Typing tool
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Typing tool
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Complete norovirus genomes
| MW305647 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305647 7520 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg15983 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305647
VERSION MW305647.1
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JOURNAL Unpublished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="Arg15983"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2017"
/note="genotype: GII.4[GII.P16]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59277.1"
/translation="VACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDESQK
PPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVP
PLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAVSMARVELTPL
SLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQR
TTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNI
LATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELA
MVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVG
TINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLT
GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRI
ENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQP
DMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMD
EFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRN
VTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVK
CVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSEDDEFII
SSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPD
DFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIP
AGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPT
GELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGN
DYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKT
KFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLE
AAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGEAFTGKLAD
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="QPJ59278.1"
/translation="MKMASSDANPSDGSAANLVPEVSNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRHNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEVNQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6672..7478
/gene="ORF3"
CDS 6672..7478
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59279.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGPSTKSS
NSSTANSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHVRKRGESRV"
ORIGIN
1 ccgttgcttg caacaacaac aacgacaagg aaaaatcttc aggtgaaggc ttattcacaa
61 atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct gccccgagag
121 acgaatcaca aaagccccca agaccaccaa ctcccgagtt ggtcaagagg ataccccctc
181 ctccacctaa tggcgaagaa gaagaagaac cagtcattag gtatgaggtt aagagtggga
241 tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac acagcattta
301 gtgttccacc actgagcttg agagaaaaca gggaggccaa ggaaccgcta acaggggcaa
361 tactagagat gtgggacgga gagatatacc actatggcct gtacgtggag aaaggcttag
421 tgttgggtgt gcacaaacca cctgcagccg taagcatggc aagagtggag ctgacgccgc
481 tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct gaaactctca
541 ggaggctcaa cggagaggcg tttccttaca ccgccttcga caacaactgc tatgcctttt
601 gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggtg caaagaacaa
661 cgggcttctt cagaccttac caagagtgga acagaaaacc cttgcctacc atggatgact
721 ccaaaataaa gaaggtagca aatatattcc tatgttcatt gtccacatta ttcaccagac
781 ccataaaaga tctcatagga aaaattaaac cattaaacat attgaacatc ctggcaacgt
841 gtgactggac gtttgccgga atagtggagt ctctgatatt gcttgccgaa ctcttcggag
901 ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg gactacgagt
961 tgcaagggcc agaagacctc gccgttgaac tcgtacctgt ggtaatggga gggattggtt
1021 tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca gcatcaacac
1081 tcagggcttg taaagatctt ggtgcctatg gcttagagat actcaaattg gtcatgaagt
1141 ggttcttccc aaagaaagag gaggccaatg 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 cagcggccag gtcattagtc cacagggcca aggaagagct gtctagcagg ataagaccag
1441 tagttgttat gatatctggc aaaccaggaa taggcaaaac tcatctggcc agagaggtgg
1501 cgaggaaggt ggcatccact ctcacagggg atcaaagagt cggactcata ccaagaaacg
1561 gtgtggacca ttgggatgca tacaaaggtg agagagtcgt gctgtgggac gactatggca
1621 tgagtaaccc cattcatgat gcccttcgca tacaagaatt ggctgatacg tgtcccctca
1681 ccttaaattg tgacagaatt gaaaataagg gaaaagtttt tgacagtgaa gtcataataa
1741 ttacaacaaa ccttgccaac ccagccccac ttgattatgt caactttgag gcctgttcca
1801 ggagaattga cttcctggtg tacgctgagg caccagaagt agaaaaggca aaacgggatt
1861 ttcctggtca gccagatatg tggaaggacg ccttcaagcc ggacttttca cacatcaagc
1921 tacagcttgc acctcagggc ggctttgaca agaatggcaa cactccacat gggaaaggag
1981 tgatgaagac cctcactacc ggttctctga ttgcccgtgc atcaggccta ctgcatgaga
2041 ggatggatga atttgaactc caaggcccca caatcaccac tttcaatttc gaccggaaca
2101 gaatcacagc attcagacaa ttggctgcag aaaacaagta tggattggtg gataccatga
2161 aagttggcaa tcaactaaaa ggagtgaaaa ccatggaaga actcaaacaa gcaatcagga
2221 atgtgaccat caagaggtgc cggatcatct acggtggctc cacgtatgac cttgaatctg
2281 atggcaaggg caaggttttg gtggaaaagg tcaagaacac ctctgtacag accaacaacg
2341 agttggccgg ggccctgcac catcttaaac acgcccgaat caggtactat gtcaaatgtg
2401 tgcaagaagc agtctattcc atcatacaaa ttgccggcgc tgcgtttgtc accacgcgca
2461 ttgcgcgccg catgaacata caagaactct ggtcgaagcc acaattagat caaaatgaat
2521 cagagactaa 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 tactatgagg
2761 agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag atcaaaattc
2821 gtcagagaat tttccgtccc accaggaaac aaagaaagga agagagggcc acattagggc
2881 tggtaacagg ttcagaaatc agaaaaagaa accctgatga tttcaaaccc aaagggaagc
2941 tgtgggccga tgacaacaga agtgttgact acaatgagaa actggacttt gaggcccccc
3001 caagcatatg gtctaggatt gtgagctttg gttctggctg gggcttctgg gtatcaccaa
3061 gcctgttcat aacatcaact catgtaatcc ccgcaggcat aacagaagca tttggagtcc
3121 ccatcaaaca aattcagatc cacaaatcag gtgaattttg ccgattcaga ttcccaaaac
3181 caattagacc agatgtgaca ggaatgatct tggaagaagg tgcgcctgaa ggcaccgtgg
3241 caactgtgct catcaaacgc cccaccggag agctcatgcc ccttgcagcc agaatgggaa
3301 cacacgcaac catgaagatt caaggccgca tggttggcgg acagatgggt atgttgctca
3361 ctggatcaaa tgctaaagga atggatttgg gaacaactcc tggtgactgt ggctgccctt
3421 acatctataa aaggggcaat gactatatag tcattggggt gcacactgca gcagcccgtg
3481 gtggaaacac cgtcatctgt gccacacagg gaagtgaggg tgaggcaact cttgagggtg
3541 gagatgacaa aggaacatac tgtggggcac ccattctagg ccctgggggt gcaccaaaat
3601 tgagcaccaa aacaaaattt tggaggtcat cgaacacgcc ccttccacca gggacatatg
3661 agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccctcc ttacagcagg
3721 taatgagaga ccagttgaag ccattcactg aacccagggg caaacctcca agaccaagtg
3781 ttttggaagc agccaaacaa accattatca atgtcctcga acaaaccctg gatcctccac
3841 aaaaatggac atatgcacag gcgtgtgcct cacttgacaa aaccacctcc agcgggcatc
3901 cccatcacgt ccgaaagaat gaattctgga atggtgaggc cttcactggt aaattggcag
3961 accaagcatc aaaagcaaac ctaatgtttg aggaagggaa acacatgaca ccagtgtata
4021 cagcagcact caaggacgag ctagtcaaga ctgagaaaat ctatggaaag atcaagaaga
4081 gactgctctg gggctctgac ttgtccacca tgatccggtg cgctaggtca tttggtgggc
4141 tcatggacga gatgaaggca cactgcatat cactcccagt acgagttggc atgaatatga
4201 atgaagatgg cccaataata tttgagaaac actccagata caagtaccac tatgatgcag
4261 actactctcg ttgggattca acgcaacaga gggcagtact agcggcagcc ttggaaatca
4321 tggtcagatt ctctgcagaa ccacaattgg cacaaatagt cgctgaggat ctactggccc
4381 ctagtgtagt agatgtagga gactttaaaa tcacaataaa tgaagggctc ccatctggtg
4441 tgccttgcac ttctcaatgg aactccatcg cacactggct gctaactctc tgtgccttgt
4501 ctgaagtcac caaactgtcc cctgacatta tacaagcaaa ttccatgttc tcattttacg
4561 gtgatgacga gattgtcagc accgacataa aattggaccc tgaacagtta accgccaagt
4621 tgaaggagta cggcctgaaa ccaacccgcc cagacaagac cgagggaccc ctgatcatca
4681 gtgaagattt gaacggactc actttcctcc gaaggacggt gactcgtgac ccagctggct
4741 ggtttggaaa actggaccaa agttcaattt tgaggcagat gtactggact agaggaccaa
4801 atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata cagctcatgg
4861 cactgcttgg tgaagcctct cttcacggac cctctttcta cagtagaatc agtaaattgg
4921 tcataactga acttaaagaa ggtgggatgg acttttacgt gccaaggcag gaacccatgt
4981 tcaggtggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat ctggctccca
5041 attttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtaccag aggtcagcaa tgaggttatg gctttggagc ccgttgttgg tgccgctatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaca taattttgta
5221 caagcccctg gtggggagtt tacagtatcc cctagaaatg ctccaggtga aatactatgg
5281 agcgcgcccc taggccctga cctaaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aagattatat ttgcagcagt cccaccaaat tttccaactg aaggcttaag tcctagccag
5461 gtcactatgt tcccccatat aatagtagat gttagacaat tagaacctgt gctgattccc
5521 ttacccgatg ttaggaataa tttctatcac tacaatcagt caaatgattc cactattaag
5581 ttgatagcaa tgttgtacac accacttagg gctaataatg ctggggatga tgttttcaca
5641 gtttcgtgcc gagttctcac gagaccatcc cccgattttg atttcatatt tttagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttaactgt tgaggagatg
5761 accaattcaa gattccccat ccctttggaa aagttgttca caggtcccag cagtgccttt
5821 gttgttcaac cacaaaacgg cagatgcaca actgatggcg tgctcctagg caccacccaa
5881 ctttctcctg tcaacatctg caccttcaga ggggatgtca cccacatcac aggtagtcgc
5941 aactacacaa tgaatttggc ttctcaaaat tggaacaact atgacccaac agaagaaatc
6001 ccagcccctc taggaactcc agattttgtg gggaagattc aaggcatgct cactcaaacc
6061 acaaggacag atggttcaac acgcggccac aaagctacag tgtacactgg gagcgccgac
6121 tttgctccaa aactgggtag agttcaattt gaaactgaca cagaccatga ttttgaagtt
6181 aatcaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac cacccaccga
6241 aacgaacccc aacagtgggt gctcccaagt tactcaggca gaaatactca caatgtacat
6301 ttggcccccg ctgtagcccc cacctttccg ggcgagcaac ttctcttctt cagatccact
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctgctccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagctcca gcacaatctg atgtggctct actaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgcaagc ttcacaaatc aggctatgtt
6541 acagtggctc acactggcca acatgatttg gttatccccc ccaatggtta ctttaggttt
6601 gattcctggg ttaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcagtat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa
6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatttgcaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc caccaaaaag ctacaacagg
6901 aaatgatgaa agttaagcag gcaatgctcc tagagggtgg gttctctgag acagatgcag
6961 cccgcggggc aattaacgcc cccatgacaa aagctttgga ctggagcggg acaaggtact
7021 gggctccaga tgctagaatt acaacataca atgcaggcca cttttccacc cctcaaccat
7081 cgggggcact gccaggaaga gctaatctta gggatgctgt ccctgctcgg ggaccctcca
7141 ccaaatcttc taactcttct actgccaact ctgtgtactc aaatcaaact atttcaacga
7201 gacttggttc tacagctggt tctggaacca gtgtctcgag cctcccgtca actgcaagga
7261 ctaggagctg ggttgaggat caaaacagga atttgtcacc tttcatgagg ggggcccata
7321 acatatcatt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga aattttggac tcctggactg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacgt tcgtaagcga ggggagtcac gggtgtaatg tgaaaagaca aaactgatta
7501 ttttcttttt atttttcttt
//