Typing tool
|
Complete norovirus genomes
MK753018 | GII.4 Sydney | ||
---|---|---|---|
GII.P16 |
ORF1: 1..5053 ORF2: 5034..6656 ORF3: 6656..7462LOCUS MK753018 7480 bp RNA linear VRL 11-APR-2019 DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/Clackamas0373 nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION MK753018 VERSION MK753018.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7480) AUTHORS Barclay,L., Cannon,J.L., Wikswo,M.E., Phillips,A., Browne,H., Montmayeur,A.M., Tatusov,R.L., Burke,R.M., Hall,A.J. and Vinje,J. TITLE Emergence and characterization of multiple viruses associated with a novel GII.P16 polymerase in the United States, 2015-2018 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7480) AUTHORS Barclay,L., Cannon,J.L., Tsaknaridis,L.J., Montmayeur,A.M., Tatusov,R.L., Chhabra,P. and Vinje,J. TITLE Direct Submission JOURNAL Submitted (04-APR-2019) 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. R10; SPAdes v. 3.6 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7480 /organism="Norovirus GII" /mol_type="genomic RNA" /strain="Clackamas0373" /isolate="Hu/US/2017/GII.P16-GII.4 Sydney/Clackamas0373" /isolation_source="stool" /host="Homo sapiens" /db_xref="taxon:122929" /country="USA" /collection_date="29-Jul-2017" /note="genotype: GII.P16-GII.4 Sydney" gene <1..5053 /gene="ORF1" CDS <1..5053 /gene="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="QBS47714.1" /translation="NNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPQKPPRPP TPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLSLR ENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWR VVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFF RPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCD WTFAGIVESLILLAELFGAFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIG LVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAI EDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINAL LARIAAARSLVHRAKEELSSRMRPVVVMISGKPGIGKTHLAREVARKVAATLTGDQRV GLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGK VFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKD AFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQ GPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKR CRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQEA VYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKSEDDEFIISSKDI KEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYE ELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFKPK GKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGITE AFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMP LAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYIAI GVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRS SNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQT IINVLEQTLDPPQKWSYAQACASLDKTTSSGHPHHARKNEFWNGETFTGKLADQASKA NLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDLSTMVRCARSFGGLMDE MKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLASALEIMV RFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAL SEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPL IISEDLNGLTFLRRTVTRDPAGWFGKLDQGSILRQMYWTRGPNHEDPNETMIPHSQRP IQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEG DRNLAPNFVNEDGVE" mat_peptide <1..949 /gene="ORF1" /product="p48" mat_peptide 950..2047 /gene="ORF1" /product="NTPase" mat_peptide 2048..2578 /gene="ORF1" /product="p22" mat_peptide 2579..2977 /gene="ORF1" /product="VPg" mat_peptide 2978..3520 /gene="ORF1" /product="Pro" mat_peptide 3521..5050 /gene="ORF1" /product="RdRp" gene 5034..6656 /gene="ORF2" CDS 5034..6656 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QBS47715.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGGVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGIPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 6656..7462 /gene="ORF3" CDS 6656..7462 /gene="ORF3" /note="minor structural protein; small basic protein" /codon_start=1 /product="VP2" /protein_id="QBS47716.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKTLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 caacaacgac aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt 61 aaagaaagcc ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc 121 cccaagacca ccaactcccg agttggttaa gaggataccc cctcctccac ctaatggcga 181 agaagaaggg gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga 241 gctcacaaca gtcccccaac cggacgtggc caacacagcg ttcagtgttc caccactgag 301 cttgagagaa aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga 361 tggagagata taccactacg gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa 421 accacctgca gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg 481 tgtggtgtac accccccaat acctcatctc ccctgaaact cttaggaggc tcaacggaga 541 ggcattccct tacaccgcct tcgacaacaa ctgctatgcc ttctgctgtt gggtgttaga 601 cctcaatgac tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc 661 ttaccaagag tggaacagaa aacccctgcc taccatggat gactccaaaa ttaagaaggt 721 agcaaatata ttcctatgtt cattgtccac attgttcacc agacccataa aagacctcat 781 aggaaaaatt aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc 841 cggaatagtg gagtctctga tattacttgc tgaactcttc ggagctttct ggacaccccc 901 agatgtgtct gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga 961 cctcgccgtt gagctcgtac ctgtggtaat gggagggatt ggtttggtgt tgggattcac 1021 caaagagaaa attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga 1081 tcttggtgcc tatggcttag agatactcaa attggtcatg aagtggttct tcccaaagaa 1141 agaggaggcc aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga 1201 ggcaatagaa aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata 1261 catgaaaaca ctggacatgg aggaggagaa agccagaagg ttgtccacaa agtctgcatc 1321 ccctgacata gttgggacaa tcaacgctct gctggctcga atagcagcgg ccaggtcatt 1381 agtccacagg gccaaggaag agttatctag caggatgaga ccagtagttg ttatgatatc 1441 tggcaaaccg ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcagc 1501 cactctcaca ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga 1561 tgcatacaaa ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca 1621 tgatgctctt cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag 1681 aattgaaaat aaaggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc 1741 caacccagcc ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct 1801 ggtgtacgct gaggcaccag aagtagaaaa ggcaaaacgg gactttcctg gtcagccaga 1861 tatgtggaag gacgccttca agccggactt ttcacacatc aagctacagc ttgcacctca 1921 gggcggcttt gacaagaatg gcaacacccc acatgggaaa ggagtgatga aaaccctcac 1981 taccggttct ctgattgccc gtgcatcagg cctactgcat gagaggatgg atgaatttga 2041 actccaaggt cccacaacca ccaccttcaa tttcgaccgg aacagaatca cagcattcag 2101 acaattggct gcagaaaaca agtatggatt ggtggatacc atgaaagttg gcaaccaact 2161 aaaaggagta aaaaccatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag 2221 gtgccggatc atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt 2281 tttggtggaa aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct 2341 gcaccatctc aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta 2401 ttccatcata caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa 2461 catacaagaa ctctggtcga agccacaatt agatcaaaat gaatcagaga ctaaggaaga 2521 gacccccaag tcagaagatg acgagttcat catatcttct aaggatatca aggaggaggg 2581 aaagaagggc aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg 2641 cttgagcgac gaggagtatg acgagtacaa gaggataaga gaagagagga atgggaagta 2701 ctctatagag gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa 2761 ggccacggaa gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg 2821 tcccaccagg aaacaaagga aggaagagag ggccacatta gggttagtga caggttcaga 2881 aatcagaaaa agaaaccctg atgacttcaa acctaaaggg aagctgtggg ccgacgacaa 2941 cagaagtgtt gattacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag 3001 gattgtgagc tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc 3061 aactcatgta atccccgctg gcataacaga agcatttgga gtccccatca aacaaattca 3121 gatccacaaa tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt 3181 gacaggaatg atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa 3241 acgccccacc ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa 3301 aattcaaggc cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa 3361 aggaatggat ttgggaacaa ctcctggcga ctgtggctgt ccttacatct ataaaagggg 3421 caatgactat atagccattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat 3481 ctgtgccaca cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac 3541 atactgtggg gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa 3601 attctggagg tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg 3661 tggccgtgat ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccagtt 3721 gaagccattc actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa 3781 acaaaccatt atcaatgtcc tcgaacaaac cctggaccct ccacaaaaat ggtcatacgc 3841 acaggcgtgt gcctcacttg acaaaaccac ctccagcggg catccccacc acgcccgaaa 3901 gaatgaattc tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc 3961 aaacctaatg tttgaggaag ggaaacatat gacaccagtg tatacagcag cactcaagga 4021 cgagctagtc aagactgaga aaatctatgg aaaggtcaag aagagactgc tctggggctc 4081 tgacttatcc accatggtcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa 4141 ggcacactgc atatcactcc cagtacgagt tggcatgaat atgaatgaag atggcccaat 4201 aatatttgag aaacattcca gatacaaata ccactatgat gcagactact ctcgttggga 4261 ttcaacacaa cagagggcag tattagcatc agccttggaa atcatggtca gattctctgc 4321 agaaccacaa ttggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt 4381 aggagacttt aaaatcacaa taaatgaggg gctcccatct ggtgtgccat gcacttccca 4441 atggaactcc atcgcacact ggctgctgac tctctgtgcc ttgtctgaag tcaccaaact 4501 gtcccctgac attatacaag caaattccat gttctcattt tacggtgatg acgagattgt 4561 cagcaccgac ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct 4621 gaaaccaacc cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg 4681 actcactttc ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga 4741 ccaaggctcg attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa 4801 tgagacaatg ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc 4861 ctctcttcac ggaccctctt tctacagtaa gatcagtaaa ttggtcataa ctgaactcaa 4921 agaaggtggg atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt 4981 ttctgacttg agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga 5041 tggcgtcgag tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca 5101 acaatgaggt tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg 5161 gccaacaaaa tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg 5221 agtttacagt atcccctaga aacgctccag gtgaaatact atggagcgcg cccctaggcc 5281 ctgacctaaa cccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt 5341 ttgaagtgca ggtaattctc gcggggaacg cgttcaccgc cgggaaggtc atatttgcag 5401 cagtcccacc aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc 5461 atatagtagt agatgttaga caattagaac ctgtgttgat tcccttaccc gatgtcagga 5521 ataatttcta tcattataat cagtcaaatg accccactat taagttgata gcaatgttgt 5581 atacaccact tagggctaat aatgctgggg atgatgtttt cacagtttcg tgccgagttc 5641 tcacgagacc atcccctgat tttgatttca tatttttagt gccacccaca gttgaatcaa 5701 gaaccaaacc attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc 5761 ccattccttt ggaaaagttg ttcacgggcc ccagcagtgc ctttgttgtt caaccacaaa 5821 acggcaggtg cacaactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca 5881 tttgcacctt cagggggggt gtcacccaca tcacaggtag tcacaactac acaatgaatt 5941 tggcttctca aaattggaat aactatgacc caacagaaga aatcccagcc cctctaggaa 6001 ttccagattt tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt 6061 caacacgcgg ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg 6121 gtagagttca gtttgaaact gacacaaaca atgattttga agctaatcaa aacacaaagt 6181 tcaccccagt cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt 6241 gggtgctccc aagttactca ggcagaaata ctcacaatgt acatctggcc cccgctgtag 6301 cccccacctt tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg 6361 ggtaccccaa catggatttg gactgtctgc tcccccagga atgggtgcag tacttctatc 6421 aagaggcagc cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag 6481 gtagggtttt gtttgagtgc aagcttcata aatcaggcta tgttacagtg gctcacactg 6541 gccaacatga tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc 6601 agttctacac gcttgccccc atgggaaatg gaacggggcg tagacgtgtg gtataatggc 6661 tggagctttc tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat 6721 caatgctggg gctggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca 6781 acaagcatcc ttccaattta gcagcaatct gcaacaggct tcctttcaac atgataaaga 6841 gatgctccaa gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa 6901 gcaggcaatg ctcctagagg gtgggttctc tgagacagac gcagcccgtg gggcaatcaa 6961 cgctcccatg acaaaaactt tggactggag cgggacaagg tactgggctc ccgatgctag 7021 gactacaaca tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg 7081 aagagctaac cttagggatg ctgtccctgc tcggggaccc tccaacaaat cttctaactc 7141 ttctactgcc acctctgtgt actcaaatca aactatttca acgagacttg gttctacagc 7201 tggttctgga accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga 7261 ggatcaaagt aggaatttgt cacctttcat gaggggggcc cacaacatat catttgtcac 7321 cccaccatct agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt 7381 ggactcctgg actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa 7441 gcgaggggag tcacgggtgt aatgtgaaaa gacaaaactg //