttaacagc aacaacgaca
       61 ccgcaaaatc ttcaagtgac aaaatgtttt ctagcatggc tgtcactttt aaacgagccc
      121 tcggggcgcg gcctaaacag ccccccccga gggaaatacc acaaagaccc ccacgaccac
      181 ctactccaga actggtcaaa aagatccctc ctcccccgcc caacggagag gatgaagtag
      241 tggtttctta tagtgccaaa gatggcgttt ccggtttgcc tgagctttcc accgtcaggc
      301 aaccggaaga aaccaatacg gccttcagtg tccctccact caaccagagg gagaatagag
      361 atgctaagga accactgact ggaacaattc tggaaatgtg ggatggagaa atctaccatt
      421 atggcctgta tgttgagcga ggtcttgtgc tgggtgtgca caaaccacca gctgccatta
      481 gcctcgccaa ggtcgaacta acaccactct ccttgttctg gagacctgtg tacactcctc
      541 agtacctcat ctctccagac actctcaaga aattacacgg agaaacgttt ccctacacag
      601 cctttgacaa caattgctat gccttttgtt gctgggtcct ggatctaaat gactcgtggc
      661 tgagtaggag aatgatccag agaacaactg gcttcttcag accctaccaa gactggaata
      721 ggaaacccct ccccactacg gatgattcca aattaaagaa ggtagccaac atattcctgt
      781 gcaccctgtc ttcgctattc accaggccca taaaagacgt aataggaaag ttaaggcctc
      841 tcaacatcat caacatcctg gcttcatgtg attggacttt cgcaggcata gtggagtcct
      901 tgatactctt ggcagagctc tttggagtct tctggacacc cccagatgtg tctgcgatga
      961 ttgccccctt actcggtgat ttcgagttac aaggacctga ggaccttgta gtggagctcg
     1021 tccctgtagt aatgggggga attggtttgg tgctaggatt taccaaagag aagattggaa
     1081 aaatgttgtc atctgctgca tccaccttga gagcttgtaa agatcttggt gcatatgggc
     1141 tagagatcct aaagttagtc atgaagtggt tcttcccgaa gaaagaggag gcaaatgaac
     1201 tggctatggt gagatccatc gaggatgcag tgctggacct tgaggcaatt gaaaacaacc
     1261 atatgaccac cttgctcaaa gacaaagaca gcctggcaac ctacatgaga acccttgacc
     1321 tcgaggaaga gaaagccaga aaactctcaa ccaagtctgc ttcacctgac atcgtgggca
     1381 caatcaacgc ccttctggcg agaatcgccg ctgcacgctc cctggtgcac cgagcgaagg
     1441 aggagctttc cagcagacca agacctgtag tcttgatgat atcaggcaga ccagggatag
     1501 ggaaaaccca ccttgctagg gaagtggcta agagaatcgc agcctccctc acaggagacc
     1561 agcgtgtagg cctcatccca cgcaatggcg tcgatcactg ggatgcgtac aagggggaga
     1621 gggtcgtcct atgggacgac tatggaatga gcaaccccat ccacgacgcc ctcaggctgc
     1681 aagaactcgc tgacacttgc cccctcactc taaattgtga caggattgag aataaaggaa
     1741 aggtctttga cagcgatgtc atcattatta ctactaatct ggccaaccca gcaccactgg
     1801 actacgtcaa ctttgaagcg tgctcgaggc gcatcgattt cctcgtgtat gcagaagccc
     1861 ccgaggtcga aaaggcgaag cgtgacttcc cgggccaacc tgacatgtgg aaaaacgctt
     1921 ttagttctga tttctcacac ataaaattgg cactggctcc acaaggtggc tttgataaga
     1981 acgggaacac cccacacggg aagggcgtca tgaagactct caccactggc tcccttattg
     2041 cccgggcatc agggctgctc catgagagat tggatgagtt tgaactacag ggcccaactc
     2101 ttaccacctt caactttgac cgcaacaaag tgcttgcctt caggcagctt gctgctgaaa
     2161 acaaatatgg gttgatggac acaatgaaag ttgggaggca gctcaaggat gtcaaaacca
     2221 tgccagaact taaacaagct ctcaagaata tctcaatcaa gaagtgccag attgtatata
     2281 gtggttgcac ctacacactt gagtctgatg gcaagggcaa tgtgaaagtt gacagagttc
     2341 agagcacctc cgtacagacc aacaatgagc tggctggcgc cctgcaccat ctgaggtgcg
     2401 ccagaatcag gtactatgtc aagtgtgtcc aggaggccct gtattctatc atccagattg
     2461 ctggggctgc atttgtcacc acgcgcatca tcaagcgtgt gaacattcaa gacttatggt
     2521 ccaagccaca agtggaaaac atagaggagg ctaccaacaa ggacgggtgc ccaaaaccca
     2581 aagatgatga ggagttcgtc atttcatctg acgacattaa aactgagggt aagaaaggga
     2641 agaacaagac tggccgtggc aagaagcaca cagccttctc aagtaaaggt ctcagtgatg
     2701 aagagtatga tgagtacaag agaattagag aggaaaggaa tggcaagtac tccatagaag
     2761 agtaccttca ggacagggac aaatactatg aggaggtggc cattgccagg gcgaccgagg
     2821 aagacttctg tgaagaggag gaggccaaga tccggcaaag gatcttcaga ccaacaagga
     2881 aacaacgcaa ggaagaaaga gcttctctcg gtttagtcac aggttctgaa attaggaaaa
     2941 gaaacccaga agacttcaag cccaagggga aactgtgggc tgacgatgac agaagtgtgg
     3001 actacaatga gaaactcagt tttgaggccc caccaagcat ctggtcaagg atagtcaact
     3061 ttggttcagg ttggggcttc tgggtctccc ctagcctgtt cataacgtca acccacgtca
     3121 taccccaggg cgcaaaggag ttctttggag tccccatcaa acaaattcag gtacacaagt
     3181 caggcgaatt ctgtcgcctg aggttcccaa aaccaatcag gactgatgtg actggcatga
     3241 tcttggaaga aggtgcgccc gaaggcaccg tggtcacact actcatcaaa aggtctactg
     3301 gagaactcat gcccctagca gctagaatgg ggacccatgc aaccatgaaa attcaagggc
     3361 gcacagttgg aggtcagatg ggcatgcttc tgacaggatc caacgccaaa agcatggatc
     3421 taggcaccac accaggtgat tgcggctgtc cctacatcta caagagagga aatgactatg
     3481 tggtcattgg agtccacacg gctgccgctc gtgggggaaa cactgtcata tgtgccaccc
     3541 aggggggcga gggggaagcc acacttgaag gtggtgacag taagggaaca tactgtggtg
     3601 caccaatcct aggcccaggg agtgccccaa aacttagcac caaaaccaaa ttctggagat
     3661 catccacagc accactccca cctggcacct atgaaccagc ctaccttggt ggcaaggacc
     3721 ccagagtcaa gggtggcccc tcgttgcagc aagtcatgag ggaccagctg aaaccattta
     3781 cagagcccag gggtaagcca ccaaagccaa gtgtgttaga agctgccaag aaaaccatca
     3841 tcaatgtcct tgaacaaaca attgacccac ctgagaagtg gtcgttcgca caagcttgcg
     3901 cgtcccttga caagaccact tctagcggcc atccgcacca catgcggaaa aacgactgct
     3961 ggaacgggga atccttcaca ggcaagctgg cagaccaggc ttccaaggcc aacctgatgt
     4021 ttgaagaagg gaagaacatg accccagtct acacaggtgc acttaaggat gaattagtca
     4081 aaactgacaa aatttatggt aagatcaaga agaggcttct ctggggctcg gatttagcaa
     4141 ccatgatccg gtgtgctcga gcattcggag gcctaatgga cgaattcaaa gcacactgtg
     4201 tcacacttcc tatcagagtt ggtatgaata tgaatgagga tggccccatc atcttcgaga
     4261 agcattccag gtacagatac cactatgatg ctgattactc tcggtgggat tcaacacaac
     4321 agagagccgt gctggcagct gctctagaaa tcatggttaa attctcctca gaaccacatt
     4381 tggctcaggt agtcgcagaa gaccttcttt ctcctagcgt ggtggatgtg ggtgacttca
     4441 caatatcaat taacgagggt cttccttctg gggtgccctg cacctcccaa tggaactcca
     4501 tcgcccactg gcttctcact ctctgtgcac tctccgaggt cacaaacttg tccccagaca
     4561 tcatacaggc taattctctc ttctccttct atggtgatga tgaaattgtt agtacagaca
     4621 taaaattaga cccagagaag ttgacagcaa agcttaagga atatgggttg aaaccaaccc
     4681 gccctgacaa aactgaagga cctcttgtta tttctgaaga cttagatggt ttgactttcc
     4741 tgcggagaac tgtgacccgc gacccagctg gttggtttgg aaaactggag cagagctcaa
     4801 tactcaggca aatgtactgg actaggggcc ccaaccatga agatccatct gaatcaatga
     4861 ttccacactc tcaaagaccc atacaattga tgtccttact gggagaggct gcactccacg
     4921 gcccaacatt ctacagtaaa atcagcaaat tagtcatcgc agagctaaaa gaaggtggta
     4981 tggattttta cgtgcccagg caagagccaa tgttcagatg gatgagattc tcagatctga
     5041 gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat
     5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt
     5161 atggctttgg agcccgttgt cggtgccgct attgcggcgc ctgtagcggg ccaacaaaat
     5221 gtaattgacc cctggattag aaataatttt gtacaagccc ctggtggaga gttcacagta
     5281 tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccttaggccc tgatctgaat
     5341 ccctacctat ctcatttggc cagaatgtat aatggttatg caggtggttt tgaagtgcag
     5401 gtgatcctcg cggggaacgc gttcaccgcc ggaaaaatta tatttgcagc agtcccacca
     5461 aattttccaa ctgaaggctt gagtcccagc caggtcacta tgttccccca cataatagta
     5521 gatgttaggc aattggaacc tgtgttgatc cccttacctg atgttaggaa taacttctat
     5581 cactataatc agtcaaatga ttctactatt aaattgatag caatgctgta tacaccactt
     5641 agggccaata atgctgggga agatgtcttc acagtctctt gtcgagtcct cacgaggccg
     5701 tcccctgatt ttgactttat atttttggta ccacccacag ttgagtcaag aactaaacca
     5761 tttactgtcc caatcttaac tgttgaagaa atgaccaatt caagattccc cattcctttg
     5821 gaaaagttgt tcacgggtcc cagcggtgcc tttgttgtcc aaccacaaaa tggcaggtgc
     5881 acgactgatg gcgtgctctt aggcaccacc caactgtctc ctgtcaacat ctgcaccttc
     5941 agaggggatg tcacccacat tgcaggttct cgtaattaca caatgaattt ggcttctcta
     6001 aattggaaca attatgaccc aacggaagaa attccagccc ctctaggaac tccagatttc
     6061 gtgggaaaga tccaaggtgt gctcactcaa accacaaagg gagatggctc gacccgtggc
     6121 cataaggcta cagtttacac tgggagtgcc ccctttactc caaagctggg cagtgttcaa
     6181 ttcagtactg atacagaaaa tgattttgaa actcaccaaa acacaaaatt caccccagtc
     6241 ggtgtcatcc aggatggtag caccacccac cgaaatgaac cccaacaatg ggtgctccca
     6301 agttattcag gtagaaatgt tcataatgtg cacctagccc ctgctgtagc ccccactttt
     6361 ccgggtgaac aacttctttt cttcaggtcc actatgcccg gatgcagcgg gtatcccaac
     6421 atggatttgg attgcctact cccccaggag tgggtgcagc acttctacca agaggcagct
     6481 ccagcacaat ctgatgtggc tctattgaga tttgtgaatc cagacacggg tagggtcctg
     6541 tttgagtgca aacttcataa atcaggctat gtcacagtgg ctcacaccgg ccagcatgat
     6601 ttggtcatcc cccccaatgg ctattttagg tttgattcct gggttaatca attctacaca
     6661 cttgccccca tgggaaatgg aacggggcgt agacgtgctt tataatggct ggagctttct
     6721 ttgctggatt ggcatctgat gtccttagct ctggacttgg ttccctaatc aatgccgggg
     6781 ctggggctat caaccaaaag attgattttg aaaataacag aaaattgcag caagcttcct
     6841 tccagtttag cagtaatcta caacaggctt cctttcaaca tgataaagag atgctccaag
     6901 cacaaattga ggccactaaa aagttgcaac aggaaatgat gaaagtcaaa caggcaatgc
     6961 tcttagaagg tggattctct gaaacagatg cagcccgtgg ggcaatcaac gcccccatga
     7021 caaaggcttt ggactggagc ggaacaaggt actgggctcc tgatgctagg actacaacat
     7081 acaatgcagg ccgcttttcc acccctcaac cttcgggggc actgccagga agaatcaatc
     7141 ccaggactcc tacccccact cggggctcct ccagtacatc ttctaatgct tctactgcta
     7201 cttctatata ttcaaatcaa actgtttcaa cgagacttgg ttctacagct ggttctggca
     7261 ccaatgtctc gagtctcccg tcaactgcaa ggactaggag ttgggttgag gatcaaaaca
     7321 gaaatttgtc acctttcatg aggggggctc acaacatatc gtttgtcacc ccaccatcta
     7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agaagttttg gactcctgga
     7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtagg cgaggggagt
     7501 cacgggtgta a
//