Typing tool
|
Complete norovirus genomes
MT026582 | GII.4 Sydney | ||
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GII.P4 New Orleans |
ORF1: 5..5104 ORF2: 5085..6707 ORF3: 6707..7510LOCUS MT026582 7557 bp RNA linear VRL 12-FEB-2020 DEFINITION Norovirus GII isolate Hu/US/2019/GII.4[P4]/Aiken0160, complete genome. ACCESSION MT026582 VERSION MT026582.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7557) AUTHORS Montmayeur,A.M., Flores,H., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (06-FEB-2020) Division of Viral Diseases, Centers for Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA 30329, USA COMMENT ##Assembly-Data-START## Assembly Method :: Geneious v. 11.1.2; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7557 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Aiken0160" /isolate="Hu/US/2019/GII.4[P4]/Aiken0160" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="09-Apr-2019" /note="genotype: GII.4[P4]" gene 5..5104 /gene="ORF1" CDS 5..5104 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="QHW04681.1" /translation="MKMASNDASAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARP KQPPPREKPQRPPRPPTPELVKNIPPPPPNGEDEIVVTYSVKDGVSGLPDLSTVRQPE ESNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS LAKIELAPLSLYWRPVYTPQYLISPDTLKKLSGETFPYTAFDNNCYAFCCWVLDLNDS WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKIKKVANIFLCALSSLFTRPIKDIIGK IRPLNILNILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLST KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPDVEK AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTM PELKQALKNVSIKKCQIVYNGCTYMLESDGKGNVKVDRIQSAAVQTNNELAGALHHLR CARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVENTEETTSKDGC PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERVSLGLV TGSEIRKRNPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP SLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG PGSAPTLSTKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMREQLKPFTEP RGKPPRPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW NGESFTGKLADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDL ATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFERHSRYTYHYDADYSRWD STQQRAVLAAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT SQWNSIAHWLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLR EYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP NHGDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQE PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide 5..994 /gene="ORF1" /product="p48" mat_peptide 995..2092 /gene="ORF1" /product="NTPase" mat_peptide 2093..2629 /gene="ORF1" /product="p22" mat_peptide 2630..3028 /gene="ORF1" /product="VPg" mat_peptide 3029..3571 /gene="ORF1" /product="Pro" mat_peptide 3572..5101 /gene="ORF1" /product="RdRp" gene 5085..6707 /gene="ORF2" CDS 5085..6707 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QHW04682.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHIAGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML TQTTRADGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6707..7510 /gene="ORF3" CDS 6707..7510 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QHW04683.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGVLPGRANLRDAVPARGSSKSSN SSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNIS FVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA" ORIGIN 1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgct gttgctaaca gcaacaacga 61 caccgcaaaa tcttcaagtg acggagtgct ttctagcatg gctgtcactt ttaaacgagc 121 cctcggggcg cggcctaaac agcccccccc gagggaaaaa ccacaaagac ccccacgacc 181 acccacacca gaactggtta aaaacattcc ccccccccca cccaacggag aggatgaaat 241 agtggttact tatagtgtca aagatggtgt ttccggcttg cctgaccttt ccaccgtcag 301 acagccggaa gaatccaaca cggccttcag tgtccctcca ctcaatcaga gggagaacag 361 agatgctaag gaaccactca ctggaacaat tctggaaatg tgggacgggg aaatctacca 421 ttatggcctg tatgtggagc gaggtcttgt attaggcgta cacaaaccgc cagctgccat 481 cagcctcgct aagattgagt tggcgccact ctccttatac tggaggcctg tgtacactcc 541 tcagtacctc atctctccgg acactctcaa gaaattgtcc ggggagacgt tcccctacac 601 agcatttgac aacaactgct atgccttttg ttgctgggtt ctggacctaa atgactcgtg 661 gctgagcagg agaatgatcc agaggacaac tggtttcttc aggccctacc aagactggaa 721 taggaaaccc cttcccacta tggatgactc caaaataaag aaggtggcca atatatttct 781 gtgtgccctg tcctcgctat tcaccaggcc cataaaagat ataataggga aaataaggcc 841 tcttaacatc ctcaacatct tggcctcatg tgattggacc tttgcgggca tagtagagtc 901 cctgatactc ttagcagagc tctttggagt tttctggaca cccccagatg tgtctgcaat 961 gattgccccc ttacttggtg actacgagct acaaggacct gaggaccttg cagtggagct 1021 cgtccccgtg gtgatggggg gaattggttt ggtgctagga ttcaccaaag agaaaattgg 1081 gaaaatgttg tcatcagctg cgtccacctt aagagcttgc aaagaccttg gtgcatatgg 1141 gctagagatc ctaaagctag tcatgaagtg gttcttcccg aagaaggagg aggcaaatga 1201 gctggctatg gtgaggtcca tcgaggatgc agtcctggat ctcgaagcaa ttgaaaacaa 1261 tcatatgacc accttgctta aagataaaga cagtctggca acctacatga gaacactcga 1321 ccttgaagag gagaaagcca ggaaactctc aaccaagtct gcctcacctg acatcgtggg 1381 cacaatcaac gccctcctgg cgagaatcgc tgccgcacgt tctctggtgc atcgagcgaa 1441 ggaggagctt tccagcagac caagacctgt ggtgttgatg atatcaggca ggccaggaat 1501 agggaagacc cacctcgcta gggaagtggc taagagaatc gcagcctccc ttacaggaga 1561 ccagcgtgtt ggtctcatcc cacgcaatgg cgtcgatcac tgggatgcgt ataaggggga 1621 gagggtcgtc ctatgggacg attatggaat gagcaaccct attcacgatg ccctcaggct 1681 gcaagaactc gctgacactt gcccccttac cctgaactgt gacaggattg aaaataaagg 1741 aaaagtcttt gacagcgatg tcatcattat caccactaat ctggccaacc cagccccact 1801 ggactatgtc aactttgaag catgctcgag gcgcattgac ttcctcgtat atgcagaagc 1861 ccctgatgtc gaaaaggcga agcgtgactt cccaggccag cctgacatgt ggaagaacgc 1921 tttcagttcc gatttctcac acataaaact agcactggcc ccacagggtg gtttcgataa 1981 gaacgggaac accccacacg gaaagggcgt catgaagact ctcaccactg gctcccttat 2041 tgcccgggca tcagggctac tccatgagag gttagatgaa tttgaactgc agggcccagc 2101 tctcaccacc ttcaatttcg atcgcaataa agtgcttgcc tttagacagc ttgctgctga 2161 aaacaaatat ggactgatgg acacaatgag ggttgggaaa cagctcaagg atgtcaaaac 2221 catgccagaa ctcaaacaag cactcaagaa tgtctcaatc aagaagtgtc aaatagtgta 2281 taatggttgc acctacatgc ttgagtctga tggcaagggc aatgtgaaag ttgacaggat 2341 ccagagcgcc gccgtgcaga caaacaatga gctggctggt gccctgcacc acttgaggtg 2401 cgccagaatc agatactatg tcaagtgtgt ccaggaagcc ctgtattcca tcattcaaat 2461 tgctggggct gcatttgtca ccacgcgcat tgccaagcgc atgaacatac aggatctatg 2521 gtccaagcca caagtggaaa acacagagga aactaccagc aaggacgggt gcccaaaacc 2581 caaggatgat gaggagtttg tcatttcatc cgacgacatc aaaactgagg gcaagaaagg 2641 gaagaacaag actggccgtg gcaagaagca cacagcattt tcaagcaaag gcctcagtga 2701 tgaggagtac gatgaataca agaggatcag agaagaaagg aatggcaagt actctataga 2761 agagtacctc caggacaggg acaaatatta tgaggaggtg gccattgcca gagcgactga 2821 ggaagacttc tgtgaagagg aggaagccaa gatccgacaa aggatcttta ggccaacaag 2881 gaaacaacgc aaagaggaaa gagtctctct cggtttagtc acgggctctg aaattaggaa 2941 aagaaaccca gatgacttca aacccaaggg gaaattgtgg gctgacgatg acaggagtgt 3001 ggactacaat gagaaactca gttttgaggc cccgccaagc atttggtcga gaatagtcaa 3061 ctttggttca ggctggggat tctgggtctc ccccagcttg ttcataacat caacccatgt 3121 tataccccag ggcgcaaagg agttctttgg agtccccatc aaacaaatac aggtacacaa 3181 gtcaggcgag ttctgccgct tgagattccc taaaccaatc aggactgatg taacgggcat 3241 gatcttagaa gaaggcgcac ctgagggcac cgtggttaca ctactcatca aaagatccac 3301 cggggaactt atgcccctag cagctaggat ggggacccat gcgaccatga agatccaagg 3361 gcgcactgtt gggggccaga tgggcatgct tctgacagga tccaacgcca agagtatgga 3421 cctgggtact acaccaggtg attgtggctg cccctacatc tacaagagag gtaatgacta 3481 tgtggtcatt ggagtccaca cggctgccgc acgtgggggg aacactgtca tatgtgccac 3541 ccaggggagt gaaggagagg ctacacttga gggtggtgac aacaagggga cttactgtgg 3601 tgcaccaatc ctaggcccag ggagtgcccc aacacttagc accaagacca aattctggag 3661 atcgtccaca gcatcactcc cacctggcac ctatgaacca gcctatcttg gtggcaagga 3721 ccctagagtc aagggtggcc cttcactaca gcaagtcatg agggaacagt tgaagccatt 3781 cacagagccc agaggtaagc caccaagacc aagtgtgtta gaagctgcca agaaaaccat 3841 catcaatgtt cttgagcaaa caattgatcc acctgagaaa tggtcgttcg cacaagcttg 3901 cgcgtctctt gacaaaacca cttccagtgg tcatccgcat cacatgcgga aaaacgactg 3961 ctggaacggg gagtccttca caggcaagct ggcagaccag gcttctaagg ccaacctgat 4021 gtttgaagaa ggaaagaaca tgaccccagt ctacacagct gcgcttaagg atgagctagt 4081 taaaactgac aaaatttatg gtaagattaa gaagaggctt ctttggggct cggacttggc 4141 gaccatgatc cggtgtgctc gggcattcgg aggcctaatg gatgaactca aagcacactg 4201 tgtcacactt cccgttagag ttggcatgaa tatgaatgag gatggcccca tcatcttcga 4261 gaggcattcc aggtacacgt accactatga tgctgattac tctcgatggg attcaacaca 4321 acagagagcc gtgttggcgg cagctctaga aatcatggta aaattctccc cagaaccaca 4381 tttggcccag gtagtcgctg aagaccttct ttctcctagc gtggtggacg tgggcgactt 4441 cacaatatca atcaacgagg gccttccctc tggggtgccc tgcacctccc aatggaactc 4501 catcgcccac tggcttctca ctctctgcgc gctctccgaa gtcacaaacc tgtctcctga 4561 taccatacag gctaattccc tcttttcttt ttatggtgat gatgaaattg ttagcacaga 4621 cataaaattg gacccagaga aattgacagc aaaactcaga gaatacgggt taaaaccaac 4681 ccgccctgac aaaactgaag gaccccttgt catctctgaa gacctgaatg gcctaacttt 4741 cctgcggaga actgtgaccc gcgacccagc tggttggttt ggaaaactgg agcagagttc 4801 aatactcagg caaatgtact ggactagggg tcccaaccat ggagacccat ctgaaacgat 4861 gattccacat tcccaaagac ccatacaatt gatgtcccta ctgggggagg ccgctctcca 4921 cggcccagca ttttacagta aaattagcaa attggtcatt gcagagctaa aagaaggtgg 4981 tatggatttt tacgtgccca gacaagagcc aatgttcaga tggatgagat tctcagatct 5041 gagcacgtgg gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga 5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg 5161 ttatggctct ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa 5221 atgtaattga cccctggatt agaaacaatt ttgtacaagc ccctggtgga gagtttacag 5281 tgtcccccag aaacgctcca ggtgaaatac tatggagcgc acccttaggc cctgatttaa 5341 atccctacct atcccacttg gccagaatgt ataatggtta tgcaggtggt tttgaagtgc 5401 aggtgattct cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac 5461 caaattttcc aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag 5521 tggatgttag gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct 5581 accattacaa tcaatcaaat gatcccacca ttaagttgat agcaatgtta tatacaccac 5641 ttagggctaa taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgaggc 5701 catcccccga ttttgatttc atatttctag tgccacccac agttgagtct agaaccaaac 5761 cattttctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt 5821 tggaaaagtt gttcacgggt cccagcagtg cctttgttgt tcaaccacaa aacggtaggt 5881 gcacgactga tggcgtgctc ctaggcacca cccaattgtc tcctgtcaac atctgcacct 5941 tcagagggga tgtcacccac attgcaggta gtcgtaacta tacaatgaat ttggcttctc 6001 aaaattggaa caattatgac ccaacagaag aaatcccagc ccctctagga gctccagatt 6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag ggcagatggc tcaacacgcg 6121 gccacaaggc tacggtgtac actgggagcg ccgacttcgc tccaaaactg ggcagagttc 6181 aatttgaaac tgacacagac catgattttg aagctaacca aaacacaaag ttcaccccag 6241 tcggtgtcat ccaagatggt agcaccaccc accgaaatga accccaacag tgggtgctcc 6301 caagttactc aggcagaaat actcataatg ttcatctggc ccccgctgtg gcccccactt 6361 ttccgggtga acaacttctc ttctttagat ccaccatgcc cggatgtagc gggtatccca 6421 acatggattt ggactgtttg ctcccccagg aatgggtgca gtacttctac caagaggcag 6481 ccccagcaca atctgatgtg gccctgctaa gatttgtgaa tccagacaca ggtagggttt 6541 tgtttgaatg taaactccat aaatcaggct atgtcacagt ggctcacact ggccaacatg 6601 atttggtcat cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttctaca 6661 cgcttgcccc catgggaaat ggaacggggc gtagacgcgt agtataatgg ctggagcttt 6721 ctttgctggg ttagcatctg atgtcctcgg ctctggactt ggttccctta tcaatgctgg 6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc 6841 cttccaattt agcagcaatt tacaacaggc ttcctttcaa catgacaaag aaatgctcca 6901 agcacaaatt gaggccacca aaaagctaca acaggaaatg atgaaagtta agcaggcaat 6961 gctcctagag ggtgggttct ctgaaacaga tgcagcccgc ggggcaatca acgcccccat 7021 gacaaaagct ttggactgga gcgggacaag gtactgggct cctgatgcta ggactacaac 7081 ttataatgca ggccgctttt ccacccctca accatcgggg gtactaccag gaagagctaa 7141 tcttagggat gctgtccctg ctcggggttc ctctaaatct tccaattctt ctactgctac 7201 ttctgtgtac tcaaatcaaa ccacttcaac gagacttggt tctacagctg gttctggtac 7261 cagtgtctcg agtctcccgt caactgcaag gaccaggagc tgggttgagg atcaaaatag 7321 gaatttgtct cctttcatga ggggggccca caacatatcg tttgtcaccc caccatctag 7381 cagatcctct agccaaggca cagtctcaac cgtgcctaaa gaggttttgg actcctggac 7441 tggcgctttc aacacgcgca ggcagcctct cttcgctcac attcgtaaac gaggggagtc 7501 acgggcgtaa tgtgaaaaga caaaattgat tatttttctt tttctttagt gtctttt //