Typing tool
|
Complete norovirus genomes
MG002633 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5082 ORF2: 5063..6685 ORF3: 6685..7491LOCUS MG002633 7538 bp RNA linear VRL 03-NOV-2017 DEFINITION Norovirus GII strain Hu/GII.P16_GII.4_Sydney2012/BNE4/2017/AU polyprotein gene, partial cds; and major capsid protein and minor structural protein genes, complete cds. ACCESSION MG002633 VERSION MG002633.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7538) 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and Warrilow,D. TITLE Characterization of norovirus strains from cases in Brisbane, Queensland, Australia JOURNAL Unpublished REFERENCE 2 (bases 1 to 7538) AUTHORS Huang,B., McMahon,J., Hewitson,G. and Warrilow,D. TITLE Direct Submission JOURNAL Submitted (26-SEP-2017) Public Health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..7538 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.P16_GII.4_Sydney2012/BNE4/2017/AU" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:122929" /country="Australia" /collection_date="02-Aug-2017" /note="genotype: GII.P16_GII.4" CDS <1..5082 /codon_start=1 /product="polyprotein" /protein_id="ATL14562.1" /translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR DKSQKPPRPPTPELVKRIPPPPPNGEEEEEPIIRYEVKSGISGLPELTTVPQPDVVNT AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL NVLNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKV ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSED DEFIISSKDIREEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERTTLGLVTGSEIR KRNPDDFKPKGRLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS THVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT SKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM RFSDLSTWEGDRNLAPNFVNEDGVE" CDS 5063..6685 /codon_start=1 /product="major capsid protein" /protein_id="ATL14563.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" CDS 6685..7491 /codon_start=1 /product="minor structural protein" /protein_id="ATL14564.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQSSGALPGRTNLRDVVPARGPPSKSS NSSTATSVHSNQTASTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI 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 ctcctccacc taatggcgaa gaagaagaag aaccaatcat taggtatgag 241 gttaagagtg ggatctctgg cctgcccgag ctcacaacag tcccccaacc ggacgtggtt 301 aacacagcat tcagcgttcc accactgagc ttgagagaaa acagggaggc caaggaaccg 361 ctaacagggg caatattaga gatgtgggat ggagagatat accactacgg cctgtacgtg 421 gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat ggcaagagta 481 gagctgacgc cgctgtcatt gtactggcgt gtagtgtaca ctccacaata cctcatctcc 541 cctgaaactc tcaggaggct caacggagag gcattccctt acaccgcctt tgacaacaac 601 tgctatgcct tttgctgctg ggtgttagac ctcaatgact catggcttag caggaggatg 661 gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa acccctgcct 721 accatggatg actccaaaat caagaaggta gcaaatatat tcctatgttc attgtccaca 781 ttattcacca gacccataaa agacctcata ggaaaaatca aaccattaaa cgtattaaat 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 catggtgaga 1201 gccatagagg atgctgtact agatcttgag gcaatagaaa ataaccacat gacaaccctg 1261 ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga ggaggagaaa 1321 gccagaaggt tgtccacaaa atctgcatct cctgacatag ttgggacaat caacgccctg 1381 ctggctcgaa tagcagcggc cagatcatta gtccacaggg ccaaggaaga gctatctagc 1441 aggatgagac cagtagttgt tatgatatct ggcaaaccag gaataggaaa aactcatctg 1501 gccagggagg tggcaagaaa ggtggcatcc actctcacag gggaccaaag agtcggactc 1561 ataccaagaa acggtgtcga ccattgggat gcatacaaag gtgagagagt cgtgctgtgg 1621 gacgactatg gcatgagtaa ccccattcat gatgctcttc gcatacaaga gttggctgat 1681 acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt ttttgacagt 1741 gaagtcataa taattacaac aaaccttgcc aatccagccc cacttgatta tgtcaacttt 1801 gaggcctgtt ccaggaggat 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 ctccaaggtc ccacaatcac caccttcaac 2101 ttcgaccgga atagaatcac agcatttaga 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 acgaattggc cggggccctg caccatctca aacacgcccg aatcaggtac 2401 tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg cgctgcgttt 2461 gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa gccacaatta 2521 gatcaaaatg aatcagagac taaggaagag gcccccaagt cagaagatga cgagttcatc 2581 atatcttcta aggacatcag 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 gagatcaaga tccgtcagag aattttccgt cccaccagga aacaacgaaa ggaagagagg 2881 accacattag ggctagtaac gggttcagaa atcagaaaaa gaaaccctga tgacttcaaa 2941 cccaaaggga ggctgtgggc cgatgacaac agaagtgttg actacaatga gaaactggac 3001 tttgaggccc ctccaagcat atggtctagg attgtgagct ttggttctgg ctggggcttc 3061 tgggtatcac caagcctgtt tataacatca actcatgtaa tccccgcagg cataacagaa 3121 gcatttggag tctccatcaa acaaattcag atccacaaat caggtgaatt ttgccgattc 3181 agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga aggtgcgcct 3241 gagggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat gcctcttgca 3301 gctagaatgg gaactcacgc aaccatgaaa attcaaggcc gcatggttgg cggacagatg 3361 ggtatgttgc tcactggatc aaatgctaaa ggaatggatt taggaacaac tcctggtgac 3421 tgtggctgtc cttacatcta taaaaggggc aatgactaca tagtcattgg ggtgcacact 3481 gcagcagccc gtggtggaaa caccgtcatc tgcgccacac agggaagtga gggtgaggca 3541 actcttgaag gtggagatga caaaggaaca tactgtgggg cacccattct aggccctggg 3601 ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac gccccttcca 3661 ccagggacat atgagcctgc ctacctcggt ggccgtgatc cgcgtgttaa gggtgggccc 3721 tccttgcagc aggtaatgag agatcagtta aagccattca ctgaacccag gggcaaacct 3781 ccaagaccaa gtgtattgga ggcagccaaa caaaccatca tcaatgtcct cgaacaaacc 3841 ctggaccctc cacaaaaatg gacatacgca caggcgtgtg cctcacttga caaaaccact 3901 tccagcgggc atccccatca cgtccgaaag aatgaattct ggaatggtga gacctttact 3961 agtaaattgg cagaccaagc atcaaaagca aacctaatgt 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 atacaaatat 4261 cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt actagcagca 4321 gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat agtcgctgag 4381 gatctgctag cccccagcgt agtagatgtg ggagacttta aaataacaat aaatgaaggg 4441 ctcccctctg gtgtgccatg tacttctcaa tggaactcca tcgcacattg gctgctaact 4501 ctatgtgcct tgtctgaagt caccaaactg tcccctgaca ttatacaggc aaattccatg 4561 ttctcatttt acggtgatga cgagattgtc agcaccgaca taaaactgga ccctgaacag 4621 ctaactgcta aattgaagga gtacggcctg aaaccaaccc gcccagacaa aaccgaggga 4681 cccctgatca tcagtgaaga tttgaacgga ctcactttcc tccggaggac ggtgactcgt 4741 gacccagctg gctggtttgg aaaactggac caaagctcaa ttttgaggca gatgtactgg 4801 actagaggac caaatcatga agaccccaat gagacgatga taccccattc tcaaagaccc 4861 atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt ttacagtaaa 4921 atcagcaaat tggtcataac tgagctcaaa 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 attgcggcac ctgtagcggg ccaacaaaat gtaattgacc cctggattag 5221 aaataatttt gtacaagccc ctggtggaga gtttacagtg tcccctagaa acgctccagg 5281 tgaaatacta tggagcgcgc ccctaggccc tgacctaaat ccctacctat cccatttggc 5341 cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaatcctcg cggggaacgc 5401 gttcaccgcc gggaagatca tatttgcagc agtcccacca aattttccaa ctgaaggctt 5461 aagtcctagc caggtcacta tgttccccca tataatagta gatgttagac aattagaacc 5521 tgtgctgatt cccttacccg atgttaggaa taatttctat cactataatc aatcaaatga 5581 ctccactatt aagttgatag caatgttgta tacaccactt agggctaaca atgctgggga 5641 cgatgtcttc acagtttcgt gccgagttct cacgagacca tcccccgact ttgatttcat 5701 attcttagtg ccacccacag ttgagtcaag aactaaacca ttctctgtcc cagtcttaac 5761 tgttgaggag atgaccaatt caagatttcc cattcctttg gaaaagttgt tcacgggccc 5821 cagcagtgcc tttgttgttc aaccacaaaa cggaaggtgc acaactgatg gcgtgcttct 5881 aggcaccaca caactgtctc ctgtcaacat ctgcaccttc agaggggatg tcactcacat 5941 cacaggtagt cacaactaca cgatgaattt ggcttcccaa aattggaaca attatgaccc 6001 aacagaagaa atcccagccc ctctaggaac tccagatttt gtggggaaga ttcaaggcat 6061 gctcacccaa accacaagga cagatggttc aacgcgcggc cacaaagcta cagtgtacac 6121 tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg acacaaacca 6181 tgattttgaa gccaaccaaa acacaaagtt caccccagtc ggtgtcatcc aagatggtag 6241 caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag gcagaaacac 6301 ccataatgta catctggccc ccgctgtagc tcccactttt ccgggtgaac aacttctctt 6361 ctttagatct accatgcccg gatgcagcgg gtaccccaac atggatttgg actgtctgct 6421 cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat ctgatgtggc 6481 tctgctaaga tttgtgaatc cagacacagg tagagttttg tttgaatgta agcttcacaa 6541 atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc cccccaatgg 6601 ttactttaga tttgattcct gggtcaacca gttctacaca cttgccccca tgggaaatgg 6661 aacggggcgt agacgtgtag tataatggct ggagctttct ttgctggatt ggcatctgat 6721 gtcctcggct ctggacttgg ttcccttatc aatgctgggg ctggggctat taatcaaaaa 6781 gttgagtttg aaaacaacag aaaattgcaa caagcatcct ttcaatttag tagcaatctg 6841 caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga ggccaccaaa 6901 aagttacaac aggaaatgat gagggttaag caggcaatgc tcctagaggg tgggttctct 6961 gagacagatg cagcccgcgg ggcaattaac gcccccatga caaaagctct agactggagc 7021 gggacaaggt actgggctcc cgatgctagg actacaacat acaatgcagg ccgcttttcc 7081 acccctcaat catcgggggc actgccagga agaactaatc ttagggatgt tgttcccgct 7141 cggggacccc ccagtaaatc ttctaattct tctactgcca cctctgtgca ctcaaatcaa 7201 actgcttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtttc gagcctcccg 7261 tcgactgcaa ggactaggag ctgggttgag gaccaaagta ggaatttgtc acctttcatg 7321 aggggggccc acaacatatc atttgtcacc ccaccatcta gtaggtcctc tagccaaggc 7381 acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt caacacgcgc 7441 aggcagcctc tcttcgctca cattcgtagg cgaggggagt cacgggtgta atgtgaaaag 7501 acaaaattga ttatctttct ttttattttt ctttagtg //