Typing tool
|
Complete norovirus genomes
MG002630 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5083 ORF2: 5064..6686 ORF3: 6686..7492LOCUS MG002630 7539 bp RNA linear VRL 03-NOV-2017 DEFINITION Norovirus GII strain Hu/GII.P16_GII.4_Sydney2012/BNE1/2017/AU polyprotein gene, partial cds; and major capsid protein and minor structural protein genes, complete cds. ACCESSION MG002630 VERSION MG002630.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7539) 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and Warrilow,D. TITLE Characterization of norovirus strains from cases in Brisbane, Queensland, Australia JOURNAL Unpublished REFERENCE 2 (bases 1 to 7539) AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D. TITLE Direct Submission JOURNAL Submitted (26-SEP-2017) Public Health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..7539 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.P16_GII.4_Sydney2012/BNE1/2017/AU" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Australia" /collection_date="19-May-2017" /note="genotype: GII.P16_GII.4" CDS <1..5083 /codon_start=2 /product="polyprotein" /protein_id="ATL14553.1" /translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR NESQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANT AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK QAIRNVTIKRCRIIYGGSTYYLESDGKGKVLVEKVKNTSVQTNNELAGTLHHLKHARI RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKSED DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR PSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHVRKNEFWNGETFT GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC ARSFGGLMDEMKAHCITLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM RFSDLSTWEGDRNLAPNFVNEDGVE" CDS 5064..6686 /codon_start=1 /product="major capsid protein" /protein_id="ATL14554.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" CDS 6686..7492 /codon_start=1 /product="minor structural protein" /protein_id="ATL14555.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRTRGESRV" ORIGIN 1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaggaaaaat cttcaggtga 61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca 121 gcctgccccg agaaacgaat cacaaaagcc cccaagacca ccaactcccg agttggtcaa 181 gaggataccc cctcctccac ctaatggcga agaagaagaa gaaccagtca ttaggtatga 241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc 301 caacacagca ttcagtgtcc caccactgag cttgagagaa aacagggagg ccaaggaacc 361 gctaacaggg gcaatattag agatgtggga tggagagata taccactacg gcctgtacgt 421 ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagca tggcaagagt 481 ggagctgaca ccgctgtcat tgtactggcg tgtggtgtac actccccaat acctcatctc 541 ccctgaaact ctcaggaggc tcaacggaga ggcattccct tacaccgcct tcgacaacaa 601 ctgctatgcc ttttgctgct gggtgttgga cctcaatgac tcatggctta gcaggaggat 661 ggtgcaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc 721 taccatggat gactccaaaa ttaagaaggt agcaaatata ttcctatgtt cattgtccac 781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa acatattgaa 841 catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtctctga tattacttgc 901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact 961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat 1021 gggagggatt ggtttggtgt tgggattcac caaagagaaa attggcaaaa tgttgtcctc 1081 agcagcatca acactcaggg cttgcaaaga tcttggtgcc tatggcttag agatactcaa 1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ccatggtgag 1201 ggccatagag gatgccgtac tagatcttga ggcaatagaa aataaccaca tgacaaccct 1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa 1321 agccagaagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa tcaacgctct 1381 gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag agctatctag 1441 caggatgaga ccagtagttg ttatgatatc tggtaaacca ggaataggca aaactcatct 1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaaa gagtcggact 1561 cataccaaga aacggtgtgg accattggga tgcatacaaa ggtgagagag tcgtgctgtg 1621 ggacgactat ggcatgagta accccattca tgatgctctt cgcatacaag aattggctga 1681 tacgtgtccc cttaccttaa attgtgacag aattgaaaat aagggaaaag tttttgacag 1741 tgaagtcata ataattacaa caaaccttgc caacccagcc ccactcgatt atgtcaactt 1801 tgaggcctgt tccaggagaa ttgattttct ggtgtacgct gaggcaccag aagtggaaaa 1861 ggcaaaacgg gactttcctg gtcagccaga tatgtggaag gacgccttca agtcggactt 1921 ttcacacatc aagctacagc ttgcacctca gggcggcttt gacaagaatg gcaacacccc 1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gtgcatcagg 2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacaatca ccaccttcaa 2101 tttcgaccgg aatagaatca cagcattcag acaattggct gcagaaaaca agtatggatt 2161 ggtggatacc atgaaagttg gcaatcaact aaaaggagtg aaaaccatgg aagaactcaa 2221 acaagcaatc aggaatgtga ccatcaagag gtgccggatc atatacggtg gctccacgta 2281 ttaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acacctctgt 2341 acagaccaac aacgagttgg ccgggaccct gcaccatctc aaacacgccc gaatcaggta 2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt 2461 tgtcaccacg cgcattgcac gccgcatgaa catacaagaa ctctggtcga agccacaatt 2521 agatcaaaat gaatcagaga ctaaggaaga gacccccaag tcagaagatg acgagttcat 2581 catatcttct aaggatatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg 2641 caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg acgagtacaa 2701 aaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga 2761 caggtactat gaggagctcg ccattgccaa ggccacggag gaagacttct gtgaagagga 2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagga aggaagagag 2881 ggccacatta gggctagtga caggttcaga aatcagaaaa agaaaccctg atgacttcaa 2941 acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt gattacaatg agaagctgga 3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg gctggggctt 3061 ctgggtatca ccaagcctgt tcataacatc aactcatgta atccccgctg gcataacaga 3121 agcatttgga gtccccatca aacaaattca gatccacaaa tcaggtgaat tttgccgatt 3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc 3241 tgaaggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc 3301 agccagaatg ggaacacacg caaccatgaa aattcaaggc cgcatggttg gcggacagat 3361 gggtatgttg ctcactggat caaatgctaa aggaatggat ttgggaacaa ctcctggtga 3421 ctgtggctgt ccttacatct ataaaagggg caatgactat atagtcattg gggtgcacac 3481 tgcagcagcc cgtggtggaa acaccgttat ctgtgccaca cagggaagtg agggtgaggc 3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg 3601 gggtgcacca aaattgagca ccaaaaccaa attttggagg tcgtcgaaca cgccccttcc 3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc 3721 ctccttgcag caggtaatga gagaccagtt gaagccattc actgaaccca ggggcaaacc 3781 tccaagacca agtgtattgg aagcagccaa acaaaccatt atcaatgtcc tcgaacaaac 3841 cctggaccct ccacaaaaat ggtcatatgc gcaggcgtgt gcctcacttg acaaaaccac 3901 ctccagcggg catccccatc acgtccgaaa gaatgaattc tggaatggtg agaccttcac 3961 tggtaaattg gcagatcaag catcaaaagc aaacctgatg tttgaggaag ggaaacatat 4021 gacaccagtg tatacagcag cactcaagga cgagctagtc aagactgaga aaatctatgg 4081 aaagatcaag aagagactgc tctggggctc tgacttgtcc accatgatcc ggtgcgctag 4141 gtcatttggt gggctcatgg acgagatgaa ggcacactgc ataacactcc cagtacgcgt 4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatacaaata 4261 tcactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag tgctagcagc 4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga 4381 ggatctgctg gcccctagtg tagtagatgt aggagacttt aaaatcacaa taaatgaagg 4441 gctcccatct ggtgtaccgt gcacttccca atggaactcc atcgcacact ggctgttaac 4501 tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac attatacaag caaattccat 4561 gttctcattt tacggtgatg acgagattgt cagcaccgac ataaaattgg accctgaaca 4621 gttaaccgcc aaattgaagg agtacggcct gaaaccaacc cgcccagaca agaccgaggg 4681 acccctgatc atcagtgaag atctgaacgg actcactttc ctccgaagga cggtgactcg 4741 cgacccagct ggctggtttg gaaaactgga ccaaagctca attttgaggc agatgtactg 4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccatt ctcaaagacc 4861 catacagctc atggcactgc ttggtgaagc ctctctccac ggaccctctt tctacagtaa 4921 aatcagtaaa ttggtcataa ctgagctcaa agaaggtggg atggactttt acgtgccaag 4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg 5041 caatctggct cccaattttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg 5101 ggtccgcagc caacctcgta ccagaggtca acaatgaggt tatggctttg gagcccgttg 5161 ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta 5221 gaaataattt tgtacaagct cctggtgggg agtttacagt atcccctaga aacgctccag 5281 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa tccctaccta tcccatttgg 5341 ccagaatgta taatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg 5401 cgttcaccgc cgggaagatc atatttgcag cagtcccacc aaattttcca actgaaggct 5461 taagtcctag ccaggtcact atgttccccc atataatagt agatgttaga caattagaac 5521 ctgtgctgat tcccttaccc gatgtcagga ataatttcta tcattacaat cagtcaaatg 5581 actccactat taagttgata gcaatgttgt atacaccact tagggctaat aatgctgggg 5641 atgatgtttt cacagtttcg tgccgagttc tcacgagacc atcccccgat tttgatttca 5701 tatttttagt gccacccaca gttgaatcaa gaactaaacc attctctgtc ccagttttaa 5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggcc 5821 ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg cacaactgat ggcgtgctcc 5881 taggcaccac ccaactgtcc cctgtcaaca tctgcacctt cagaggggat gtcacccaca 5941 tcacaggtag tcgcaactac acaatgaact tggcttctca aaattggaat aactatgacc 6001 caacagaaga aatcccagcc cctctaggaa ctccagattt tgtggggaag attcaaggca 6061 tgctcaccca aactacaagg acagatggtt caacacgcgg ccacaaagct acagtgtaca 6121 ctgggagcgc cgattttgct ccaaaactgg gtagagttca atttgaaact gacacagacc 6181 atgattttga agctaatcaa aacacaaagt tcactccagt cggtgtcatc caagatggta 6241 gcaccaccca ccgaaacgaa cctcaacagt gggtgctccc aagttactca ggcagaaata 6301 ctcacaatgt acatctggcc cccgctgtag cccccacctt tccaggtgag caacttctct 6361 tctttagatc caccatgccc ggatgcagcg ggtaccctaa catggatttg gactgtctgc 6421 tcccccagga atgggtgcag tacttctatc aagaggcagc cccagcacaa tctgatgtgg 6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc aagcttcaca 6541 agtcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg 6601 gttactttag gtttgattcc tgggtcaacc agttctacac gcttgccccc atgggaaatg 6661 gaacggggcg tagacgtgta gtataatggc tggagctttc tttgctggat tggcatctga 6721 tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca tcaaccaaaa 6781 agttgagttt gaaaataaca gaaaattgca acaagcatcc ttccaattta gcagcaatct 6841 gcaacaggct tcctttcaac atgataaaga gatgctccaa gcacaaattg aggccaccaa 6901 aaagctacaa caggaaatga tgagagttaa gcaggcaatg ctcctagagg gtgggttctc 6961 tgagacagat gcagcccgcg gggcaattaa cgctcccatg acaaaagctt tggactggag 7021 cgggacaagg tactgggctc ccgatgctag gactacaaca tacaatgcag gccgcttttc 7081 cacccctcaa ccatcggggg cactgccagg aagagctaac cttagggatg ctgtccctgc 7141 tcggggaccc tccaacaaat cttctaactc ttctactgcc acctctgtgt actcaaatca 7201 aaccatttca acgagacttg gttctacagc tggttctgga accagtgtct cgagcctccc 7261 gtcaactgca aggactagga gctgggttga ggatcaaagt aggaatttgt cacctttcat 7321 gaggggggcc cacaacatat catttgtcac cccaccatct agcagatcct ctagccaagg 7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg 7441 caggcagcct ctcttcgctc acattcgtac gcgaggggag tcacgggtgt aatgtgaaaa 7501 gacaaaactg attatttttc tttttcttta gtgtctttt //