Typing tool
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Typing tool
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Complete norovirus genomes
| MW305708 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305708 7520 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate CMH-N033-18 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305708
VERSION MW305708.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7520)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses reveal coexistence of
viral populations evolving under recombination constraints
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7520)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A., Ford-Siltz,L.A., Galeano,M.E.,
Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N., Ushijima,H.,
Green,K.Y. and Parra,G.I.
TITLE Direct Submission
JOURNAL Submitted (23-NOV-2020) CBER/OVRR/DVP/LHV, U.S. Food and Drug
Administration, 10903 New Hampshire Avenue, Silver Spring, MD
20993, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: High-performance Integrated Virtual
Environment (HIVE) v. 2
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7520
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="CMH-N033-18"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Thailand"
/collection_date="08-Feb-2018"
/note="genotype: GII.4[GII.P16]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59460.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDEPQK
PPRPPTPELVKRMPPPPPNGEEGEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVP
PLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPL
SLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQR
TTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGRVKPLNILNI
LATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEETNELA
MVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVG
TINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLT
GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRI
ENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQP
DMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMD
EFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRN
VTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVK
CVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEAKEEAPKSEDDEFII
SSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPD
DFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIP
AGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPT
GELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGN
DYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKT
KFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE
AAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGETFTGKLAD
QASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFG
GLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAA
LEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDK
TEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIP
HSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPNFVNEDGVE"
mat_peptide <1..965
/gene="ORF1"
/product="p48"
mat_peptide 966..2063
/gene="ORF1"
/product="NTPase"
mat_peptide 2064..2594
/gene="ORF1"
/product="p22"
mat_peptide 2595..2993
/gene="ORF1"
/product="VPg"
mat_peptide 2994..3536
/gene="ORF1"
/product="Pro"
mat_peptide 3537..5066
/gene="ORF1"
/product="RdRp"
gene 5050..6672
/gene="ORF2"
CDS 5050..6672
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59461.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGAPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVIPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59462.1"
/translation="MAGAFFAGLASDVLGSGLSSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSRALPGRANFKDAVPARGPSNKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa
61 atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct gccccgagag
121 acgaaccgca aaagccacca agaccaccaa ctcccgagtt ggtcaagagg atgccccctc
181 ctccacctaa tggcgaagaa ggagaagaac cagtcattag gtatgaggtt aagagtggga
241 tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac acagcattca
301 gtgttccacc actgagcttg agagaaaaca gggaggccaa ggaaccgcta acaggggcaa
361 tattagagat gtgggacgga gagatatacc actatggcct gtacgtggag aaaggcttag
421 tgttgggtgt gcacaaacca cctgcagcca taagcatggc aagagtggag ctgacgccgc
481 tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct gaaactctca
541 ggaggctcaa cggagaggcg ttcccttaca ccgccttcga caacaactgc tacgcctttt
601 gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggtg caaagaacaa
661 cgggcttctt cagaccttac caagagtgga acagaaaacc cctgcccacc atggatgact
721 ccaaaataaa gaaagtagca aatatattcc tatgttcatt gtccacatta ttcaccagac
781 ccataaaaga ccttatagga agagttaaac cattaaacat attgaacatc ctggcaacgt
841 gtgactggac gtttgccggg atagtggagt ctctgatatt acttgctgaa ctcttcggag
901 ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg gactacgagt
961 tgcaagggcc agaagacctc gccgttgaac tcgtacctgt ggtaatggga gggattggtt
1021 tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac
1081 tcagggcttg caaagatctt ggtgcctatg gcttagagat actcaaattg gtcatgaagt
1141 ggttcttccc aaagaaagag gagaccaatg agctagccat ggtgagggcc atagaggatg
1201 ccgtactaga tcttgaggca atagaaaata accacatgac aaccctgttg aaagacaaag
1261 acagcttagc aacatacatg aaaacactgg acatggagga ggagaaagcc agaaggttgt
1321 ccacaaaatc tgcatcccct gacatagttg ggacaatcaa cgccctgctg gctcgaatag
1381 cagcagccag gtcgttagtc catagggcca aggaagagct atctagcagg ataagaccag
1441 tagttgttat gatatctggt aaaccaggaa taggcaaaac tcatctggcc agggaggtgg
1501 caagaaaggt agcatccact ctcacagggg atcaaagagt cggactcata ccaagaaacg
1561 gtgtggacca ttgggatgca tacaaaggtg agagagtcgt gctgtgggac gactatggca
1621 tgagtaaccc cattcatgat gctcttcgca tacaagaatt ggctgatacg tgtcccctta
1681 ccttaaattg tgacagaatt gaaaataagg gaaaagtttt tgacagtgaa gtcataataa
1741 ttacaacaaa ccttgccaac ccagccccac ttgattatgt caactttgag gcctgttcca
1801 ggagaattga tttcctggtg tacgctgagg caccagaagt ggaaaaggca aaacgggatt
1861 ttcctggtca gccagatatg tggaaggacg ccttcaagcc tgacttttca cacatcaagc
1921 tacagcttgc acctcaaggc ggctttgaca agaatggcaa caccccacat gggaaagggg
1981 tgatgaagac cctcactacc ggttctctga tcgcccgtgc atcaggccta ctgcatgaga
2041 ggatggatga atttgaactc caaggtccca caatcaccac cttcaatttc gaccggaaca
2101 gaatcacagc attcagacaa ttggctgcag aaaacaagta tgggttggtg gataccatga
2161 aagttggcaa tcaactaaaa ggagtgaaaa ccatggaaga gctcaaacaa gcaatcagga
2221 acgtgaccat caagaggtgc cggatcatct acggtggctc cacgtatgac cttgaatctg
2281 atggcaaggg caaagttttg gtggaaaagg tcaagaacac ctctgtacag accaacaacg
2341 agttggccgg ggccctacac catctcaaac acgcccgaat caggtactat gtcaaatgtg
2401 tgcaagaagc agtctattcc atcatgcaaa ttgccggcgc tgcgtttgtc accacgcgca
2461 ttgcacgccg catgaacata caagaactct ggtcgaagcc acaattagat caaaatgaat
2521 cagaagctaa ggaagaggcc cccaagtcag aagatgacga gttcatcata tcttctaagg
2581 acatcaagga ggaaggaaag aagggcaaaa acaaaactgg ccgtggcaag aaacacactg
2641 cattctccag caagggcttg agcgatgagg agtatgacga gtacaagagg ataagagaag
2701 agagaaatgg gaagtactct atagaggagt atcttcaaga cagagacagg tactatgaag
2761 agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag atcaaaatcc
2821 gccagagaat ttttcgtccc accaggaaac aaagaaagga agagagggcc acattagggc
2881 tggtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc aaagggaagc
2941 tgtgggccga tgacaacaga agtgttgact acaatgagaa actggacttt gaggcccccc
3001 caagcatatg gtctaggatt gtgagctttg gttctggctg gggcttctgg gtgtcaccaa
3061 gcctgtttat aacatcaact catgtaatcc ccgcaggcat aacagaagca tttggggtcc
3121 ccatcaaaca aattcagatc cacaaatcag gtgaattttg ccgattcaga ttcccaaaac
3181 caattagacc agatgtgaca ggaatgatct tggaagaagg tgcgcctgaa ggcaccgtgg
3241 caactgtgct catcaaacgc cccaccggag agctcatgcc tcttgcagcc agaatgggaa
3301 cacacgcaac catgaaaatt caaggccgca tggttggcgg acagatgggc atgttgctca
3361 ctgggtcaaa cgctaaagga atggatttgg gaacaactcc tggtgactgt ggctgtcctt
3421 acatctataa aaggggcaat gactatatag tcattggggt gcacactgca gcagcccgtg
3481 gtggaaacac cgtcatctgt gccacacagg gaagtgaggg tgaggcaact cttgagggtg
3541 gagatgataa aggaacatac tgtggggcac ccattttagg ccctgggggt gcaccgaaat
3601 tgagcaccaa aaccaaattt tggaggtcgt cgaacacgcc ccttccacca gggacatatg
3661 agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccctcc ttgcagcagg
3721 taatgagaga ccagttgaag ccattcactg aacccagggg caaacctcca agaccaagtg
3781 tgttggaagc agccaaacaa accattatca atgttctcga acaaaccctg gaccctccac
3841 aaaaatggac atatgcacag gcgtgtgcct cacttgacaa aaccacctcc agcgggcatc
3901 cccatcacgc ccgaaagaat gaattctgga atggtgagac cttcactggc aaattggcag
3961 accaagcatc aaaagcaaac ctaatgtttg aggaagggaa acatatgaca ccagtgtata
4021 cagcagcact caaggacgag ctagttaaga ctgagaaaat ctatggaaag atcaagaaga
4081 gactgctctg gggctctgac ttgtccacca tgatccggtg cgctaggtca tttggtgggc
4141 tcatggacga gatgaaggca cactgcatat cactcccagt acgagttggc atgaatatga
4201 atgaagatgg cccaataata tttgagaaac attccagata taaataccac tatgatgcag
4261 actactctcg ttgggattca acacaacaga gggcagtact agcagcagcc ttggaaatca
4321 tggtcagatt ctctgcagaa ccacaattgg cacaaatagt cgctgaggat ctactggccc
4381 ctagtgtagt agatgtagga gactttaaaa tcacaataaa tgaagggctc ccatctggtg
4441 tgccatgcac ttctcaatgg aactccatcg cacactggct gctaactctc tgtgccttgt
4501 ctgaagtcac taaactgtcc cctgacatta tacaagcaaa ttccatgttc tcattttacg
4561 gtgatgacga gattgtcagc accgatataa aattggaccc tgaacagtta accgccaagt
4621 tgaaggagta cggcctgaaa ccaacccgcc cagacaagac cgagggaccc ctgatcatca
4681 gtgaagattt gaacggactc actttcctcc gaaggacggt gactcgtgac ccagctggct
4741 ggtttggaaa attggaccaa agttcaattt tgagacagat gtactggact agaggaccaa
4801 atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata cagctcatgg
4861 cgctgcttgg tgaagcctct cttcacggac cctctttcta cagtagaatc agtaaattgg
4921 tcataactga actcaaagaa ggtgggatgg acttttacgt gccaaggcag gaacccatgt
4981 tcaggtggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 attttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtaccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgctatc
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggggagtt tacagtgtcc cctagaaacg ctccaggtga aatactatgg
5281 agtgcgcccc taggccctga cctaaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aagattatat ttgcagcagt cccaccaaat tttccaactg aaggcttaag tcctagccag
5461 gtcactatgt tcccccatat aatagtagat gttagacaac tagaacctgt gctgattccc
5521 ttacccgatg ttaggaataa tttttatcat tacaatcagt caaatgactc cactatcaag
5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggagatga tgtttttaca
5641 gtttcgtgcc gagttctcac gagaccatcc cccgattttg atttcatatt tttagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttgactgt tgaggagatg
5761 accaattcaa gattccccat ccctttggaa aagttgttca caggccccag cagtgccttt
5821 gttgttcaac cacaaaacgg caggtgcaca actgatggcg tgctcctagg caccacccaa
5881 ctttctcctg tcaacatctg caccttcaga ggggatgtca cccacataac aggtagtcgc
5941 aactacacaa tgaatttggc ctctcaaaat tggaacaact atgacccaac agaagaaatt
6001 ccagcccctc taggagctcc agattttgtg gggaagattc aaggcatgct cacccaaacc
6061 acaaggacag atggttcaac acgcggccac aaagctacag tgtacactgg gagcgccgac
6121 tttgctccaa aactgggtag agttcagttt gaaactgaca cagaccatga ttttgaagct
6181 aatcaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac cacccaccga
6241 aacgaacccc aacagtgggt gatcccaagt tactcaggca gaaacactca caatgtacat
6301 ttggcccccg ctgtagcccc cacctttccg ggtgagcaac ttctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg
6421 gtgcagtact tttaccaaga ggcagcccca gcacaatctg atgtggctct gctaagattt
6481 gtgaacccag acacaggcag ggttttgttt gagtgcaagc ttcacaaatc aggctatgtt
6541 acagtggctc acactggcca acatgatctg gtcatccccc ccaacggtta ctttaggttt
6601 gattcctggg ttaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgtagtgt aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttagttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gaatttgaaa
6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctgcaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaatagaggc caccaaaaag ctacaacagg
6901 aaatgatgaa agttaagcag gcaatgctcc tagagggtgg gttctctgag acagatgcag
6961 cccgcggggc aattaacgcc cccatgacaa aagctttgga ctggagcggg acaaggtact
7021 gggctccaga tgctaggatt acaacataca atgcaggcca cttttccacc cctcaaccat
7081 cgagggcact gccaggaaga gctaatttta aggatgctgt ccctgctcgg ggaccctcca
7141 ataaatcctc taactcttct actgccacct ctgtgtattc aaatcaaact atttcaacga
7201 gacttggttc tacagctggt tctggaacca gtgtctcgag cctcccgtcg actgcaagga
7261 ctaggagctg ggttgaggat caaaatagga atttgtcacc tttcatgagg ggggcccaca
7321 acatatcatt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga gattttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaagcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta
7501 tttttcttct tcttttcttt
//