Typing tool
|
Complete norovirus genomes
MW305680 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5068 ORF2: 5049..6671 ORF3: 6671..7477LOCUS MW305680 7492 bp RNA linear VRL 06-JUL-2021 DEFINITION Norovirus GII isolate 11632-c2 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MW305680 VERSION MW305680.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7492) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Genome-wide analyses of human noroviruses reveal coexistence of viral populations evolving under recombination constraints JOURNAL Unpublished REFERENCE 2 (bases 1 to 7492) AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P., Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H., Green,K.Y. and Parra,G.I. TITLE Direct Submission JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, MD 20993, USA COMMENT ##Assembly-Data-START## Assembly Method :: High-performance Integrated Virtual Environment (HIVE) v. 2 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7492 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="11632-c2" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Japan" /collection_date="15-May-2013" /note="genotype: GII.4[GII.P31]" gene <1..5068 /gene="ORF1" CDS <1..5068 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="QPJ59376.1" /translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKETPPR PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPL NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELAPLSL FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIA IKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEEFVV SSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGGAPKLSTKT KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARAFG GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIP HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL STWEGDRNLAPSFVNEDGVE" mat_peptide <1..958 /gene="ORF1" /product="p48" mat_peptide 959..2056 /gene="ORF1" /product="NTPase" mat_peptide 2057..2593 /gene="ORF1" /product="p22" mat_peptide 2594..2992 /gene="ORF1" /product="VPg" mat_peptide 2993..3535 /gene="ORF1" /product="Pro" mat_peptide 3536..5065 /gene="ORF1" /product="RdRp" gene 5049..6671 /gene="ORF2" CDS 5049..6671 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QPJ59377.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFETNQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL" gene 6671..7477 /gene="ORF3" CDS 6671..7477 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QPJ59378.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTAYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 cgctgttgcc aacagcaaca acgacatcgc aaaatcttca agtgacggtg tgttttctaa 61 catggctgtc acttttaagc gggccctcgg ggcgcggcct aaacagccgc ccccgaagga 121 aacaccaccc agacccccgc gaccacccac accagaattg gtcaaaaaga tccctcctcc 181 cccacccaac ggggaggatg aactagtggt ctcttacagc gccaaagatg gcgtttccgg 241 actgcctgag ctcaccactg tcagacaacc ggaagaaacc aacacggcgt tcagtgtccc 301 cccactcaac caaagggaga gcagggacgc caaggagcca ctaactggaa caatcattga 361 aatgtgggat ggagaaatct accattacgg cctgtacgtg gaacgaggtc ttatacttgg 421 tgtgcacaag ccaccggcag ccattagcct tgccaaggtc gagctagcac cgctctcttt 481 gttctggaga cctgtataca ccccccagta tctcatctct ccagacactc ttaggagatt 541 acatggagag tcattcccct acactgcatt tgacaacaat tgctacgcct tttgttgttg 601 ggtattagac ctaaacgact catggctaag caggagaatg attcagagaa caacaggttt 661 cttcaggccg taccaggatt ggaacaggaa acccctcccc actatggatg attccaaatt 721 aaagaaggta gccaacatat tcttgtgcac tttgtcttca ctattcacca gacccattaa 781 ggacataata gggaagttga aacctcttaa catccttaac attctggcta catgtgattg 841 gaccttcgca ggcatagtgg aatccttaat actcttggca gaactctttg gagttttctg 901 gacaccccca gatgtgtctg cgatgatcgc ccccttgcta ggtgattatg aactgcaagg 961 acctgaggac cttgcagtgg aactggtccc aatagtgatg ggggggatag gtttggtgct 1021 aggatttacc aaagagaaaa tcggaaagat gctatcgtct gctgcatcca ctttaagagc 1081 ttgtaaagac cttggtgcat acggactgga aatcttaaaa ttggtcatga agtggttctt 1141 cccaaagaaa gaggaagcaa atgaactggc tatggtgaga tccatcgagg atgcagtgct 1201 agacctcgag gcaattgaga acaaccacat gaccacccta ctcaaagaca aagacagctt 1261 ggcaacctac atgagaaccc ttgaccttga ggaggagaaa gccagaaaac tctcaaccaa 1321 atctgcttca cccgatattg tgggcacaat caactctctt ctggcaagaa tcgctgctgc 1381 acgctcccta gtgcatcggg cgaaagaaga gctctccagc aggccgagac ctgtcgttgt 1441 gatgatatcg ggaagaccag ggatagggaa aactcacctt gccagggagc tggccaagaa 1501 gatcgcggcc tccctcacag gggaccagcg tgtgggtctt atcccacgca atggtgtcga 1561 ccactgggac gcatacaagg gcgaaagagt tgtcctatgg gacgactatg gaatgagcaa 1621 ccccatccat gatgccctca ggttgcagga gcttgctgac acttgccccc tcacactaaa 1681 ttgtgacaga attgagaaca aagggaaagt ctttgacagt gatgccataa ttatcaccac 1741 caatctggcc aacccagcac cactggatta tgtcaacttt gaagcgtgct cgagacgcat 1801 tgatttcctc gtgtacgcag aagcccctga ggtggagaag gcaaagcgcg acttcccagg 1861 tcaacctgac atgtggaaga acgctttcag tcctgacttc tcacacataa aactgtcatt 1921 ggctccacag ggtggttttg acaagaacgg caacaccccg catggaaaag gggtcatgaa 1981 gaccctcacc actggctccc tcatcgcccg agcatcaggg ttactccatg agaggctaga 2041 tgaatatgaa ctgcaaggcc cagccctcac cactttcaac tttgaccgca acaagatact 2101 tgcttttaga cagcttgctg ctgaaaacaa gtatgggctg atggacacaa tgagagttgg 2161 aaaacagctc aaggatgtca agaccatgtc agacctcaaa caagcactca agaacatcgc 2221 gatcaagaag tgccagatag tgtacaatgg tggcacctac acacttgagg ctgatggcaa 2281 gggtagtgtg aaagttgaca aagtacaaag tgccactgtg cagaccaaca atgaactagc 2341 cggtgcccta caccacctaa ggtgcgctag aatcagatac tatgttaagt gcgtccagga 2401 ggcactgtat tccatcatcc aaatcgctgg ggctgcattc gtcaccacgc gcatcgctaa 2461 gcgcatgaat atacagaatc tctggtccaa gccacaggtg gaagacacag aagagatggc 2521 caacaaagat ggttgcctaa aacccaaaga tgatgaagag tttgtcgtct catccgacga 2581 catcaaaact gagggcaaga aagggaagaa caagtccggc cgtggcaaga agcacacagc 2641 cttttcaagc aaagggctca gtgatgagga gtacgatgag tacaagagaa tcagagaaga 2701 aaggaatggt aagtactcca tagaagagta ccttcaggac agagacaggt actacgagga 2761 ggtggccatt gccagggcaa ccgaagagga cttctgtgaa gaagaagagg ccaaaatccg 2821 gcagagaatt ttcagaccaa caaggaaaca acgcaaagaa gagagggcct ctctcggctt 2881 ggtcacaggc tctgaaatca ggaagagaaa cccagaagac ttcaaaccca agggaaagct 2941 gtgggctgat gatgacagaa gtgttgacta caatgagaaa ctcaactttg aggccccacc 3001 aagcatctgg tcgcggatag tcaactttgg ttcaggctgg ggcttctggg tctcccccag 3061 tctgtttata acatcaaccc atgtcatacc ccaaggtgca aaagagttct tcggagtccc 3121 tatcaagcaa atccagatac acaaatcagg tgaattctgc cggttgagat tcccaaagcc 3181 gatcagaact gatgtgacgg gcatgattct agaagaaggt gcgcccgagg ggaccgtggc 3241 cacactgctc atcaagagac caactggaga gctcatgcct ctggcagcca gaatggggac 3301 ccatgcaacc atgaaaattc aggggcgcac agttggaggg caaatgggta tgctcctgac 3361 aggatccaac gccaagagta tggacctagg cacaacacca ggcgactgcg gctgccccta 3421 catctacaag agggggaatg actacgtggt cataggagtc catacggccg ctgcccgtgg 3481 aggaaacact gtcatatgtg ccacccaggg gagtgaggga gaagccacac ttgaaggagg 3541 tgacagtaaa gggacatact gtggcgcacc aatcttgggc ccagggggcg ctccaaagct 3601 cagtaccaag actaagtttt ggagatcatc cacaacacca ctcccacctg gcacctacga 3661 accagcctac ctcggtggca aagaccctag agtcaaaggt ggcccttcat tgcaacaagt 3721 tatgagggac cagctgaagc cattcacaga acccagaggc aaaccaccaa gaccaaatgt 3781 gttggaagct gccaagaaaa ccatcatcaa tgtccttgag caaacaattg atccacccca 3841 aaaatggtca tttgcgcaag cttgcgcatc ccttgacaaa accacctcca gcggccaccc 3901 gcaccacatg cggaaaaacg actgttggaa tggggagtcc ttcacaggaa aattggctga 3961 tcaagcctcc aaggccaacc taatgtttga agagggaaag aacatgactc cagtctacac 4021 aggtgcactt aaagatgagt tggtaaagac cgataaagtt tatggtaagg tcaagaagag 4081 gcttctgtgg ggttcagatc tggcgaccat gatacggtgc gcccgagctt ttggaggcct 4141 tatggatgaa ctcaaggcac actgtgtcac acttcctgtc agggttggta tgaacatgaa 4201 tgaggatggc cccatcatct ttgagaagca ctccagatat agatatcatt atgatgctga 4261 ttattcccgg tgggactcaa cacaacaaag ggatgtgcta gcagcagcac tagaaatcat 4321 ggttaagttc tctccagaac cacacctggc ccagatagtt gcagaagacc tcctttcccc 4381 tagcgtaatg gatgtaggtg actttcaaat atcaataagt gagggtctcc cctctggggt 4441 accttgtacc tcccagtgga attccatcgc ccactggctc ctcactctgt gtgcactctc 4501 tgaagtcacg gacctgtccc ctgatatcat tcaggccaac tcccttttct ccttctatgg 4561 tgatgatgag attgtaagca cagacataaa gttggaccca gagaagctga cagcaaaact 4621 caaggagtac gggctgaaac caacccgccc cgacaaaact gaaggacccc ttgttatctc 4681 tgaagacctg gatggcctga cattcctccg gagaactgtg acccgtgatc cagctggctg 4741 gtttggaaaa ttggaacaaa gttcaattct caggcaaatg tactggacca ggggtcccaa 4801 ccatgaagac ccatttgaaa caatgatacc acactcccaa agacccatac aattgatgtc 4861 cttgctgggc gaggctgcac tccacggccc ggcattctat agcaaaatta gcaaattagt 4921 cattgcagag ttgaaggaag gtggcatgga tttttacgtg cccagacaag agccaatgtt 4981 cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc tggctcccag 5041 ttttgtgaat gaagatggcg tcgagtgacg ccaacccatc tgatgggtcc gcagccaacc 5101 tcgtcccaga ggtcaacaat gaggttatgg ctctggagcc cgttgttggt gccgccattg 5161 cggcacctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac 5221 aagcccctgg tggagagttt acagtatccc ctagaaacgc tccaggtgaa atactatgga 5281 gcgcgccctt gggccctgat ctaaatccct acctatccca tttggccaga atgtacaatg 5341 gttatgcagg tggttttgaa gtgcaggtaa ttctcgcggg gaacgcgttc accgccggga 5401 aggtcatatt tgcagcagtc ccaccaaatt ttccaactga aggcttgagc cccagccagg 5461 tcactatgtt cccccatata gtagtagatg ttaggcaact agaacctgtg ttgattccct 5521 tacccgatgt taggaataat ttctaccatt acaatcaatc aaatgacccc actattaagt 5581 tgatagcaat gttgtataca ccacttaggg ctaataatgc tggggatgat gtcttcacag 5641 tttcttgccg agttctcacg agaccatccc ccgattttga tttcatattt ctagtgccac 5701 ccacagttga gtcaagaact aaaccattct ctgtcccagt tttaactgtt gaggagatga 5761 ccaattcaag attccccatt cctttggaaa agttgttcac gggtcccagc agtgcctttg 5821 ttgtccaacc acaaaacggt aggtgcacga ctgatggcgt gctcctaggc accacccaac 5881 tgtctcctgt caacatctgc accttcagag gagatgtcac ccatatcaca ggtagtcata 5941 actacacaat gaatttggct tctcaaaatt ggaacaatta tgacccaaca gaagaaatcc 6001 cagcccctct aggaactcca gattttgtgg ggaagattca aggcgtgctc acccaaacca 6061 caaggacaga tggctcaaca cgcggccaca aagctacagt gtacactggg agcgccgatt 6121 ttgctccaaa actgggtaga gttcaatttg aaactgacac agaccatgac tttgaaacta 6181 accaaaacac aaagttcacc ccagttggtg tcatccaaga tggtggcacc acccaccgaa 6241 atgaacccca acagtgggtg ctcccaagtt actcaggcag aaatactcct aatgtgcatc 6301 tggcccccgc tgtagccccc acttttccgg gtgagcaact tctcttcttc agatccacca 6361 tgcccggatg cagcgggtac cccaacatgg atttggactg tctgctcccc caggaatggg 6421 tgcagtactt ctaccaagag gcagccccag cacaatctga tgtggctctg ctaagatttg 6481 tgaatccaga cacaggtagg gttttgtttg agtgtaagct tcataaatca ggctatgtta 6541 cagtggctca cactggtcaa catgatttgg ttatcccccc caatggttat tttaggtttg 6601 attcctgggt caaccagttt tacacgcttg cccccatggg aaatggaacg gggcgtagac 6661 gtgcactata atggctggag ctttctttgc tggattggca tctgatgtcc ttggctctgg 6721 acttggttcc cttatcaatg ctggggctgg ggccatcaac caaaaagttg agtttgaaaa 6781 taacagaaaa ttgcaacaag catccttcca atttagcagc aatctacaac aggcttcctt 6841 tcaacatgac aaagagatgc tccaagcaca aattgaggcc accaaaaggc tacaacagga 6901 aatgatgaaa gttaagcagg caatgctcct agagggtggg ttctctgaga cagatgcagc 6961 ccgcggggca atcaacgccc ccatgacaaa agctttggac tggagcggga caaggtactg 7021 ggctcccgat gctaggacta cagcatacaa tgcaggccgc ttttccaccc ctcaaccatc 7081 gggggcactg ccaggaagag ctaatcttag ggatgctgtc cctgctcggg gttcctccag 7141 caagtcttct aattcttcta ctgctacttc tgtgtactca aatcaaacta cttcaacgag 7201 acttggttct acagctggtt ctggtaccag tgtctcgagc ttcccgtcaa ctgcaaggac 7261 taggagctgg gttgaggatc aaagtaggaa tttgtcacct ttcatgaggg gggcccacaa 7321 catatcgttt gtcaccccac catctagcag atcctctagc caaggcacag tctcaaccgt 7381 gcctaaagag attttggact cctggactgg cgctttcaac acgcgcaggc agccactctt 7441 cgctcacatt cgtaagcgag gggagtcacg ggcgtaatgt gaaaagacaa aa //