Typing tool
|
Complete norovirus genomes
MG002631 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 1..5082 ORF2: 5063..6685 ORF3: 6685..7491LOCUS MG002631 7522 bp RNA linear VRL 08-NOV-2017 DEFINITION Norovirus GII strain Hu/GII.P16_GII.4_Sydney2012/BNE2/2017/AU polyprotein gene, partial cds; and major capsid protein and minor structural protein genes, complete cds. ACCESSION MG002631 VERSION MG002631.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7522) 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and Warrilow,D. TITLE Characterization of norovirus strains from cases in Brisbane, Queensland, Australia JOURNAL Unpublished REFERENCE 2 (bases 1 to 7522) AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D. TITLE Direct Submission JOURNAL Submitted (26-SEP-2017) Public Health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..7522 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.P16_GII.4_Sydney2012/BNE2/2017/AU" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Australia" /collection_date="11-Jul-2017" /note="genotype: GII.P16_GII.4" CDS <1..5082 /codon_start=1 /product="polyprotein" /protein_id="ATL14556.1" /translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR DKSQKPPRPPTPELVKRIPPPPPNGEEGEEPVIRYEVKSGISGLPELTTVPQPDVANT AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR RMVQRTTGFFRPYQEWNRKPLPTIDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSED DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS THVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT SKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRA VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP TRPDKTEGPLIISKDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM RFSDLSTWEGDRNLAPNFVNEDGVE" CDS 5063..6685 /codon_start=1 /product="major capsid protein" /protein_id="ATL14557.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" CDS 6685..7491 /codon_start=1 /product="minor structural protein" /protein_id="ATL14558.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTHNAGRFSTLQSSGTLPGRINLRDAVPARGPPSKSS NSSTVTSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRRRGESRV" ORIGIN 1 gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc ttcaggtgaa 61 ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag gcccaaacag 121 cctgccccga gagacaaatc acaaaagccc ccaagaccac caactcccga gttggtcaag 181 aggatacccc ctcctccgcc taatggcgaa gaaggagaag aaccagtcat taggtatgag 241 gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaacc ggacgtggcc 301 aacacagcat tcagcgttcc accactgagc ttgagagaaa acagggaggc caaggaaccg 361 ctaacagggg caatattaga gatgtgggat ggagagatat accactacgg tctgtacgtg 421 gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat ggcaagagtg 481 gagctgacgc cgttgtcatt gtactggcgt gtggtgtaca ctccccaata cctcatctcc 541 cctgaaactc tcaggaggct caacggagag gcattccctt acaccgcctt tgacaacaac 601 tgctatgcct tttgctgctg ggtgttagac ctcaatgact catggcttag caggaggatg 661 gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaatagaaa acccctgcct 721 accatagatg actccaaaat taaaaaggta gcaaacatat tcctatgttc attgtccaca 781 ttattcacca gacccataaa agacctcata ggaaaaatca aaccattaaa catattgaat 841 atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg agtctctgat attacttgct 901 gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc tcccttactc 961 ggggactacg agttgcaagg gccagaagac ctcgccgttg aactcgtgcc tgtggtaatg 1021 ggagggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat gttgtcctca 1081 gcagcatcaa cactcagggc ttgcaaagat cttggtgcct atggcttaga gatactcaaa 1141 ttggtcatga agtggttctt cccgaagaaa gaggaggcca atgagctagc catggtgagg 1201 gccatagagg atgctgtact agatcttgag gcaatagaaa ataaccacat gacaaccctg 1261 ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga ggaggagaaa 1321 gccagaaggt tgtccacaaa atctgcatcc cctgacatag tcgggacaat caacgccctg 1381 ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga gctatctagc 1441 aggatgagac cagtggttgt tatgatatct ggcaaaccag gaataggaaa aactcatctg 1501 gccagggagg tggcaagaaa ggtggcatcc actctcacag gggaccaaag agtcggactc 1561 ataccaagaa acggtgtcga ccattgggat gcatacaaag gtgagagagt cgtgctgtgg 1621 gacgactatg gcatgagtaa ccccattcat gatgctctcc gcatacaaga gttggctgat 1681 acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt ttttgacagt 1741 gaagtcataa taattacaac aaacctcgcc aatccagccc cacttgatta cgtcaacttt 1801 gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga agtagaaaag 1861 gcaaaacggg actttcctgg tcagccagat atgtggaagg acgccttcaa gtcggacttt 1921 tcacacatca agctacagct tgcaccacag ggcggctttg acaagaatgg caacacccca 1981 catgggaaag gagtgatgaa gaccctcacc accggttctc tgattgcccg tgcatcaggc 2041 ctactgcacg agaggatgga tgaatttgaa ctccagggtc ccacaatcac caccttcaac 2101 ttcgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa gtatggattg 2161 gtggatacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga agaactcaaa 2221 caagcaatca ggaatgtgac cattaagagg tgccggatca tctacggtgg ttccacgtat 2281 gaccttgaat ctgatggcaa gggcaaagtt ctggtggaaa aggtcaagaa cacctctgta 2341 cagaccaaca acgagttggc cggggccctg caccatctca aacacgcccg aatcaggtac 2401 tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg cgctgcgttt 2461 gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa gccacagtta 2521 gatcaaaatg aatcagagac taaggaagag gcccccaagt cagaagatga cgagttcatc 2581 atatcttcta aggacatcaa ggaagaagga aagaagggca aaaacaaaac tggccgtggc 2641 aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga cgagtacaag 2701 agaataagag aagagagaaa tgggaagtac tctatagagg agtatcttca agacagagac 2761 aggtactatg aggagctcgc cattgccaaa gccacggaag aagacttctg tgaagaggag 2821 gagatcaaaa tccgtcagag aattttccgt cccaccagga aacaacgaaa ggaagagagg 2881 gccacattag ggctagtaac aggttcagaa atcagaaaaa gaaaccctga tgacttcaaa 2941 cccaaaggga agctgtgggc cgatgataac agaagtgttg actacaatga gaaactggac 3001 tttgaggctc ctccaagcat atggtccagg attgtgagct ttggttctgg ctggggcttc 3061 tgggtatcac caagcctgtt tataacatct actcatgtaa tccccgcagg cataacagaa 3121 gcatttggag tccccatcaa acaaattcag atccacaaat caggtgaatt ttgccgattt 3181 agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga aggtgcgcct 3241 gagggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat gcctcttgca 3301 gctagaatgg gaactcacgc aaccatgaaa attcaaggcc gcatggttgg tggacagatg 3361 ggtatgttgc tcactggatc aaatgctaaa ggaatggatt taggaacaac tcctggtgac 3421 tgtggctgtc cttacatcta taaaaggggc aatgactata tagtcattgg ggtgcacact 3481 gcagcagccc gtggtggaaa caccgtcatc tgtgccacac agggaagtga gggtgaggca 3541 actcttgaag gtggagatga caaaggaaca tactgtgggg cacccattct aggtcctggg 3601 ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac gccccttcca 3661 ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa gggtgggccc 3721 tccttgcaac aggtaatgag agaccaattg aagccattca ctgaacccag gggcaaacct 3781 ccaagaccaa gtgtattgga agcagccaaa caaaccatca tcaatgtcct cgaacaaacc 3841 ctggaccctc cacaaaaatg gacatatgca caggcgtgtg cctcacttga caaaaccacc 3901 tccagcgggc atccccatca cgtccgaaag aatgaattct ggaatggtga gaccttcact 3961 agcaaattgg cagaccaagc atcaaaagca aacttaatgt ttgaggaagg gaaacacatg 4021 acaccagtgt atacagcagc actcaaggac gagctagtca agactgagaa aatctatgga 4081 aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg gtgcgctagg 4141 tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc agtccgagtc 4201 ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag atacagatat 4261 cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt actagcagca 4321 gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat agtcgctgag 4381 gacctgctag cccccagtgt agtagatgtg ggagacttta aaataacaat aaatgaaggg 4441 ctcccctctg gtgtgccatg cacttctcaa tggaactcca tcgcacattg gctgctaact 4501 ctatgtgctt tgtctgaagt caccaaactg tcccctgaca ttatacaggc aaattccatg 4561 ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaactgga ccctgaacag 4621 ctaaccgcta aattgaagga gtacggcctg aaaccaaccc gcccagacaa aaccgaggga 4681 cccctgatca tcagtaaaga tttgaacgga ctcactttcc tccggaggac ggtgactcgt 4741 gacccagctg gctggtttgg gaaactggat caaagctcaa ttttgaggca gatgtactgg 4801 actagaggac caaatcatga agaccccaat gagacaatga taccccattc tcaaagaccc 4861 atacagctca tggcactgct tggcgaagcc tctcttcacg gaccctcttt ttacagtaaa 4921 attagcaaat tggtcataac tgaactcaaa gaaggtggga tggactttta cgtgccaagg 4981 caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga gggcgatcgc 5041 aatctggctc ccaattttgt gaatgaagat ggcgtcgagt gacgccaacc catctgatgg 5101 gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg agcccgttgt 5161 tggtgccgct atcgcggcac ctgtagcggg ccaacaaaat gtaattgacc cctggattag 5221 aaataatttt gtacaggccc ctggtggaga gtttacagtg tcccctagaa acgctccagg 5281 tgaaatacta tggagcgcgc ccctaggccc tgacctgaat ccctacctat cccatttggc 5341 cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaatcctcg cggggaacgc 5401 gttcaccgcc gggaagatta tatttgcagc agtcccacca aattttccaa ccgaaggctt 5461 aagtcctagc caggtcacta tgttccccca tataatagta gatgttagac aattagaacc 5521 tgtgctgatt cccttacccg atgttaggaa taatttctat cactataatc aatcaaatga 5581 ctccactatt aagttgatag caatgttata tacaccactt agggctaaca atgctgggga 5641 cgatgtcttc acagtttcgt gccgagttct cacgagacca tcccccgact ttgatttcat 5701 attcttagtg ccacccacag ttgagtcaag aaccaaacca ttctctgtcc cagtcttaac 5761 tgttgaggag atgaccaatt caagatttcc cattcctttg gaaaagttgt tcacgggccc 5821 cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc acaactgatg gcgtgctcct 5881 aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggggacg tcacccacat 5941 cacaggtagt cacaactaca cgatgaattt ggcttctcaa aattggaaca attatgaccc 6001 aacagaagaa atccctgccc ctctaggaac tccagatttt gtggggaaga ttcaaggcgt 6061 gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta cagtgtacac 6121 tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg acacaaacca 6181 tgattttgag gccaaccaaa acacaaagtt caccccagtc ggtgtcatcc aagatggtgg 6241 caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag gcagaaacac 6301 tcacaatgta catctggccc ccgctgtagc acccaccttt ccgggtgaac agcttctctt 6361 ctttagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg actgtctgct 6421 cccccaggaa tgggtacagt acttctacca agaggcagcc ccagcacaat ctgatgtggc 6481 tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgaatgca agcttcacaa 6541 gtcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc cccccaatgg 6601 ttactttagg tttgattcct gggtcaacca gttctacaca cttgccccca tgggaaatgg 6661 aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt ggcatctgat 6721 gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat caatcaaaaa 6781 gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag cagcaatctg 6841 caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga ggccaccaaa 6901 aagttacaac aggaaatgat gaaggtcaag caggcaatgc tcctagaggg tgggttctct 6961 gagacagatg cagcccgcgg ggcaattaac gcccccatga caaaagctct agactggagc 7021 gggacaaggt attgggctcc cgatgctagg actacaacac acaatgcagg ccgcttttcc 7081 acccttcaat catcggggac attgccagga agaattaatc ttagggatgc cgttcctgct 7141 cggggacccc ccagtaaatc ttctaactct tctactgtca cctctgtgta ctcaaatcaa 7201 accacttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtttc gagcctcccg 7261 tcgactgcaa ggactaggag ctgggttgag gaccaaagta ggaatttgtc acctttcatg 7321 aggggggccc acaacatatc atttgtcacc ccaccatcta gcaggtcctc tagccaaggc 7381 acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt taacacgcgc 7441 aggcagcctc tcttcgctca cattcgtagg cgaggggagt cacgggtgta atgtgaaaag 7501 acaaaattga ttacctttct tt //