Typing tool
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Typing tool
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Complete norovirus genomes
| MK762562 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..4932
ORF2: 4913..6535
ORF3: 6535..7341
LOCUS MK762562 7363 bp RNA linear VRL 13-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/CS0193
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION MK762562
VERSION MK762562.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7363)
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JOURNAL Unpublished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 7363)
AUTHORS Barclay,L., Cannon,J.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..7363
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="CS0193"
/isolate="Hu/US/2016/GII.P16-GII.4 Sydney/CS0193"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="03-Mar-2016"
/note="genotype: GII.P16-GII.4 Sydney"
gene <1..4932
/gene="ORF1"
CDS <1..4932
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBX91013.1"
/translation="PRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTV
PQPDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPP
AAISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLD
LNDSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKD
LIGKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQ
GPEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMK
WFFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKAR
RLSTKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHL
AREVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQEL
ADTCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAP
EVEKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSL
IARASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKG
VKTMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGAL
HHLKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETK
EEAPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWV
SPSLFITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAP
EGTVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTP
GDCGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPI
LGPGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNE
FWNGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGS
DLSTMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSR
WDSTQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTKLSPDIIQANSLFSFYGDDEIVSTDIKLDPEQLTAK
LKEYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQMYWTR
GPNHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPR
QEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide <1..828
/gene="ORF1"
/product="p48"
mat_peptide 829..1926
/gene="ORF1"
/product="NTPase"
mat_peptide 1927..2457
/gene="ORF1"
/product="p22"
mat_peptide 2458..2856
/gene="ORF1"
/product="VPg"
mat_peptide 2857..3399
/gene="ORF1"
/product="Pro"
mat_peptide 3400..4929
/gene="ORF1"
/product="RdRp"
gene 4913..6535
/gene="ORF2"
CDS 4913..6535
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBX91014.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFSPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6535..7341
/gene="ORF3"
CDS 6535..7341
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBX91015.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGPSNKSS
NSSTVTSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccaagaccac caactcccga gttggtcaag aggatacccc ctcctccacc taatggcgaa
61 gaagaagaag aaccagtcat taggtatgag gttaagagtg ggatctctgg cctgcccgag
121 ctcacaacag tcccccaacc ggacgtggcc aacacagcat tcagtgttcc accactgagc
181 ttgagagaaa acagggaggc caaggaaccg ttaacagggg caatattaga gatgtgggat
241 ggagagatat accactatgg cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa
301 ccacctgcag ccataagcat ggcaagagtg gagctgacgc cgctgtcatt gtactggcgt
361 gtggtgtaca ctccccaata cctcatctcc cctgaaactc tcaggaggct caacggagag
421 gcgttccctt acaccgcctt tgacaacaac tgctatgcct tttgctgctg ggtgttagac
481 ctcaatgact catggcttag caggaggatg gtgcaaagaa caacgggctt cttcagacct
541 taccaagagt ggaacagaaa acccctgcct accatggatg actccaaaat taagaaggta
601 gcaaatatat tcctatgttc attgtccaca ttattcacca gacccataaa agacctcata
661 ggaaaaatta aaccattaaa catattgaac atcctggcaa cgtgtgactg gacgtttgcc
721 ggaatagtgg agtccctgat attacttgct gaactcttcg gagttttctg gacaccccca
781 gatgtgtctg ctatgatcgc tcccttactc ggggactacg agttgcaagg gccagaagac
841 ctcgccgttg aactcgtacc tgtggtaatg ggagggattg gtttggtgtt gggattcacc
901 aaagagaaaa ttggcaaaat gttgtcctca gcagcatcaa cactcagggc ttgcaaagat
961 cttggtgcct atggcttaga gatactcaaa ctggtcatga agtggttctt cccaaagaaa
1021 gaggaggcca atgagctagc catggtgagg gccatagagg atgccgtact agatcttgag
1081 gcaatagaaa ataaccacat gacaaccctg ttgaaagaca aagacagctt agcaacatac
1141 atgaaaacac tggacatgga ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc
1201 cctgacatag ttgggacaat caacgccctg ctggctcgaa tagcagcggc caggtcatta
1261 gtccacaggg ccaaggaaga gctatctagc aggataagac cagtagttgt tatgatatct
1321 ggcaaaccag gaataggcaa aactcatctg gccagggagg tggcaagaaa ggtggcatcc
1381 actctcacag gggatcaaag agtcggactc ataccaagaa acggtgtgga ccattgggat
1441 gcatacaaag gtgagagagt cgtgctgtgg gacgactatg gcatgagtaa ccccattcat
1501 gatgctcttc gcatacagga attggctgat acgtgtcccc ttaccttaaa ttgtgacaga
1561 attgagaata agggaaaagt ttttgacagt gaagtcataa taattacaac aaaccttgcc
1621 aatccagccc cacttgatta tgttaacttt gaggcctgtt ccaggagaat tgatttcctg
1681 gtgtacgctg aggcaccaga agtagaaaag gcaaaacggg actttcctgg tcagccagat
1741 atgtggaagg acgccttcaa gccggacttt tcacacatca agctacagct tgcacctcag
1801 ggcggttttg acaagaatgg caacacccca catgggaaag gagtgatgaa gaccctcact
1861 accggttctc tgattgcccg tgcatcaggc ctactgcacg agaggatgga tgaatttgaa
1921 ctccaaggtc ccacaatcac caccttcaat ttcgaccgga acagaatcac agcattcaga
1981 caattggctg cagaaaacaa gtatggattg gtggatacca tgaaagttgg caatcaacta
2041 aaaggagtaa aaaccatgga agaactcaaa caagcaatca ggaatgtgac catcaagagg
2101 tgccagatca tctacggtgg ctccacgtat gaccttgaat ctgatggcaa gggcaaagtt
2161 ttggtggaaa aggtcaagaa cacctctgta cagaccaaca acgagttggc cggggccctg
2221 caccatctca aacacgcccg aatcaggtac tatgtcaaat gtgtgcaaga agcagtctat
2281 tccatcatac aaattgccgg cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac
2341 atacaagaac tctggtcgaa gccacaatta gatcaaaatg aatcagagac taaggaagag
2401 gcccccaagt cagaagatga cgagttcatc atatcttcta aggacatcaa ggaggaagga
2461 aagaagggca aaaacaaaac tggccgtggc aagaaacaca ctgcattctc cagcaagggc
2521 ttgagcgatg aggagtatga cgagtacaag aggataagag aagagagaaa tgggaagtac
2581 tctatagagg agtatcttca agacagagac aggtactatg aggagctcgc cattgccaag
2641 gccacggaag aagacttctg tgaagaggag gagatcaaaa tccgtcagag aattttccgt
2701 cccaccagga aacaaagaaa ggaagagagg gccacattag ggctagtaac aggttcagaa
2761 atcagaaaaa gaaaccctga tgacttcaaa cccaaaggga agctgtgggc cgatgacaac
2821 agaagtgttg actacaatga gaaactagac tttgaggccc ccccaagcat atggtctagg
2881 attgtgagct ttggttctgg ctggggcttc tgggtatcac caagcctgtt cataacatca
2941 actcatgtaa tccccgcagg cataacagaa gcatttggag tccccatcaa acaaattcag
3001 gtccacaaat caggtgaatt ttgccgattc agattcccaa aaccaattag accagatgtg
3061 acaggaatga tcttggaaga aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa
3121 cgccccaccg gagagctcat gcctcttgca gccagaatgg gaacacacgc aaccatgaaa
3181 attcaaggcc gcatggttgg cggacaaatg ggtatgttgc tcactggatc aaatgctaaa
3241 ggaatggatt tgggaacaac tcctggtgac tgtggctgtc cttacatcta taaaaggggc
3301 aatgactata tagtcattgg ggtgcacact gcagcagccc gtggcggaaa caccgtcatc
3361 tgtgccacac agggaagtga gggtgaggca actcttgagg gtggagatga caaaggaaca
3421 tactgtgggg cacccattct aggccctggg ggtgcaccaa aattgagcac caaaaccaaa
3481 ttttggaggt catcgaacac gcctcttcca ccagggacat atgagcctgc ctacctcggt
3541 ggccgtgatc cgcgtgttaa gggtgggccc tccttgcagc aggtaatgag agaccagttg
3601 aagccattca ctgaacccag gggcaaacct ccaagaccaa gtgtattgga agcagccaaa
3661 caaaccatta tcaatgtcct cgaacaaacc ctggatcctc cacaaaaatg gacatacgca
3721 caggcgtgtg cctcacttga caaaaccacc tccagcgggc atccccatca cgtccgaaag
3781 aatgaattct ggaatggtga gaccttcact ggtaaattgg cagaccaagc atcaaaagca
3841 aacctaatgt ttgaggaagg gaaacacatg acaccagtgt acacagcagc actcaaggac
3901 gagctagtca agactgagaa aatctatgga aagatcaaga agagactgct ctggggctct
3961 gacttgtcca ccatgatccg gtgcgctagg tcatttggtg ggctcatgga tgagatgaag
4021 gcacactgca tatcactccc agtacgagtt ggcatgaata tgaatgaaga tggcccaata
4081 atatttgaga aacattccag atacaaatac cactatgatg cagactactc tcgttgggac
4141 tcaacacaac agagggcagt actagcagca gccttggaaa tcatggtcag attttctgca
4201 gaaccacaat tggcacaaat agtcgctgag gatctgctgg cccctagtgt agtagatgta
4261 ggagacttta aaatcacaat aaatgaaggg ctcccatctg gtgtgccatg cacttctcaa
4321 tggaactcca tcgcacactg gctgctaact ctctgtgcct tgtctgaagt caccaaactg
4381 tcccctgaca ttatacaagc aaattccttg ttctcatttt acggtgatga cgagattgtt
4441 agcaccgaca taaaattgga ccctgaacag ttaaccgcca aattgaagga gtacggcctg
4501 aaaccaaccc gcccagacaa gaccgaggga cccctgatca tcagtgaaga tttgaacgga
4561 ctcactttcc tccgaaggac ggtgactcgt gacccagctg gctggtttgg aaaactggac
4621 caaaactcaa tattgaggca gatgtactgg actagaggac caaatcatga agaccccaat
4681 gagacaatga taccccattc tcaaagaccc atacagctca tggcactgct tggtgaagcc
4741 tctcttcacg gaccctcttt ctacagtaaa atcagtaagt tggtcataac tgaactcaaa
4801 gaaggtggga tggactttta cgtgccaagg caggaaccca tgttcaggtg gatgaggttt
4861 tctgacttga gcacgtggga gggcgatcgc aatctggctc ccaattttgt gaatgaagat
4921 ggcgtcgagt gacgccaacc catctgatgg gtccgcagcc aacctcgtac cagaggtcaa
4981 caatgaggtt atggctttgg agcccgttgt tggtgccgct attgcggcac ctgtagcggg
5041 ccaacaaaat gtaattgacc cctggattag aaataatttt gtacaagccc ctggtgggga
5101 gtttacagta tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccctaggccc
5161 tgacctaaat ccctacctat cccatttggc cagaatgtac aatggttatg caggtggttt
5221 tgaagtgcag gtaattctcg cggggaacgc gttcaccgcc gggaagatca tatttgcagc
5281 agtcccacca aattttccaa ctgaaggctt aagtcctagc caggtcacta tgttccccca
5341 tataatagta gatgttagac aattagaacc tgtgctgatt cccttacccg atgttaggaa
5401 taatttctat cattacaatc agtcaaatga ctccactatt aagttgatag caatgttgta
5461 cacaccactt agggctaata atgctgggga tgatgttttc acagtttcgt gccgagttct
5521 cacgagacca tcccccgatt ttgatttcat atttttagtg ccacccacag ttgagtcaag
5581 aactaaacca ttctctgtcc cagttttaac tgttgaggag atgaccaatt caagattccc
5641 cattcctttg gaaaagttgt tcacgggccc cagcagtgcc tttgttgttc aaccacaaaa
5701 cggcaggtgc acaactgatg gcgtgctcct aggcaccacc caactgtctc ctgtcaacat
5761 ctgcaccttc agaggggatg tcacccacat cacaggtagt cgcaactaca caatgaattt
5821 ggcttctcaa aattggaaca actatgaccc aacagaagaa atcccagccc ctctaggaac
5881 tccagatttt gtggggaaga ttcaaggcat gctcacccaa accacaagga cagatggttc
5941 aacacgcggc cacaaagcta cagtgtacac tgggagcgcc gacttttctc caaaactagg
6001 tagagttcaa tttgaaactg acacagacca tgattttgaa gctaaccaaa acacaaagtt
6061 caccccagtc ggtgtcatcc aagatggtag caccacccac cgaaacgaac cccaacagtg
6121 ggtgctccca agttactcag gcagaaatac tcacaatgta cacctggccc ccgctgtagc
6181 ccccaccttt ccgggtgagc aacttctctt cttcagatcc accatgcccg gatgcagcgg
6241 gtaccccaac atggatttgg actgtctgct cccccaggaa tgggtgcagt acttctacca
6301 agaggcagcc ccagcacaat ctgatgtggc tctgctaaga tttgtgaatc cagacacagg
6361 tagggttttg tttgagtgca agcttcacaa atcaggctat gttacagtgg ctcacactgg
6421 ccaacatgat ttggttatcc cccccaatgg ttactttagg tttgattcct gggtcaacca
6481 gttctacacg cttgccccca tgggaaatgg aacggggcgt agacgtgtag tataatggct
6541 ggagctttct ttgctggatt ggcatctgat gtccttggct ctggacttgg ttcccttatc
6601 aatgctgggg ctggggccat caaccaaaaa gttgagtttg aaaataacag aaaattgcaa
6661 caagcatcct tccaatttag cagcaatctg caacaggctt cctttcaaca tgataaagag
6721 atgctccaag cacaaattga ggccaccaaa aagctacaac aggaaatgat gaaagttaag
6781 caggcaatgc tcctagaggg tgggttctct gagacagatg cagcccgcgg ggcaattaac
6841 gcccccatga caaaagcttt ggactggagc gggacaaggt actgggctcc cgatgctagg
6901 actacaacat ataatgcagg ccgcttttcc acccctcaac catcgggggc actgccagga
6961 agagctaatc ttagggatgc tgtccctgct cggggaccct ccaacaaatc ttccaactct
7021 tctactgtca cctctgtgta ctcaaatcaa actatttcaa cgaggcttgg ttctacagct
7081 ggttctggaa ccagtgtctc gagcctcccg tcaactgcaa ggactaggag ctgggttgag
7141 gatcaaagta ggaatttgtc acctttcatg aggggggccc acaacatatc atttgtcacc
7201 ccaccatcta gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agagattttg
7261 gactcctgga ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtaag
7321 cgaggggagt cacgggtgta atgtgaaaag acaaaactga cta
//