Typing tool
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Typing tool
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Complete norovirus genomes
| MK764015 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS MK764015 7523 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2017/GII.P16-GII.4 Sydney/Ingham0228
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION MK764015
VERSION MK764015.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7523)
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JOURNAL Unpublished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 7523)
AUTHORS Barclay,L., Cannon,J.L., Mosher,L., Montmayeur,A.M., Tatusov,R.L.,
Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (05-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..7523
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Ingham0228"
/isolate="Hu/US/2017/GII.P16-GII.4 Sydney/Ingham0228"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="27-Mar-2017"
/note="genotype: GII.P16-GII.4 Sydney"
gene 4..5103
/gene="ORF1"
CDS 4..5103
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX92724.1"
/translation="MKKASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEGEEEPVIRYEVKGGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIVGAAFVTTRIARRMNIQELWSKPQLDQSGSETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 4..999
/gene="ORF1"
/product="p48"
mat_peptide 1000..2097
/gene="ORF1"
/product="NTPase"
mat_peptide 2098..2628
/gene="ORF1"
/product="p22"
mat_peptide 2629..3027
/gene="ORF1"
/product="VPg"
mat_peptide 3028..3570
/gene="ORF1"
/product="Pro"
mat_peptide 3571..5100
/gene="ORF1"
/product="RdRp"
gene 5084..6706
/gene="ORF2"
CDS 5084..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX92725.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6706..7512
/gene="ORF3"
CDS 6706..7512
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX92726.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQT
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSIATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga aggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc cccaagacca
181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcga aggagaagaa
241 gaaccagtca ttaggtatga ggttaagggt gggatctctg gcctgcccga gctcacaaca
301 gtcccccaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa
361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga tggagagata
421 taccactatg gcctgtacgt ggagaaaggt ttagtgttgg gtgtgcacaa accacctgca
481 gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg tgtggtgtac
541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacggaga ggcgttccct
601 tacaccgcct tcgacaacaa ctgctatgcc ttttgctgct gggtgttaga cctcaatgac
661 tcatggctta gcaggaggat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag
721 tggaacagaa agcccctgcc taccatggat gactccaaaa ttaagaaggt agcaaatata
781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt
841 aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg
901 gagtctctga tattacttgc tgaactcttc ggagttttct ggacgccccc agatgtgtct
961 gctatgatcg ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt
1021 gaactcgtac ctgtggtaat gggagggatt ggtttggtgt tgggattcac caaagagaaa
1081 attggcaaaa tgttgtcctc agcagcatca acactcaggg cttgcaaaga tcttggtgcc
1141 tatggcttag agatactcaa gttggtcatg aagtggttct tcccaaagaa agaggaggcc
1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa
1261 aataaccaca tgacaaccct gttgaaagac aaagacagcc tagcaacata catgaaaaca
1321 ctggacatgg aggaggagaa agccagaagg ttgtccacaa aatctgcatc ccctgacata
1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg
1441 gccaaggaag agctatctag caggataaga ccagtagttg ttatgatatc tggcaaacca
1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca
1561 ggggaccaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa
1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt
1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat
1741 aagggaaaag tttttgacag tgaagtcata ataattacaa caaaccttgc caatccagcc
1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct
1861 gaggcaccag aagtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag
1921 gacgccttca agccggactt ttcacacatc aagctacagc ttgcacctca gggcggcttt
1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct
2041 ctgattgccc gtgcatcagg cctactgcat gagaggatgg acgaatttga actccaaggt
2101 cccacaatca ccactttcaa tttcgaccgg aacagaatca cagcattcag acaattggct
2161 gcagaaaaca agtatggatt ggtggatact atgaaagttg gcaatcaact aaaaggagtg
2221 aaaaccatgg aagaactcaa acaagcaatc agaaatgtga ccatcaagag gtgccggatc
2281 atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa
2341 aaggtcaaga acacctctgt acagaccaac aacgagttgg ccggggccct gcaccatctc
2401 aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata
2461 caaattgtcg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaatt agatcaaagt ggatcagaga ctaaggagga ggcccccaaa
2581 tcagaagatg acgagttcat catatcttct aaggacatca aggaggaagg aaagaagggc
2641 aaaaacaaaa ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat
2701 gaggagtatg acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag
2761 gagtatcttc aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa
2821 gaagacttct gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcccaccagg
2881 aaacaaagaa aggaagagag ggccacatta ggactggtaa caggttcaga aatcagaaaa
2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt
3001 gactataatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc
3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aactcatgta
3121 atccccgcag gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa
3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagacgt gacaggaatg
3241 atcttggaag aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa acgccccacc
3301 ggagagctca tgcctcttgc agccagaatg ggaacacacg caaccatgaa aattcaaggc
3361 cgcatggttg gcggacagat gggtatgttg ctcactggat caaatgctaa aggaatggat
3421 ttgggaacaa ctcctggtga ctgtggctgt ccttacatct acaaaagggg caatgactat
3481 atagtcattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg
3601 gcacccattc taggccctgg gggtgcacca aagttgagca ccaaaaccaa attttggagg
3661 tcatcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat
3721 ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccagtt gaagccattc
3781 actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa acaaaccatt
3841 atcaatgtcc tcgaacaaac cctggatcct ccacaaaaat ggacatacgc acaggcgtgt
3901 gcctcacttg acaaaaccac ttccagcggg catccccatc acgtccgaaa gaatgaattc
3961 tggaatggtg agaccttcac tggcaaattg gcagaccaag catcaaaagc aaacctaatg
4021 tttgaggaag ggaaacacat gacaccagtg tacacagcag cactcaagga cgagctagtc
4081 aagactgaga aaatctatgg aaagatcaag aagagactgc tctggggctc tgacttgtcc
4141 accatgatcc ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc
4201 atatcactcc cagtacgagt tggcatgaat atgaatgaag atggcccaat aatatttgag
4261 aaacattcca gatacaaata ccactatgat gcagactact ctcgttggga ttcaacacaa
4321 cagagggcag tactagcagc agccttggaa atcatggtca gattctctgc agaaccacaa
4381 ttggcacaaa tagtcgctga ggatctgctg gcccctagcg tagtggatgt gggagacttt
4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaactcc
4501 atcgcacact ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac
4561 attatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattgg accctgagca gttaaccgct aagttgaagg agtacggcct gaaaccaacc
4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag atttgaacgg gctcactttc
4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagttca
4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagatcccaa tgagacaatg
4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac
4921 ggaccctctt tctacagtag aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg
4981 atggactttt acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg
5041 agcacgtggg agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag
5101 tgacgccaac ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt
5161 tatggctttg gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa
5221 tgtaattgac ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt
5281 atcccctaga aacgctccag gtgaaatact atggagcgca cccctaggcc ctgacctaaa
5341 tccctaccta tcccatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca
5401 ggtaattctc gcggggaacg cgttcaccgc cgggaagatc atatttgcag cagtcccacc
5461 aaattttcca actgaaggct taagtcctag ccaggtcact atgttccccc atataatagt
5521 agatgttaga caattagaac ctgtgctgat tcccttaccc gatgttagga ataatttcta
5581 tcattacaat cagtcaaatg attccactat taagttgata gcaatgttgt acacaccact
5641 tagggctaat aatgctgggg atgatgtttt cacagtttcg tgtcgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttttagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccatcccttt
5821 ggaaaagttg ttcacaggcc ccagcagtgc ctttgttgtt cagccacaaa acggcaggtg
5881 cacaactgat ggcgtgctcc taggcaccac ccaactttct cctgtcaaca tctgcacctt
5941 cagaggggat gtcacccaca tcacaggtag tcgtaactac acaatgaatt tggcttctca
6001 aaattggaac aactatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt
6061 tgtggggaag attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg
6121 ccacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca
6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt
6241 cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc
6301 aagttactca ggcagaaata ctcacaatgt acatctggcc cccgctgtag cccccacctt
6361 tccgggtgag caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaagcagc
6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgc aagcttcaca aatcaggcta tgttacagtg gctcacactg gccaacatga
6601 tttggttatc ccccccaatg gctactttag gtttgattcc tgggtcaacc agttctatac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgta gtataatggc tggagctttc
6721 tttgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gctggggcca tcaaccaaaa agttgagttt gagaataata gaaaattgca acaaacatcc
6841 ttccaattta gcagcaatct gcaacaggct tcctttcaac atgataaaga gatgctccaa
6901 gcacaaattg aggccaccaa aaagctacaa caggaaatga tgaaagttaa gcaggcaatg
6961 ctcctagagg gtgggttctc tgagacagat gcagcccgcg gggcaattaa cgcccccatg
7021 acaaaagctt tggactggag cgggacaagg tactgggctc ccgatgctag gactacaaca
7081 tacaatgcag gccgcttttc cacccctcaa ccatcggggg cactgccagg aagagctaat
7141 cttagggatg ctgtccctgc tcggggaccc tccaacaaat cttctaactc ttctattgcc
7201 acctctgtgt attcaaatca aactatttca acgagacttg gttctacagc tggttctgga
7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat
7321 aggaatttgt cacctttcat gaggggggct cacaacatat catttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggtgt aatgtgaaaa gac
//