Typing tool
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Typing tool
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Complete norovirus genomes
| MK754442 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 4..5103
ORF2: 5084..6706
ORF3: 6706..7512
LOCUS MK754442 7555 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2015/GII.P16-GII.4
Sydney/BaltimoreCity0391 nonstructural polyprotein (ORF1), VP1
(ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION MK754442
VERSION MK754442.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7555)
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JOURNAL Unpublished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 7555)
AUTHORS Barclay,L., Cannon,J.L., Johnston,J., 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..7555
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="BaltimoreCity0391"
/isolate="Hu/US/2015/GII.P16-GII.4
Sydney/BaltimoreCity0391"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="16-Dec-2015"
/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="QBW96027.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGGEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNISVQTNNELAGALHH
LKHARIRYYVKCVQEVVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERVTLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
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="QBW96028.1"
/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="QBW96029.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac
61 aaggaaaaat cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc
121 ctcggggcta ggcccaaaca gcctgccccg agagacgaac cacaaaagcc cccaagacca
181 ccaactcccg agttggtcaa gaggataccc cctcctccac ctaatggcgg agaagaagaa
241 gaaccagtca ttaggtatga ggttaagagt gggatctctg gcctgcccga gctcacaaca
301 gtccctcaac cggacgtggc caacacagca ttcagtgttc caccactgag cttgagagaa
361 aacagggagg ccaaggaacc gctaacaggg gcaatattag agatgtggga tggagagata
421 taccactatg gcctttacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca
481 gccataagca tggcaagagt ggagctgacg ccgctgtcat tgtactggcg tgtggtgtac
541 actccccaat acctcatctc ccctgaaact ctcaggaggc tcaacggaga ggcgttccct
601 tacaccgcct ttgacaacaa ctgctatgcc ttttgctgct gggtgttaga cctcaatgac
661 tcatggctta gcaggaggat ggtgcaaaga acaacaggct tcttcagacc ttaccaagag
721 tggaacagaa aacccctgcc taccatggat gactccaaaa ttaagaaggt agcaaatata
781 ttcctatgtt cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt
841 aaaccattaa acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg
901 gagtctctga tattacttgc tgaactcttc ggagttttct ggacaccccc 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 attggtcatg aagtggttct tcccaaagaa agaggaggcc
1201 aatgagctag ccatggtgag ggccatagag gatgccgtac tagatcttga ggcaatagaa
1261 aataaccaca tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca
1321 ctggacatgg aggaggagaa agccagaagg ttgtccacaa agtctgcatc ccctgacata
1381 gttgggacaa tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg
1441 gccaaggaag agctgtctag caggataaga ccagtagttg ttatgatatc tggcaaacca
1501 ggaataggca aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca
1561 ggggatcaaa gagtcggact cataccaaga aacggtgtgg accattggga tgcatacaaa
1621 ggtgagagag tcgtgctgtg ggacgactat ggcatgagta accccattca tgatgctctt
1681 cgcatacaag aattggctga tacgtgtccc cttaccttaa attgtgacag aattgaaaat
1741 aagggaaaag tttttgacag cgaagtcata ataattacaa caaaccttgc caatccagcc
1801 ccacttgatt atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct
1861 gaggcaccag aagttgaaaa ggcaaaacgg gactttcctg gtcagccaga tatgtggaag
1921 gacgccttca agccggactt ttcacacatc aagctacagc ttgcacctca gggcggcttt
1981 gacaagaatg gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct
2041 ctgattgccc gtgcatcagg cctactgcac gagaggatgg atgaatttga actccaaggt
2101 cccacaatca ccaccttcaa tttcgaccga aacagaatca cagcattcag acaattggct
2161 gcagaaaaca agtatggatt ggtggatacc atgaaagttg gcaatcaact aaaaggagtg
2221 aaaactatgg aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccggatc
2281 atctacggtg gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa
2341 aaggtcaaga acatctctgt acagaccaac aacgagttgg ccggggccct gcaccatctc
2401 aaacacgccc gaatcaggta ctatgtcaaa tgtgtgcaag aagtagtcta ttccatcata
2461 caaattgccg gcgctgcgtt tgtcaccacg cgcattgcac gccgcatgaa catacaagaa
2521 ctctggtcga agccacaact agatcaaaat gaatcagaga ctaaggaaga ggcccccaag
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 ggtcacatta gggctagtaa caggttcaga aatcagaaaa
2941 agaaaccctg atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt
3001 gactacaatg agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc
3061 tttggttctg gctggggctt ctgggtatca ccaagcctgt tcataacatc aacccatgta
3121 atccccgcag gcataacaga agcatttggg gtccccatca aacaaattca gatccacaaa
3181 tcaggtgaat tttgccgatt cagattccca aaaccaatta gaccagatgt 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 ataaaagggg caatgactat
3481 atagtcattg gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca
3541 cagggaagtg agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg
3601 gcacccattc taggccctgg gggtgcacca aaattgagca ccaaaaccaa attttggagg
3661 tcgtcgaaca cgccccttcc accagggaca tatgagcctg cctacctcgg tggccgtgat
3721 ccgcgtgtta agggtgggcc ctccttgcag caggtaatga gagaccagtt gaagccattc
3781 actgaaccca ggggcaaacc tccaagacca agtgtattgg aagcagccaa acaaaccatt
3841 atcaatgtcc tcgaacaaac cctggaccct ccacaaaaat ggacatacgc acaggcgtgt
3901 gcctcacttg acaaaaccac ctccagcggg catccccatc acgtccgaaa gaatgaattc
3961 tggaatggtg agaccttcac tggtaaattg gcagaccaag catcaaaagc aaacctaatg
4021 tttgaggaag ggaaacacat gacaccagtg tatacagcag cactcaagga cgagctagtc
4081 aagactgaga aagtctatgg 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 agccttagaa atcatggtca gattctctgc agaaccacaa
4381 ctggcacaaa tagtcgctga ggatctgctg gcccctagtg tagtagatgt aggagacttt
4441 aaaatcacaa taaatgaagg gctcccatct ggtgtgccat gcacttctca atggaactcc
4501 atcgcacact ggctgctaac cctctgtgcc ttgtctgaag tcaccaaact gtcccctgac
4561 atcatacaag caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac
4621 ataaaattgg accctgaaca gttaaccgcc aaattgaagg agtacggcct gaaaccaacc
4681 cgcccagaca agaccgaggg acccctgatc atcagtgaag acttgaacgg actcactttc
4741 ctccgaagga cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagctca
4801 attttgaggc agatgtactg gactagagga ccaaatcatg aagaccccaa tgagacaatg
4861 ataccccatt ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac
4921 ggaccctctt tctacagtaa 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 cctggtggag agtttacagt
5281 atcccctaga aacgctccag gtgaaatact atggagcgcg 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 actccactat taagttgata gcaatgttgt atacaccact
5641 tagggctaat aatgctgggg atgatgtttt tacagtttcg tgccgagttc tcacgagacc
5701 atcccccgat tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc
5761 attctctgtc ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt
5821 ggaaaagttg ttcacgggcc ccagcagtgc ctttgttgtt caaccacaaa acggcaggtg
5881 cacaactgat ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgcacctt
5941 cagaggggat gtcacccaca tcacaggtag tcgcaactac acaatgaatt tggcttctca
6001 aaattggaac aactatgacc caacagaaga aatcccagcc cctctaggaa ctccagattt
6061 tgtggggaag attcaaggca tgctcaccca aaccacaaga acagatggtt caacacgcgg
6121 tcacaaagct acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagggttca
6181 atttgaaact gacacagacc atgattttga agctaatcaa aacacaaagt tcaccccagt
6241 cggtgtcatc caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc
6301 aagttactca ggcagaaata ctcacaatgt acatctggcc cccgctgtag cccccacctt
6361 tccgggtgaa caacttctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa
6421 catggatttg gactgtctgc tcccccagga atgggtgcag tacttctacc aagaggcagc
6481 cccagcacaa tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt
6541 gtttgagtgc aagcttcaca aatcaggcta tgttacagtg gctcacactg gccaacatga
6601 tttggttatc ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac
6661 gcttgccccc atgggaaatg gaacggggcg tagacgtgta gtataatggc tggagctttc
6721 ttcgctggat tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg
6781 gccggggcca tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc
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 ccatcgggga cactgccagg aagagctaat
7141 cttagggatg ctgtccctgc tcggggaccc tctaacaaat cttctaactc ttctactgcc
7201 acctctgtgt actcaaatca aactatttca acgagacttg gttctacagc tggttctgga
7261 accagtgtct cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaagt
7321 aggaatttgt cacctttcat gaggggggct cacaacatat catttgtcac cccaccatct
7381 agcagatcct ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg
7441 actggcgctt tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag
7501 tcacgggtgt aatgtgaaaa gacaaaactg attatctttc tttttcttca gtgtc
//