Typing tool
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Typing tool
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Complete norovirus genomes
| MK752943 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 3..5102
ORF2: 5083..6705
ORF3: 6705..7509
LOCUS MK752943 7509 bp RNA linear VRL 11-APR-2019
DEFINITION Norovirus GII isolate Hu/US/2016/GII.P16-GII.4 Sydney/LaCrosse0643
nonstructural polyprotein (ORF1) and VP1 (ORF2) genes, complete
cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK752943
VERSION MK752943.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7509)
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JOURNAL Unpublished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 7509)
AUTHORS Barclay,L., Cannon,J.L., Davis,T., Montmayeur,A.M., Tatusov,R.L.
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..7509
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="LaCrosse0643"
/isolate="Hu/US/2016/GII.P16-GII.4 Sydney/LaCrosse0643"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="USA"
/collection_date="07-Jul-2016"
/note="genotype: GII.P16-GII.4 Sydney"
gene 3..5102
/gene="ORF1"
CDS 3..5102
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBS47660.1"
/translation="MKMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEVVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
APKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 3..998
/gene="ORF1"
/product="p48"
mat_peptide 999..2096
/gene="ORF1"
/product="NTPase"
mat_peptide 2097..2627
/gene="ORF1"
/product="p22"
mat_peptide 2628..3026
/gene="ORF1"
/product="VPg"
mat_peptide 3027..3569
/gene="ORF1"
/product="Pro"
mat_peptide 3570..5099
/gene="ORF1"
/product="RdRp"
gene 5083..6705
/gene="ORF2"
CDS 5083..6705
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBS47661.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6705..>7509
/gene="ORF3"
CDS 6705..>7509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBS47662.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRTLPGRANLRDAVPARGPSNKSS
NSSTATSVYSSQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gaatgaagat ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca
61 aggaaaaatc ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc
121 tcggggctag gcccaaacag cctgccccga gagacgaacc acaaaagccc ccaagaccac
181 caactcccga gttggtcaag aggatacccc ctcctccgcc taatggcgaa gaagaagaag
241 aaccagtcat taggtatgag gttaagagtg ggatctctgg cctgcccgag ctcacaacag
301 tcccccaacc ggacgtggcc aacacagcat tcagtgttcc accactgagc ttgagagaaa
361 acagggaggc caaggaaccg ctaacagggg caatattaga gatgtgggac ggagagatat
421 accactatgg cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag
481 ccataagcat ggcaagagtg gagctgacac cgctgtcatt gtactggcgt gtggtgtaca
541 ctccccaata cctcatctcc cctgaaactc tcaggaggct caacggagag gcgttccctt
601 acaccgcctt cgacaacaac tgctatgcct tttgctgctg ggtgttagac ctcaatgact
661 catggcttag caggaggatg gtgcaaagaa caacgggctt cttcagacct taccaagagt
721 ggaacagaaa acccctgcct accatggatg actccaaaat aaagaaggta gcaaatatat
781 tcctatgttc attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta
841 aaccattaaa catattgaac atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg
901 agtctctgat attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg
961 ctatgatcgc tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg
1021 aactcgtacc tgtggtaatg ggagggattg gtttggtgtt gggattcacc aaagagaaaa
1081 ttggcaaaat gttgtcctca gcagcatcaa cactcagggc ttgcaaagat cttggtgcct
1141 atggcttaga gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca
1201 atgagctagc catggtgagg gccatagagg atgccgtact agatcttgag gcaatagaaa
1261 ataaccacat gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac
1321 tggacatgga ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag
1381 ttgggacaat caacgccctg ctggctcgaa tagcagcggc caggtcatta gtccacaggg
1441 ccaaggaaga gctatctagc aggataagac cagtagttgt tatgatatct ggcaaaccag
1501 gaataggcaa aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag
1561 gggatcaaag agtcggactc ataccaagaa acggtgtgga ccattgggat gcatacaaag
1621 gtgagagagt cgtgctgtgg gacgactatg gcatgagtaa ccccattcat gatgctcttc
1681 gcatacaaga attggctgac acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata
1741 agggaaaagt ttttgacagt gaagtcataa taattacaac aaaccttgcc aacccagccc
1801 cacttgatta tgtcaacttt gaggcctgtt ccaggagaat cgatttcctg gtgtacgctg
1861 aggcaccaga agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg
1921 acgccttcaa gccggacttt tcacacatca agctacagct tgcacctcag ggcggctttg
1981 acaagaatgg caacacccca catgggaaag gagtgatgaa gaccctcacc accggttctc
2041 tgattgcccg tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc
2101 ccacaatcac caccttcaat ttcgaccgga acagaatcac agcattcaga caattggctg
2161 cagaaaacaa gtatggattg gtggatacca tgaaagttgg caatcaacta aaaggagtga
2221 aaaccatgga agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggatca
2281 tctacggtgg ctccacgtat gaccttgaat ctgatggtaa gggcaaagtt ttggtggaaa
2341 aggtcaagaa cacctctgtg cagaccaaca acgagttggc cggggccctg caccatctca
2401 aacacgcccg aatcaggtac tatgtcaaat gtgtgcaaga agtagtctat tccatcatac
2461 aaattgccgg cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac
2521 tctggtcgaa gccacaattg gatcaaaatg agtcagagac taaggaagag gcccccaagt
2581 cagaagatga cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca
2641 aaaacaaaac tggccgtggc aagaaacaca ctgcattctc cagcaagggt ttgagcgatg
2701 aggagtatga cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg
2761 agtatcttca agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag
2821 aagacttctg tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga
2881 aacaaagaaa ggaagagagg gccacattag ggctggtaac aggttcagaa atcagaaaaa
2941 gaaaccctga tgacttcaaa cccaaaggga agctgtgggc cgatgacaac agaagtgttg
3001 actacaatga gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct
3061 ttggttctgg ctggggcttc tgggtatcac caagcctgtt cataacatca actcatgtaa
3121 tccccgcagg cataacagaa gcatttggag tccccatcaa acaaattcag atccacaaat
3181 caggtgagtt ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga
3241 tcttggaaga aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccccaccg
3301 gagagctcat gcctcttgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc
3361 gcatggttgg cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggatt
3421 tgggaacaac tcctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactata
3481 tagccattgg ggtgcacact gcagcagccc gtggtggaaa caccgtcatc tgcgccacac
3541 agggaagtga gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg
3601 cacccattct aggccctggg ggtgcaccaa aattgagcac caaaaccaaa ttttggaggt
3661 catcgaacac gccccttcca ccagggacgt atgagcctgc ctacctcggt ggccgtgatc
3721 cgcgtgttaa gggtgggccc tccttgcagc aggtaatgag agaccagttg aagccattca
3781 ctgaacccag gggcaaacct ccaagaccaa gtgtattgga agcagccaaa caaaccatta
3841 tcaatgttct cgaacaaacc ctggaccctc cacaaaaatg gacatacgcg caggcgtgtg
3901 cctcacttga caaaaccact tccagcgggc atccccatca cgtccgaaag aatgaattct
3961 ggaatggtga gaccttcact ggtaaattgg cagaccaagc atcaaaagca aacctaatgt
4021 ttgaggaagg gaaacacatg acaccagtgt atacagcagc gctcaaggac gagttggtca
4081 agactgagaa aatctatgga aagatcaaga agagactgct ctggggctct gacttgtcca
4141 ccatgatccg gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca
4201 tatcactccc agtacgagtc ggcatgaata tgaatgaaga tggcccaata atatttgaga
4261 aacattccag atacaaatac cactatgatg cagactactc tcgttgggat tcaacacaac
4321 agagggcagt actagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat
4381 tggcacaaat agtcgctgag gatctactgg cccctagtgt agtagatgta ggagacttta
4441 aaatcacaat aaatgaaggg ctcccatctg gtgtgccatg cacttctcaa tggaactcca
4501 tcgcacactg gctgctaact ctctgtgcct tgtctgaagt caccaaactg tcccctgaca
4561 ttatacaagc aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca
4621 taaaattgga ccctgaacag ttaaccgcca agttgaagga gtacggcctg aaaccaaccc
4681 gcccagacaa gaccgaggga cccctgatca tcagtgaaga tttgaacgga ctcactttcc
4741 tccgaaggac ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagttcaa
4801 ttttgaggca gatgtactgg actagaggac caaatcatga agaccccaat gagacaatga
4861 taccccattc tcaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg
4921 gaccctcttt ctacagtaga atcagtaaat tggtcataac tgaactcaaa gaaggtggga
4981 tggactttta cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga
5041 gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt
5101 gacgccaacc catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt
5161 atggctttgg agcccgttgt tggtgccgct attgcggcac ctgtagcggg ccaacaaaat
5221 gtaattgacc cctggattag aaataatttt gtacaagccc ctggtgggga gtttacagta
5281 tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccctaggccc tgacctaaat
5341 ccctacctat cccatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag
5401 gtaattctcg cggggaacgc gttcaccgcc gggaagatta tatttgcagc agttccacca
5461 aattttccaa ctgaaggctt aagtcctagc caggtcacta tgttccccca tataatagta
5521 gatgttagac aattagaacc tgtgctgatt cccttacccg atgttaggaa taacttctat
5581 cattacaatc agtcaaatga ctccactatt aagttgatag caatgttgta tacaccactt
5641 agggccaata atgctgggga tgatgttttc acagtttcgt gccgagttct cacgagacca
5701 tcccccgatt ttgatttcat atttttagtg ccacccacag ttgagtcaag aactaaacca
5761 ttctctgtcc cagttttaac tgttgaggag atgaccaatt caagattccc catccctttg
5821 gaaaagttgt tcacaggccc cagcagtgcc tttgttgttc aaccacaaaa cggcaggtgc
5881 acaactgatg gcgtgctcct aggcaccacc caactttctc ctgtcaacat ctgcaccttc
5941 agaggggatg tcacccacat cacaggtagt cgcaactaca caatgaattt ggcttctcaa
6001 aattggaaca actatgaccc aacagaagaa atcccagccc ctctaggaac tccagatttt
6061 gtggggaaga ttcaaggcat gctcacccaa accacaagga cagatggttc aacacgcggc
6121 cacaaagcta cagtgtacac tgggagtgcc gactttgctc caaaactggg tagagttcaa
6181 tttgaaactg acacagacca tgattttgaa gctaatcaaa acacaaagtt caccccagtc
6241 ggtgtcatcc aagatggtag caccacccac cgaaacgaac cccaacagtg ggtgctccca
6301 agttactcag gcagaaacac tcacaacgta catttggccc ccgctgtagc ccccaccttt
6361 ccgggtgaac aacttctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaat
6421 atggatttgg actgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc
6481 ccagcacaat ctgatgtggc tctgctaagg tttgtgaatc cagacacagg tagggttttg
6541 tttgagtgca agcttcacaa gtcaggctat gttacagtgg ctcacactgg ccaacatgat
6601 ttggttatcc cccccaatgg ttactttaga tttgattcct gggtcaacca gttctacacg
6661 cttgccccca tgggaaatgg aacggggcgt agacgtgtag tataatggct ggagctttct
6721 ttgctgggtt ggcatctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg
6781 ctggggccat caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct
6841 tccaatttag cagcaatctg caacaggctt cctttcaaca tgataaagag atgctccaag
6901 cacaaattga ggccaccaaa aagctacaac aggaaatgat gaaagttaag caggcaatgc
6961 tcctagaggg tgggttctct gagacagatg cagctcgcgg ggcaatcaac gcccccatga
7021 caaaagcttt ggactggagc gggacaaggt actgggctcc agatgctagg attacaacat
7081 acaatgcagg ccacttttcc acccctcaac catcgaggac actgccagga agagctaatc
7141 ttagggatgc tgtccctgct cggggaccct ccaacaaatc ttccaactct tctactgcca
7201 cctctgtgta ctcaagtcaa actatttcaa cgagacttgg ttctacagct ggttctggaa
7261 ccagtgtctc gagcctcccg tcaactgcaa ggactaggag ctgggttgag gatcagaata
7321 ggaatttgtc acctttcatg aggggggccc acaacatatc atttgtcacc ccaccatcta
7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agagattttg gactcctgga
7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt
7501 cacgggtgt
//