Typing tool
|
Complete norovirus genomes
KY905338 | GII.2 | ||
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GII.P16 |
ORF1: 1..5099 ORF2: 5080..6708 ORF3: 6708..7487LOCUS KY905338 7522 bp RNA linear VRL 15-AUG-2017 DEFINITION Norovirus GII strain Hu/GII.P16_GII.2/Brisbane/QLDB614/2016/AU, partial genome. ACCESSION KY905338 VERSION KY905338.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7522) AUTHORS Lun,J.H. and White,P.A. TITLE Emerging Recombinant Noroviruses in the Oceania Region, Identified by Both Clinical and Wastewater Screening JOURNAL Unpublished REFERENCE 2 (bases 1 to 7522) AUTHORS Warrilow,D., Huang,B., Lun,J.H. and White,P.A. TITLE Direct Submission JOURNAL Submitted (02-APR-2017) Forensic and Scientific Services, 39 Kessels Rd, Coopers Plains, Queensland 4108, Australia COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. R8 Sequencing Technology :: Illumina; NextSeq ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7522 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Hu/GII.P16_GII.2/Brisbane/QLDB614/2016/AU" /host="Homo sapiens" /db_xref="taxon:122929" /country="Australia" /collection_date="Oct-2016" /note="genotype: GII.P16/GII.2" CDS <1..5099 /note="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="ARO77098.1" /translation="KMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK QPAPRDKLQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQP DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAV SMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLARE VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKT MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTYVQTNNELAGALHHL KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEA PKSGDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK YSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHVRKNEFWN GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS TMVRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTTKLKE YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN HEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" CDS 5080..6708 /note="ORF2" /codon_start=1 /product="VP1" /protein_id="ARO77099.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDRHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" CDS 6708..7487 /note="ORF3" /codon_start=1 /product="VP2" /protein_id="ARO77100.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GPSHGTVSSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" 3'UTR 7488..7521 ORIGIN 1 tgaagatggc gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaaag 61 aaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg 121 gggctaggcc caaacagcct gccccgagag acaaactaca aaagccccca agaccaccaa 181 ctcccgagtt ggtcaagagg ataccccctc ctccacctaa tggcgaagaa gaagaagaac 241 cagtcattag gtatgaggtt aagagtggga tctctggcct gcccgagctc acaacagtcc 301 cccaaccgga cgtggccaac acagcattca gtgttccacc actgagcttg agagaaaaca 361 gggaggccaa ggaaccgcta acaggggcaa tattagagat gtgggatgga gagatatacc 421 actatggcct gtacgtggag aaaggcttag tgttgggtgt gcataaacca cctgcagccg 481 taagcatggc aagagtggag ctgacgccgc tgtcattgta ctggcgtgtg gtgtacactc 541 cccaatacct catctcccct gaaactctca ggagactcaa cggagaggca ttcccttaca 601 ccgcctttga caataactgc tatgcctttt gctgctgggt gttagacctc aatgactcat 661 ggcttagcag gaggatggtg caaagaacaa caggcttctt cagaccttac caagagtgga 721 acagaaaacc cctgcccacc atggatgact ccaaaattaa gaaggtagca aatatattcc 781 tatgttcatt gtccacatta ttcaccagac ccataaaaga cctcatagga aaaattaaac 841 cattaaacat attgaatatc ctggcaacgt gtgactggac ttttgccgga atagtggagt 901 ctctgatatt acttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta 961 tgatcgctcc cttactcggg gactacgagt tgcaggggcc agaagacctc gccgttgaac 1021 tcgtacctgt ggtaatgggg gggattggtt tggtgttggg attcaccaaa gagaaaattg 1081 gcaaaatgtt gtcctcagca gcatcaacac tcagggcttg caaagatctt ggtgcctatg 1141 gcttagagat actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaatg 1201 agttagccat ggtgagggcc atagaggatg ctgtactaga tcttgaggca atagaaaata 1261 accacatgac aaccctgttg aaagacaaag acagcttagc aacatacatg aaaacactgg 1321 acatggagga ggagaaagcc aggaggttgt ccacaaaatc tgcatcccct gacatagttg 1381 ggacaatcaa cgccctgctg gctcgaatag cagcggccag gtcattagtc cacagggcca 1441 aggaagagct atctagcagg atgagaccag tagttgttat gatatctggc aaaccaggaa 1501 taggcaaaac tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacagggg 1561 atcaaagagt cggactcata ccaagaaacg gtgtggacca ttgggatgca tacaaaggtg 1621 agagagtcgt gctgtgggac gactatggca tgagtaaccc cattcatgat gctcttcgca 1681 tacaagaatt ggctgatacg tgtcccctta ccttaaattg tgacagaatt gaaaataagg 1741 gaaaagtttt tgacagtgag gtcataataa ttacaacgaa ccttgccaat ccagccccac 1801 ttgattatgt taactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg 1861 caccagaagt agaaaaggca aaacgggact ttcctggtca gccagatatg tggaaggacg 1921 ccttcaagcc ggacttttca cacatcaagc tacagcttgc accccagggc ggctttgaca 1981 agaatggcaa caccccacat gggaaaggag tgatgaagac cctcactacc ggttctctga 2041 ttgcccgtgc atcaggccta ctgcatgaga ggatggatga atttgaactc caaggtccca 2101 caatcaccac cttcaatttc gaccggaaca gaatcacagc attcagacaa ttggctgcag 2161 aaaacaagta tggattggtg gataccatga gagttggcaa tcaactaaaa ggagtgaaaa 2221 ccatggagga acttaaacaa gcaatcagga atgtgaccat caagaggtgc cggatcatct 2281 acggtggctc cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg 2341 tcaagaacac ctatgtacag accaacaacg agttggctgg ggctctgcac catctcaaac 2401 acgcccgaat caggtactat gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa 2461 ttgccggcgc tgcgtttgtc accacgcgca ttgcacgccg catgaacata caagaactct 2521 ggtcgaagcc acaattagat caaaatgaat cagagactaa ggaagaggcc cccaagtcag 2581 gagatgacga gttcatcata tcttctaagg acatcaagga ggaaggaaag aagggcaaaa 2641 acaaaactgg ccgtggcaag aaacacactg cattctccag caagggcttg agcgatgagg 2701 agtatgacga gtacaagagg ataagagaag agagaaatgg gaagtactcc atagaggagt 2761 atcttcaaga cagagacagg tactatgagg agctcgccat tgccaaggcc acggaagaag 2821 acttctgtga agaggaggag atcaaaatcc gtcagagaat tttccgtccc accaggaaac 2881 aaagaaagga agagagggcc acattagggc tagtaacagg ttcagaaatc agaaaaagaa 2941 accctgatga cttcaaaccc aaagggaagc tgtgggccga tgacaacagg agtgttgact 3001 acaatgagaa actggacttt gaggcccccc caagcatatg gtctaggatt gtgagctttg 3061 gttctggctg gggcttctgg gtatcaccaa gccttttcat aacatcaact catgtaatcc 3121 ccgcaggcat aacagaagca tttggagtcc ccatcaaaca aattcagatc cacaaatcag 3181 gtgaattttg ccgattcaga ttcccaaaac caattagacc agatgtgaca gggatgatct 3241 tggaagaagg tgcgcctgag ggcaccgtgg caactgtgct catcaaacgc cccaccggag 3301 agctcatgcc tcttgcagcc agaatgggaa cacacgcaac catgaaaatt caaggccgca 3361 tggttggcgg acagatgggt atgttgctca ctggatcaaa tgctaaagga atggatttgg 3421 gaacaactcc tggtgactgt ggctgtcctt atatctataa aaggggcaat gactatatag 3481 tcattggggt gcacactgca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg 3541 gaagtgaggg tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac 3601 ccattctagg ccctgggggt gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat 3661 cgaacacgcc ccttccacca gggacatatg aacctgccta cctcggtggc cgtgatccgc 3721 gtgttaaggg tgggccctcc ctgcagcagg taatgagaga ccagttgaag ccattcactg 3781 aacccagggg caaacctcca agaccaagtg tattggaagc agccaaacaa accatcatca 3841 atgtcctcga acaaaccctg gaccctccac aaaaatggac atacgcacag gcgtgtgcct 3901 cacttgacaa aaccacttcc agcgggcatc cctatcacgt ccgaaagaat gaattctgga 3961 atggtgagac cttcactggt aaattggcag accaagcatc aaaagcaaac ctaatgtttg 4021 aggaagggaa acacatgaca ccagtgtaca cagcagcact caaggacgag ctagtcaaga 4081 ctgagaaaat ctatggaaag atcaagaaga gactgctctg gggctctgac ttgtccacca 4141 tggtccggtg cgctaggtca tttggtgggc tcatggacga gatgaaggca cactgcatat 4201 cactcccagt ccgagttggc atgaatatga atgaagatgg cccaataata tttgagaaac 4261 attccagata caaatatcac tatgatgcag actactctcg ttgggattca acacaacaga 4321 gggcagtact agcagcagcc ttggaaatta tggtcagatt ctctgcagaa ccacaattgg 4381 cacaaatagt cgctgaggat ctgttggccc ctagtgtagt agatgtagga gactttaaaa 4441 ttacaataaa tgaagggctc ccctctggtg tgccatgcac ttctcaatgg aactccatcg 4501 cacactggtt gctaactctc tgtgccttgt ctgaagtcac caaactgtcc cctgacatta 4561 tacaggcaaa ttccatgttc tcattttacg gtgatgacga gattgtcagc accgacataa 4621 aattggaccc tgaacagtta accaccaaat tgaaggagta cggcctgaaa ccaacccgcc 4681 cagacaaaac cgagggaccc ctgattatca gtgaagattt gaacggactc actttcctcc 4741 gaaggacagt gactcgtgac ccagctggct ggtttggaaa actggaccaa agctcaattt 4801 tgaggcagat gtactggact agaggaccaa atcatgaaga ccccaatgag acaatgatac 4861 cccattctca aagacccata cagctcatgg cactgcttgg tgaagcctct cttcacggac 4921 cctctttcta cagtaaaatc agtaaattgg tcataactga actcaaagaa ggtgggatgg 4981 acttttacgt gccaaggcag gaacccatgt tcaggtggat gaggttttct gacttgagca 5041 cgtgggaggg cgatcgcaat ctggctccca attttgtgaa tgaagatggc gtcgaatgac 5101 gccgctccat ctactgatgg tgcagccggc ctcgtgccag aaagtaacaa tgaggtcatg 5161 gctcttgaac ccgtggctgg tgccgccttg gcagccccgg tcactggtca aacaaatatt 5221 atagaccctt ggattagagc aaattttgtc caggccccca atggtgaatt tacagtctct 5281 ccccgtaatg cccctggtga agtgctactg aatctagagt tgggtccaga attaaatcct 5341 tatctggcac atttagcaag aatgtacaat gggtatgctg gtgggatgga ggtgcaggtc 5401 atgttggctg ggaacgcgtt cacagccggc aagttggtct tcgccgccgt gccacctcac 5461 ttcccagttg aaaaccttag cccacagcaa atcaccatgt tccctcatgt gatcatagat 5521 gtgagaacct tggaacctgt tttgttacca ctccctgatg ttaggaataa tttcttccat 5581 tataatcaga aagatgatcc caagatgaga attgtggcta tgctttatac ccccctcagg 5641 tctaatggtt caggtgatga tgtgtttaca gtctcctgca gagtgttgac tagaccttcc 5701 cctgactttg acttcacata cctggtgcca ccaacagtgg agtctaaaac aaaaccattc 5761 accctcccaa tcctcacact tggggaactt tctaattcca ggttcccagt gtccatagac 5821 cagatgtata ccagccctaa tgaagttata tcagtgcagt gtcaaaatgg taggtgcaca 5881 ctggacgggg agctccaggg gacaacacaa ctccaagtca gtggcatttg tgctttcaaa 5941 ggtgaagtga ccgcccactt gcatgacaat gatcacctat ataatgttac catcacaaac 6001 ttgaatgggt ccccttttga tccctccgag gatatccctg cccctctggg tgtgcctgac 6061 ttccagggaa gggtttttgg tatcatctcc caaagagaca gacacaatag tcctgggcat 6121 aatgaaccag caaacagggg acacgacgct gtggtcccca cttacacagc acagtacact 6181 ccaaaactgg gacaaattca aattggcaca tggcagactg acgaccttac agtcaaccaa 6241 ccagtcaaat tcaccccagt tggactcaat gacactgaac attttaacca atgggtggtc 6301 cccaggtatg ctggcgccct aaacctcaat acaaaccttg ccccttctgt tgctccagta 6361 tttccaggag agcgcctgct cttcttcaga tcatatattc ccctcaaggg cggttatgga 6421 aacccagcca ttgattgcct actaccacaa gagtgggtgc aacacttcta tcaggaagca 6481 gccccttcaa tgagtgaggt ggccctcgtc agatacatca acccggacac tggtcgggca 6541 ctgtttgagg ccaagctcca cagagctggt ttcatgacag tctcgagcaa caccagtgcc 6601 ccggtggttg tgcctgccaa cggatacttc agatttgatt cttgggtgaa ccaattctat 6661 tctctcgccc ccatgggaac tgggaatggg cgtagaaggg ttcaataatg gctggagctt 6721 ttgtagctgg tcttgcaggg gacgtgctca gcaatgggct tagttcattg atcaacgcag 6781 gtgccaatgc aataaatcag agggcagaat ttgattttaa tcagaaattg cagcaaaatt 6841 cttttaatca tgataaggag atgttgcagg ctcagattca ggcaactaag cagctgcagg 6901 cagacatgat ggctataaaa caaggggtct tgaccgctgg cggcttttcc cctgctgatg 6961 cagccagagg tgctgtgaac gcgcccatga cacaagcgct ggattggaat ggtacaaggt 7021 attgggcacc aaactccatg aggaccacat cttattctgg aaaattcaca tcaaccgccc 7081 cagtgaggca ggccgacttc cagcacaccc aaagccggcc ttcgagtggc tcctctgtgt 7141 cttcctttgc cactcagtct tcaaggccaa ctctgaccac aaccactggt ccctcacatg 7201 gcacagtctc atcaaattca actcgcagta caagcctctc ccaatcaacg gtctccagag 7261 ctacatctag gactggtgag tgggttagag atcaaaatag aaatttggaa ccctacatgc 7321 atggtgcctt acagacagcc tttgtcaccc caccttccag cagggcatct gacgggacag 7381 tctcaaccgt cccgaaaggt gttttggact cctggacacc tgcgtttaac acccgcaggc 7441 agccgctttt tgcacacctc cgtaagaggg gggagtcaca agcttagtga aaaggtgaaa 7501 atttatttag gatgaattga tt //