Typing tool
|
Complete norovirus genomes
MG002634 | GII.4 Sydney | ||
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GII.P4 New Orleans |
ORF1: 6..5099 ORF2: 5080..6702 ORF3: 6702..7508LOCUS MG002634 7555 bp RNA linear VRL 03-NOV-2017 DEFINITION Norovirus GII strain Hu/GII.P4_New_Orleans2009_GII.4_Sydney2012/BNE5/2017/AU polyprotein, major capsid protein, and minor structural protein genes, complete cds. ACCESSION MG002634 VERSION MG002634.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7555) AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D. TITLE Characterization of norovirus strains from cases in Brisbane, Queensland, Australia JOURNAL Unpublished REFERENCE 2 (bases 1 to 7555) AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D. TITLE Direct Submission JOURNAL Submitted (26-SEP-2017) Public Health Virology, Forensic and Scientific Services, 39 Kessels Road, Coopers Plains, Queensland 4108, Australia COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 8.1 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7555 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.P4_New_Orleans2009_GII.4_Sydney2012/BNE5/2 017/AU" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Australia" /collection_date="08-Aug-2017" /note="genotype: GII.P16_GII.4" CDS 6..5099 /codon_start=1 /product="polyprotein" /protein_id="ATL14565.1" /translation="MASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQ PPPREKPQRPPRPPTPELVKDIPPPPPNGEDEIVVSYSVKNGVSGLPDLSTVRQPEES NTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLA KVELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDSWL SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGKIR PLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAK RIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL TLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK RDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVRTMPE LKQALKNVSIKKCQIVYSGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLRCA RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGCPK PKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY SIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLVTG SEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSL FITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMVLEEGAPEGTV VTLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPG SAPTLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEPRG KPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNG ESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLAT MIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDST QQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQ WNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREY GLKPTRPDKTEGPLAISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH GDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPM FRWMRFSDLSTWEGDRNLAPSFVNEDGVE" CDS 5080..6702 /codon_start=1 /product="major capsid protein" /protein_id="ATL14566.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSIPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTSNDFEASQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKAGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" CDS 6702..7508 /codon_start=1 /product="minor structural protein" /protein_id="ATL14567.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKVLDWSGTRYWAPDARITTYNAGRFSTPQSPGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPPSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tgaagatggc gtctaacgac gcttccgctg ccgctgttgc caacagcaac aacgacaccg 61 caaaatcttc aagtgacgga gtgctttcta gcatggctgt cacttttaaa cgagccctcg 121 gggcgcggcc caaacagcct cccccgaggg aaaaaccaca aagaccccca cgaccaccca 181 ctccagaact ggttaaggat atcccccctc ccccacccaa cggggaggat gaaatagtgg 241 tctcttatag tgtcaaaaat ggtgtttccg gcttgcctga cctttctacc gtcaggcaac 301 cggaagaatc caacacggct ttcagtgtcc ctccactcaa tcagagggag aatagagatg 361 ctaaggagcc actcactgga acaattttgg aaatgtggga cggggaaatc taccattatg 421 gcctgtatgt ggaacgaggt cttgtgctag gtgtgcacaa accgccagct gccatcagcc 481 ttgctaaggt tgagctggca ccactctcct tgtactggag acctgtgtac actcctcagt 541 acctcatctc tccagacact ctcaagaaat tgtccggaga gacgttcccc tacacagcct 601 ttgataataa ctgctatgcc ttttgttgct gggttctgga cctaaatgac tcgtggctga 661 gtagaagaat gatccagaga acaactggtt tctttaggcc ctatcaggac tggaatagga 721 aaccccttcc tactatggat gactccaaaa taaagaaggt agctaacata tttctgtgtg 781 ccctgtcctc gctattcacc agacccataa aagatataat agggaagata aggcctctta 841 acatcctcaa catcttggcc tcatgtgact ggacctttgc gggtatagtg gagtccctga 901 tactcttggc agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgattg 961 cccccttact tggtgactat gagctacaag gacctgagga ccttgcagta gagctcgtcc 1021 ccgtggtgat ggggggaatt ggtttggtgc taggattcac caaagagaaa attggaaaaa 1081 tgttgtcatc tgctgcgtcc actttgagag cttgcaaaga ccttggtgca tatgggctag 1141 agatcctaaa gttagtcatg aagtggttct tcccaaagaa ggaggaggca aatgaactgg 1201 ctatagtgag gtccatcgag gacgcagtcc tggatctcga ggcaattgaa aacaatcata 1261 tgaccacctt gcttaaagat aaagacagtc tggcaaccta catgagaaca cttgaccttg 1321 aagaggagaa agccagaaaa ctctcaacca agtctgcctc acccgacatc gtgggtacaa 1381 tcaacgccct cctggcgaga atcgctgccg cacgctctct ggtgcatcga gcgaaagagg 1441 agctttccag cagaccaaga cctgtggtgt tgatgatatc tggcaggcca ggaataggga 1501 agacccacct tgctagggaa gtggctaaga gaatcgcagc ctcccttaca ggagatcagc 1561 gtgtgggcct catcccacgc aatggtgtcg accattggga tgcgtacaag ggggagaggg 1621 tcgtcctgtg ggacgattat ggaatgagca accctattca cgatgccctc aggctgcaag 1681 aactcgctga cacttgtccc ctcactctga actgtgacag gattgaaaat aaaggaaagg 1741 tctttgacag cgatgtcatc atcatcacca ctaatctggc caacccagca ccactggact 1801 atgtcaactt tgaagcatgc tcgaggcgca ttgacttcct cgtgtatgca gaagcccctg 1861 aagttgaaaa ggcgaagcgt gacttcccag gccagcctga catgtggaag aacgctttca 1921 gttctgattt ctcacacata aaactagcac tggccccaca gggtggtttc gataagaacg 1981 ggaacacccc acacggaaag ggcgtcatga agaccctcac cactggctcc cttattgccc 2041 gagcatcagg gctgctccat gagaggctgg atgaatttga gctgcagggc ccagctctca 2101 ccaccttcaa cttcgatcgc aataaagtgc ttgcctttag acagcttgct gctgaaaaca 2161 aatatggatt gatggacaca atgagggttg ggaaacagct caaggatgtc agaaccatgc 2221 cagaactcaa acaggcactc aaaaatgtct caatcaagaa gtgccaaata gtgtatagtg 2281 gttgcactta catgcttgag tctgatggca agggcaatgt gaaggttgac agaatccaaa 2341 gcgccgccgt gcagaccaac aatgagctgg ctggtgccct gcaccacttg aggtgcgcca 2401 gaatcagata ctatgtcaag tgtgtccagg aagccctgta ttccatcatc caaatcgctg 2461 gggctgcatt tgtcaccacg cgcattgcca agcgcatgaa tatacaagac ctatggtcca 2521 agccacaagt ggaaaacaca gaggagacta ccagcaagga cgggtgccca aagcctaagg 2581 atgatgagga gttcgtcatt tcatccgacg acatcaaaac tgagggcaag aaagggaaga 2641 acaagactgg ccgtggcaag aagcacacag cattttcaag caaaggcctc agtgatgaag 2701 agtatgatga atacaagagg attagagaag agaggaatgg caagtactct atagaagagt 2761 accttcagga cagggacaaa tactatgagg aggtggctat tgccagggcg actgaggaag 2821 acttctgtga agaggaggag gccaagatcc ggcaaaggat ctttaggcca acaaggaaac 2881 aacgcaagga ggaaagagtc tctcttggtc tggtcacagg ctctgaaatt aggaaaagaa 2941 acccagatga cttcaaaccc aaggggaaat tgtgggctga cgatgacagg agtgtggact 3001 acaatgagaa actcagcttt gaggccccac caagcatttg gtcgagaata gtcaactttg 3061 gttcaggctg gggattctgg gtctctccca gtttgttcat aacatcaacc catgtcatac 3121 cccagggcgc aaaggagttc tttggagtcc ccatcaaaca aatacaggta cacaagtcag 3181 gcgagttctg tcgcttgaga tttcctaaac caatcaggac tgatgtaacg ggcatggtct 3241 tggaagaagg cgcacctgag ggcaccgtgg tcacactact catcaaaagg cccactgggg 3301 aactcatgcc cctagcagct aggatgggga cccatgcgac catgaagatc caagggcgca 3361 ctgttggagg ccagatgggc atgcttctga caggatccaa cgccaagagc atggacctgg 3421 gtactacacc aggtgattgt ggctgcccct acatctacaa gagaggcaat gactatgtgg 3481 tcattggagt ccacacggct gccgcacgtg ggggaaacac tgtcatatgt gccacccaag 3541 ggagtgaagg ggaggctaca cttgagggtg gtgacaacaa ggggacatac tgtggtgcac 3601 caatcctggg tccagggagc gccccaacac ttagcaccaa gaccaaattc tggagatcgt 3661 ccacagcacc acttccacct ggcacctatg aaccagccta tcttggtggc aaggacccta 3721 gagtcaaggg tggcccttca ctgcagcaag tcatgaggga acagttgaag ccattcacag 3781 agcccagggg caagccacca aaaccaagtg tgttagaagc tgccaagaag accatcatta 3841 atgtccttga acaaacaatt gacccacctg agaaatggtc gttcgcacaa gcttgcgcgt 3901 cccttgacaa gaccacttcc agtggccatc cgcaccatat gcggaaaaac gactgctgga 3961 acggggaatc ctttacgggc aagctggcag accaagcttc caaggccaac ctgatgtttg 4021 aagaagggaa gaacatgacc ccagtctaca cagctgcgct caaggatgag ttagttaaaa 4081 ctgacaaaat ttatggtaag atcaagaaga ggcttctctg gggctcggat ttggcaacca 4141 tgattcggtg tgctcgagca ttcggaggcc taatggatga actcaaagcg cactgtgtca 4201 cactccccat tagagttggc atgaatatga atgaggatgg ccccatcatc ttcgagaggc 4261 attccaggta cacgtaccac tatgatgctg actactctcg gtgggattca acacaacaga 4321 gagccgtgtt ggcagcagct ctagaaatca tggttaaatt ctccccagaa ccacatttgg 4381 ctcaggtggt cgcggaagac cttctttccc ccagcgtggt ggacgtgggc gatttcacaa 4441 tatcaatcaa tgagggtctt ccctctgggg tgccctgcac ctcccaatgg aactccattg 4501 cccactggct cctcaccctc tgtgcgctct ctgaagtcac aaacctgtcc cctgatacca 4561 tacaggctaa ttccctcttc tctttttatg gtgatgatga aattgttagc acagacataa 4621 aattggaccc agagaaattg acagcaaaac tcagagagta tgggttaaaa ccaacccgcc 4681 ctgacaaaac tgaaggaccc cttgccatct ccgaagacct gaatggtctg actttcctgc 4741 ggagaactgt aacccgcgac ccagctggtt ggtttggaaa actggagcag agttcaatac 4801 tcaggcaaat gtactggact aggggtccca accatggaga cccatctgaa acaatgattc 4861 cacactccca aagacccata cagttgatgt ccctactggg ggaggccgct ctccacggcc 4921 cagcatttta cagcaaaatt agcaaattgg tcattgcaga gctaaaagaa ggtggcatgg 4981 atttttacgt gcccagacaa gagccaatgt tcagatggat gagattctca gatctgagca 5041 cgtgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac 5101 gccaacccat ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg 5161 gctctggagc ccgttgttgg tgccgctatt gcggcacctg tagcgggcca acaaaatgta 5221 attgacccct ggattaggaa taattttgta caagcccctg gtggagagtt tacagtatcc 5281 cctagaaacg ctccaggtga aatactatgg agtgcaccct taggccctga tctaaatccc 5341 tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta 5401 attctcgcgg ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt cccaccaaat 5461 ttcccaactg aaggcttaag ccccagccag gtcactatgt tcccccacat agtagtagat 5521 gttaggcaac tagaacctgt gttgattccc ttacccgatg ttaggaacaa tttctaccat 5581 tataaccaat caaatgaccc caccattaag ttgatagcaa tgttgtatac accacttagg 5641 gctaataatg ctggggacga tgtcttcaca gtttcttgcc gagttctcac aagaccatcc 5701 cccgattttg atttcatatt tttagtacca cccacagttg agtcaagaac taaaccattc 5761 tctatcccag ttttaacagt tgaggagatg accaattcaa gattccccat tcctttggaa 5821 aagttgttca cgggtcccag cagcgccttt gttgttcaac cacaaaacgg cagatgcacg 5881 actgatggcg tgctcctagg caccacccaa ctgtctcctg taaacatctg caccttcaga 5941 ggggacgtca cccacatcac aggcagtcac aactacacaa tgaatttggc ttctcaaaat 6001 tggaacaatt acgatccaac agaagaaatc ccagcccctc taggaacccc agactttgtg 6061 gggaagattc aaggtatgct cacccaaacc acaagggcag atggctcaac acgcggccac 6121 aaggctacag tgtacactgg gagcgccgac tttgctccta aactgggtag agttcaattt 6181 gaaactgaca caagcaatga ttttgaagct agccaaaaca caaagttcac cccagtcggt 6241 gtcatccaag acggtagcac cacccaccga aatgaacccc aacagtgggt gctcccaagt 6301 tactcaggca gaaatactca taatgtgcat ctggcccccg ctgtggcccc cactttcccg 6361 ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta ccctaacatg 6421 gatttggact gtctactccc tcaggaatgg gtgcagcact tctaccaaga ggcagcccca 6481 gcacaatctg atgtggctct gctaagattt gtaaatccag acacaggtag ggttttgttt 6541 gagtgcaagc tccataaagc aggctatgtc acagtggctc acactggcca acacgatttg 6601 gtcatccccc ccaatggtta ttttaggttt gattcttggg tcaaccagtt ctacacgctt 6661 gcccccatgg gaaatggaac ggggcgtaga cgtgtagtat aatggctgga gctttctttg 6721 ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg 6781 gggccatcaa ccaaaaagtt gagtttgaaa acaacagaaa attgcaacaa gcatcattcc 6841 aatttagcag caatctgcaa caggcttcct ttcaacatga taaagagatg ctccaagcac 6901 aaattgaggc taccaaaaag ctacaacagg aaatgatgaa agttaagcag gcaatgctcc 6961 tagagggtgg attctctgag acagatgcag cccgcggggc aattaacgcc cccatgacaa 7021 aagttttgga ctggagcggg accaggtact gggctcccga tgctagaatt acaacataca 7081 atgcaggccg cttttccacc cctcaatcac caggggcact gccaggaaga gctaatctta 7141 gggatgctgt ccctgctcgg ggttcctcca gcaaatcatc taactcttct actgctactt 7201 ctgtgtattc aaatcaaact acttcaacga gacttggttc tacagctggt tctggtacca 7261 gtgtctcgag tctcccgtca actgcaagga ctaggagctg ggttgaggat caaagcagga 7321 atttgtcacc tttcatgagg ggggcccaca acatatcgtt tgtcacccca ccacctagca 7381 gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg 7441 gcgctttcaa cacgcgcagg cagcctctct tcgctcacat tcgtaaacgg ggggagtcac 7501 gggtgtaatg tgaaaagaca aaattgatta tctttctttt tctttagtgt ctttt //