Typing tool
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Typing tool
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Complete norovirus genomes
| MN897756 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 5..5104
ORF2: 5085..6707
ORF3: 6707..7513
LOCUS MN897756 7563 bp RNA linear VRL 09-JAN-2020
DEFINITION Norovirus GII isolate Hu/US/2018/GII.4 Sydney[P16]/Shawano0193,
complete genome.
ACCESSION MN897756
VERSION MN897756.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7563)
AUTHORS Montmayeur,A.M., Tim,D., Tatusov,R.L., Chhabra,P. and Vinje,J.
TITLE Direct Submission
JOURNAL Submitted (03-JAN-2020) 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..7563
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Shawano0193"
/isolate="Hu/US/2018/GII.4 Sydney[P16]/Shawano0193"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="11-Dec-2018"
/note="genotype: GII.4 Sydney[P16]"
gene 5..5104
/gene="ORF1"
CDS 5..5104
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QHB18527.1"
/translation="MKMASNDASAAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARP
KQPAPRDEPQKPPRPPTPELVKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQ
PDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAA
ISMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLI
GKIKPLNILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAR
EVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELAD
TCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEV
EKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIA
RASGLLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVK
TMEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHH
LKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEE
TPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLV
TGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSVWSRIVSFGSGWGFWVSP
SLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEG
TVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILG
PGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPRPSVLEAAKQTIINVLEQTLDPPQKWSYAQACASLDKTTSSGYPHHARKNEFW
NGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKVKKRLLWGSDL
STMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWD
STQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEQLTAKLK
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGP
NHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
mat_peptide 5..1000
/gene="ORF1"
/product="p48"
mat_peptide 1001..2098
/gene="ORF1"
/product="NTPase"
mat_peptide 2099..2629
/gene="ORF1"
/product="p22"
mat_peptide 2630..3028
/gene="ORF1"
/product="VPg"
mat_peptide 3029..3571
/gene="ORF1"
/product="Pro"
mat_peptide 3572..5101
/gene="ORF1"
/product="RdRp"
gene 5085..6707
/gene="ORF2"
CDS 5085..6707
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QHB18528.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFIVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6707..7513
/gene="ORF3"
CDS 6707..7513
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QHB18529.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGTLPGRANLRDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gcttgcaaca acaacaacga
61 caaggaaaaa tcttcaggtg aaggcttatt cacaaatatg tcttccacct taaagaaagc
121 cctcggggcc aggcccaaac agcctgcccc gagagacgaa ccacaaaagc ccccaagacc
181 accaaccccc gagttggtca agaggatacc ccctcctcca cctaatggcg aagaagaagg
241 agaaccagtc attaggtatg aggttaagag tgggatctct ggcctgcccg agctcacaac
301 agtcccccaa ccggacgtgg ccaacacagc attcagtgtt ccaccactga gcttgagaga
361 aaacagggag gccaaggaac cgctaacagg ggcaatatta gagatgtggg atggagagat
421 ataccactac ggcctgtacg tggagaaagg cttagtgttg ggtgtgcaca aaccacctgc
481 agccataagc atggcaagag tggagctggc gccgctgtca ttgtactggc gtgtggtgta
541 caccccccaa tacctcatct cccctgaaac tcttaggagg ctcaacggag aggcattccc
601 ttataccgcc ttcgacaaca actgctatgc cttttgctgc tgggtgttag acctcaatga
661 ctcatggctt agcaggagga tggtgcaaag aacaacgggc ttcttcagac cttaccaaga
721 gtggaacagg aaacccctgc ctaccatgga tgactccaaa attaagaagg tggcaaatat
781 attcctatgt tcattgtcca cattattcac cagacccata aaagacctca taggaaaaat
841 taaaccatta aacatattga acatcctggc aacgtgtgac tggacgtttg ccggaatagt
901 ggaatctctg atattatttg ctgaactctt cggagttttc tggacacccc cagatgtgtc
961 tgctatgatc gctcccttac tcggggacta cgagttgcaa gggccagaag acctcgccgt
1021 tgaactcgta cctgtggtaa tgggagggat tggtttggtg ttgggattca ccaaagagaa
1081 aattggcaaa atgttgtcct cagcagcatc aacactcagg gcttgcaaag atcttggtgc
1141 ctatggctta gagatactca aattggtcat gaagtggttc ttcccaaaga aagaggaggc
1201 taatgagcta gccatggtga gggccataga ggatgccgta ctagatcttg aggcaataga
1261 aaataaccac atgacaaccc tgttgaaaga caaagacagc ttagcaacat acatgaagac
1321 actggacatg gaggaggaga aagccagaag gttgtccaca aaatctgcat cccctgacat
1381 agttgggaca atcaacgctc tgctggctcg aatagcagcg gccaggtcat tagtccacag
1441 ggctaaggaa gagctatcta gcaggataag accagtagtt gttatgatat ctggcaaacc
1501 aggaataggc aaaactcatc tggccaggga ggtggcaaga aaggtggcat ccactctcac
1561 aggggatcaa agagtcggac tcataccaag aaacggtgtg gaccattggg atgcatacaa
1621 aggtgagaga gtcgtgctgt gggacgacta tggcatgagt aaccccattc atgatgctct
1681 ccgcatacaa gaattggctg atacgtgtcc ccttacctta aattgtgaca gaattgaaaa
1741 taagggaaaa gtttttgaca gtgaagtcat aataattaca acaaaccttg ccaacccagc
1801 cccacttgat tatgtcaact ttgaggcctg ttccaggaga attgatttcc tggtgtacgc
1861 tgaggcacca gaagtggaaa aggcaaaacg ggactttcct ggtcagccag atatgtggaa
1921 ggacgccttc aagccggact tttcacacat caagctacag cttgcacctc agggcggttt
1981 tgacaagaat ggcaacaccc cacatgggaa aggagtgatg aagaccctca ctaccggttc
2041 tctgattgcc cgtgcatcag gcctactgca tgagaggatg gatgaatttg aactccaagg
2101 tcccacaacc accaccttca atttcgaccg gaacagaatc acagcattca gacaattggc
2161 tgcagaaaac aagtatggat tggtggatac catgaaggtt ggcaatcaac taaaaggagt
2221 gaaaaccatg gaagaactca aacaagcaat caggaatgtg accatcaaga ggtgccggat
2281 catctacggt ggctccacgt atgaccttga atctgatggc aagggcaaag ttttggtgga
2341 aaaggtcaag aacacctctg tacagaccaa caacgagttg gccggggccc tgcaccatct
2401 caaacacgcc cgaatcaggt actatgtcaa atgtgtgcaa gaagcagtct attccatcat
2461 acaaattgcc ggcgctgcgt ttgtcaccac gcgcattgca cgccgcatga acatacaaga
2521 actctggtcg aagccacaat tagatcaaaa tgaatcagag actaaggaag agacccccaa
2581 gtcagaagat gacgagttca tcatatcttc taaggacatc aaggaggagg gaaagaaggg
2641 caagaacaaa actggccgtg gcaagaaaca cactgcattc tctagcaagg gcttgagcga
2701 tgaggagtat gacgagtaca agaggataag agaagagaga aatgggaagt actctataga
2761 ggagtatctt caagacagag acaggtacta tgaggagctc gccattgcca aggccacaga
2821 agaagacttc tgtgaagagg aggaggtcaa aatccgtcag agaattttcc gtcccaccag
2881 aaaacaaagg aaggaagaga gggccacatt agggctagtg acaggttcag aaatcagaaa
2941 aagaaaccct gatgacttca aacccaaagg gaaactgtgg gccgacgaca acagaagtgt
3001 tgactacaat gagaaactgg actttgaggc ccccccaagc gtatggtcta ggattgtgag
3061 ctttggttct ggctggggct tctgggtatc accaagcctg ttcataacat caactcatgt
3121 aatccccgct ggcataacag aagcatttgg agtccccatc aaacaaattc agatccacaa
3181 atcaggtgaa ttttgccgat tcagattccc aaaaccaatt agaccagatg tgacaggaat
3241 gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact gtgctcatca aacgccccac
3301 cggagagctc atgcctcttg cagccagaat gggaacacac gcaaccatga aaattcaagg
3361 ccgtatggtt ggcggacaga tgggtatgtt gctcactgga tcaaatgcta aaggaatgga
3421 tttgggaaca actcctggtg actgcggctg tccttacatc tataaaaggg gcaatgacta
3481 tgtagtcatt ggggtgcaca ctgcagcagc ccgtggtgga aacaccgtca tctgtgccac
3541 acagggaagt gagggtgagg caactcttga gggtggagat gacaaaggaa catactgtgg
3601 ggcacccatt ctaggccctg ggggtgcacc aaaattgagc actaaaacca aattctggag
3661 gtcatcgaac acgccccttc caccagggac atatgagcct gcctacctcg gtggccgtga
3721 tccgcgtgtt aagggtgggc cctccttgca gcaggtaatg agagaccagt tgaagccatt
3781 cactgaaccc aggggcaaac ctccaagacc aagtgtattg gaagcagcca aacaaaccat
3841 tatcaatgtc ctcgaacaaa ccctggaccc tccacaaaaa tggtcatacg cacaggcgtg
3901 tgcctcactt gacaaaacca cctccagcgg gtatccccac cacgcccgaa agaatgaatt
3961 ctggaatggt gagaccttca ctggtaaatt ggcagaccaa gcatcaaaag caaacctaat
4021 gtttgaggaa gggaaacata tgacaccagt gtatacagca gcgctcaagg atgagctagt
4081 caagactgag aaaatctatg gaaaggtcaa gaagagactg ctctggggct ctgacttgtc
4141 caccatgatc cggtgcgcta ggtcatttgg tgggctcatg gacgagatga aggcacactg
4201 catatcactc ccagtacgag ttggcatgaa tatgaatgaa gatggcccaa taatatttga
4261 gaaacattcc agatacaaat atcactatga tgcagactat tctcgttggg attcaacaca
4321 acagagggca gtactagcag cagccttgga aatcatggtc agattctctg cagaaccaca
4381 attggcacaa atagtcgctg aggatctgct ggcccctagt gtagtagatg taggagactt
4441 taaaatcaca ataaatgaag ggctcccatc tggtgtgcca tgcacttccc aatggaactc
4501 catcgcacac tggctgctaa ctctctgtgc cttgtctgaa gtcaccaaac tgtcacctga
4561 cattgtacaa gcaaattcca tgttctcatt ttacggtgat gacgagattg tcagcaccga
4621 cataaaattg gaccctgaac agttaaccgc caaattgaag gagtacggcc tgaaaccaac
4681 ccgcccagac aagactgagg gacccctgat catcagtgaa gatttgaacg gactcacttt
4741 cctccgaagg acggtgactc gtgacccagc tggctggttt ggaaaactgg atcaaagctc
4801 aattttgagg cagatgtact ggactagagg accaaatcat gaagacccca atgagacaat
4861 gataccccat tctcaaagac ccatacagct catggcactg cttggtgaag cctctctcca
4921 cggaccctct ttctacagta aaatcagtaa attggtcata actgaactca aagaaggtgg
4981 gatggacttt tacgtgccaa ggcaggaacc catgttcagg tggatgaggt tttctgactt
5041 gagcacgtgg gagggcgatc gcaatctggc tcccaacttt gtgaatgaag atggcgtcga
5101 gtgacgccaa cccatctgat gggtccgcag ccaacctcgt accagaggtc aacaatgagg
5161 ttatggcttt ggagcccgtt gttggtgccg ctattgcggc acctgtagcg ggccaacaaa
5221 atgtaattga cccctggatt agaaataatt ttgtacaagc ccctggtggg gagtttacag
5281 tatcccctag aaacgctcca ggtgaaatac tatggagcgc gcccctaggc cctgacctga
5341 atccctacct atcccatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc
5401 aggtaattct cgcggggaac gcgttcaccg ccgggaagat catatttgca gcagtcccac
5461 caaattttcc aactgaaggc ttaagcccta gccaggtcac tatgttcccc catataatag
5521 tagatgttag acaattagaa cctgtgctga ttcccttacc tgatgtcagg aataatttct
5581 atcattacaa tcagtcaaat gactccacta ttaagttgat agcaatgttg tatacaccac
5641 ttagggctaa taatgctggg gatgatgttt tcacagtttc gtgccgagtt ctcacgagac
5701 catcccccga ttttgatttt atatttttag tgccacccac agttgaatca agaactaaac
5761 cattctctgt cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt
5821 tggaaaagtt gttcacgggc cccagcagtg cctttattgt tcaaccacaa aacggcaggt
5881 gcacgactga cggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct
5941 tcagagggga tgtcacccac atcacaggta gtcgcaacta cacaatgaat ttggcttctc
6001 aaaattggaa taactatgat ccaacagaag aaatcccagc ccctctagga gctccagatt
6061 ttgtggggaa gattcaaggc atgctcaccc aaaccacaag gacagatggt tcaacacgcg
6121 gccacaaagc tacagtgtac actgggagcg ccgactttgc tccaaaactg ggtagagttc
6181 aatttgaaac tgacacagac catgattttg aagctaatca aaacacaaag ttcaccccag
6241 tcggtgtcat ccaagatggc agcaccaccc accgaaacga accccaacag tgggtgctcc
6301 caagttactc aggcagaaat actcacaatg tacatctggc ccccgctgta gcccccacct
6361 ttccgggtga gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca
6421 acatggattt ggactgtctg ctcccccagg aatgggtgca gtacttctat caagaggcag
6481 ccccagcaca atctgatgtg gctctgctaa gatttgtgaa tccagacaca ggtagggttt
6541 tgtttgagtg caagcttcat aaatcaggct atgttacagt tgctcacact ggccaacatg
6601 atttggttat cccccccaat ggttacttta ggtttgattc ctgggtcaac cagttctaca
6661 cgcttgcccc catgggaaat ggaacggggc gtagacgtgt agtataatgg ctggagcttt
6721 ctttgctgga ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg
6781 ggctggggcc atcaaccaaa aagttgagtt tgaaaataac agaaaattgc aacaagcatc
6841 cttccaattt agcagcaatc tgcaacaggc ttcctttcaa catgataaag agatgctcca
6901 agcacaaatt gaggccacca aaaagttaca gcaggaaatg atgaaggtta agcaggcaat
6961 gctcctagag ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgctcccat
7021 gacaaaagtt ttggactgga gcgggacaag gtactgggct cccgatgcta ggactacaac
7081 atacaatgcg ggccgcttct ccacccctca accatcgggg acactgccag gaagagctaa
7141 ccttagggat gctgtccctg ctcggggacc ctccaacaaa tcttctaact cttctactgc
7201 tacctctgtg tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg
7261 aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg agctgggttg aggatcaaag
7321 taggaattta tcacctttca tgaggggggc ccacaacata tcatttgtca ccccaccatc
7381 tagcagatcc tctagccaag gcacagtctc aaccgtgcct aaagagattt tggactcctg
7441 gactggcgct ttcaacacgc gcaggcagcc tctcttcgct cacattcgta agcgagggga
7501 gtcacgggtg taatgtgaaa agataaaatt gattattttt ctttttagtg tcttttaaaa
7561 aaa
//