Typing tool
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Typing tool
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Complete norovirus genomes
| MW305623 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305623 7521 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate Arg12866 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305623
VERSION MW305623.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7521)
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JOURNAL Unpublished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 7521)
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..7521
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Arg12866"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Argentina"
/collection_date="2014"
/note="genotype: GII.4[GII.P31]"
gene <1..5069
/gene="ORF1"
CDS <1..5069
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QPJ59205.1"
/translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEIPPR
PPRPPTPELVKKIPPPPPNGEDELVVSYSAKNGVSGLPELTTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDTKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLLLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIA
IKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCLKPKDDEEFVV
SSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE
AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..959
/gene="ORF1"
/product="p48"
mat_peptide 960..2057
/gene="ORF1"
/product="NTPase"
mat_peptide 2058..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="QPJ59206.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHQNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
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="QPJ59207.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKVLDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGKANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacggt gtgttttcta
61 acatggctgt cacttttaaa cgggccctcg gggcgcggcc taaacagccg cccccgaagg
121 agataccacc cagacccccg cgaccaccca caccagaatt agtcaaaaag atccctcctc
181 ccccacccaa cggggaggat gaactagtgg tctcttacag cgccaaaaat ggcgtttccg
241 gactgcctga gctcaccact gtcagacaac cggaagaaac caacacggcg ttcagtgtcc
301 ccccactcaa ccaaagggag agcagggacg ccaaggagcc actaactgga acaattattg
361 aaatgtggga tggagaaatc taccattacg gcctgtacgt ggaacgaggt cttgtacttg
421 gtgtgcacaa gccaccggca gccatcagcc ttgccaaggt cgagctaaca ccgctctctt
481 tgttctggag acctgtatac accccccagt atctcatctc tccagacact cttaggagat
541 tacatggaga gtcattcccc tacactgcat ttgacaacaa ttgctacgcc ttttgttgtt
601 gggtattaga cctaaacgac tcatggctaa gcaggagaat gattcagaga acaacaggtt
661 tcttcaggcc gtaccaggat tggaacagga aacccctccc cactatggat gataccaaat
721 taaagaaggt agccaacata ttcttgtgta ctttgtcttc actgttcacc agacccatta
781 aggacataat agggaagttg aaacctctta acatccttaa cattctggct acatgtgatt
841 ggaccttcgc aggcatagtg gaatctttaa tactcttagc agaactcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgatcg cccccttgct aggtgattat gaactgcaag
961 gacctgagga ccttgcagtg gaactggtcc caatagtgat gggggggata ggtttggtgc
1021 taggatttac caaagagaaa attggaaaga tgctatcatc cgccgcatcc actttaagag
1081 cttgtaaaga ccttggtgca tacggactgg aaatcttaaa attggtcatg aagtggttct
1141 tcccaaagaa agaggaagca aatgaactgg ctatggtgag atccatcgag gatgcagtgc
1201 tagacctcga ggcaattgaa aacaaccaca tgaccaccct actcaaagac aaagacagct
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaaa ctctcaacca
1321 aatctgcttc acccgatatt gtgggcacaa tcaactctct tctggcaaga atcgctgctg
1381 cacgctccct agtgcatcgg gcgaaagaag agctttccag caggccgaga cctgtcgttg
1441 tgatgatatc gggaagacca gggataggga aaacccacct tgccagggaa ctggctaaga
1501 agatcgcggc ctcgctcaca ggggaccagc gtgtgggtct tatcccacgc aatggtgtcg
1561 atcactggga cgcatacaag ggcgaaagag ttgtcctatg ggacgactat ggaatgagca
1621 accccatcca tgatgccctc aggttgcagg agcttgctga cacttgcccc ctcacgctaa
1681 attgtgacag aattgagaac aaagggaaag tctttgacag tgatgccata attatcacta
1741 ccaatctggc caacccagca ccactggatt atgtcaactt tgaagcgtgc tcgagacgta
1801 ttgacttcct cgtgtacgca gaagcccctg aggtggagaa ggcaaagcgc gatttcccag
1861 gtcaacctga catgtggaag aacgctttca gtcctgactt ctcacacata aaactgttat
1921 tggctccaca gggtggtttt gacaagaacg gcaacacccc gcatggaaaa ggggtcatga
1981 agaccctcac cactggctcc ctcatcgccc gagcatcagg gctactccat gagaggctag
2041 atgaatatga actgcaaggc ccagccctca ccactttcaa cttcgaccgc aacaagatac
2101 ttgcttttag acagcttgct gctgaaaaca agtatgggct gatggacaca atgagagttg
2161 gaaaacagct caaggatgtc aagaccatgt cagacctcaa acaagcactc aagaacatcg
2221 cgatcaagaa gtgccagata gtgtacaatg gtagcaccta cacacttgag gccgatggca
2281 agggcagtgt gaaagttgac aaagtgcaaa gtgccactgt gcagaccaac aatgaactag
2341 ccggtgccct acaccaccta aggtgcgcta gaatcagata ctatgttaag tgcgtccagg
2401 aggcactgta ttccatcatc caaatcgctg gggctgcatt cgtcaccacg cgcatcgcta
2461 agcgcatgaa catacagaat ctctggtcta agccacaggt ggaagacaca gaagagatga
2521 ccaacaaaga tggttgccta aaacccaaag atgatgaaga atttgtcgtc tcatccgacg
2581 acatcaaaac cgagggcaag aaagggaaga acaagtccgg ccgcggcaag aagcacacag
2641 ccttttcaag caaagggctc agtgatgagg agtacgatga gtacaagaga atcagagaag
2701 agaggaatgg caagtactcc atagaagagt accttcagga cagagacagg tactacgagg
2761 aggtggccat tgccagggca accgaagagg acttctgtga agaagaagag gccaaaatcc
2821 ggcagagaat tttcagacca acaaggaaac aacgcaaaga agagagggcc tctctcggct
2881 tggtcacagg ctctgaaatc aggaagagaa acccagagga cttcaaaccc aagggaaagc
2941 tgtgggctga tgatgacaga agtgttgact acaatgagaa actcaacttt gaggccccac
3001 caagtatctg gtcgcggata gtcaactttg gttcaggctg gggcttctgg gtctctccca
3061 gtctgtttat aacatcaacc catgtcatac cccaaggtgc aaaagagttc ttcggagtcc
3121 ctatcaagca aatccagata cacaaatcag gtgaattctg ccggttgaga ttcccaaagc
3181 caatcagaac tgatgtgacg ggcatgattc tagaagaagg tgcgcccgag gggaccgtgg
3241 ccacactgct catcaagaga ccaactggag agctcatgcc tctggcagcc agaatgggga
3301 cccatgcaac catgaaaatt caggggcgca cagttggagg gcaaatgggc atgctcctga
3361 caggatccaa cgccaagagt atggacctag gcacaacacc aggcgactgc ggttgcccct
3421 acatttacaa gagggggaat gactacgtgg tcataggagt ccatacggcc gctgcccgtg
3481 gaggaaacac tgtcatatgt gccacccagg ggagtgaggg agaagccaca cttgaaggag
3541 gtgacagtaa agggacatac tgtggcgcac caatcttggg cccagggagc gctccgaagc
3601 tcagtaccaa gactaagttt tggaggtcat ccacaacacc actcccacct ggcacctacg
3661 aaccagccta cctcggtggc aaagacccca gagtcaaagg tggcccttca ttgcaacaag
3721 ttatgaggga ccagctaaag ccattcacag aacctagagg caaaccacca agaccaaatg
3781 tgttggaagc tgccaagaaa accattatca atgtccttga gcaaacaatt gatccacccc
3841 aaaaatggtc gtttgcgcaa gcttgcgcat cccttgataa aaccacctcc agcggccacc
3901 cgcaccacat gcggaaaaac gattgttgga atggggagtc cttcacagga aaattggctg
3961 atcaagcctc caaggccaac ctaatgtttg aagagggaaa gaacatgact ccagtctaca
4021 caggtgcact taaagatgag ttagtaaaga ccgataaagt ttatggcaag atcaagaaga
4081 ggcttttgtg gggttcagat ctggcaacca tgatacggtg cgcccgagct tttggaggcc
4141 ttatggatga actcaaggcg cactgtgtca cacttcctgt cagagttggt atgaacatga
4201 acgaggatgg ccccatcatc tttgagaagc actccagata tagataccac tatgatgctg
4261 attattcccg gtgggactca acacaacaaa gggatgtgct agcagcagca ctagaaatca
4321 tggttaagtt ctctccagaa ccacacctgg cccaggtagt tgcagaagac ctcctttccc
4381 ctagcgtaat ggatgtaggt gattttcaaa tatcaataag tgagggtctt ccctctgggg
4441 taccctgtac ctcccagtgg aattccatcg cccactggct cctcactctt tgtgcactct
4501 ctgaagtcac ggacctgtcc cccgacatca ttcaggccaa ctcccttttc tccttctatg
4561 gtgatgatga gattgtaagc acagacataa agttggaccc agaaaggctg acagcgaaac
4621 tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac tgaaggaccc cttgttatct
4681 ctgaagacct ggatggcctg acattcctcc ggagaactgt gacccgtgat ccagctggct
4741 ggtttggaaa attggaacaa agttcaattc tcagacaaat gtactggacc agaggtccca
4801 accatgaaga tccatttgaa acaatgatac cacactccca aagacccata caattgatgt
4861 ccctgctggg cgaggctgca ctccacggcc cggcatttta tagtaaaatt agcaaattag
4921 tcattgcaga gttgaaggaa ggtggcatgg atttttacgt gcccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgagtgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctctggagc ccgttgttgg tgccgccatt
5161 gcggcacctg tagcgggcca acaaaatgta attgacccct ggattagaaa caattttgta
5221 caagcccctg gtggagagtt tacagtatcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct tgggccctga tctaaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aaggtcatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag ccccagccaa
5461 gtcactatgt tcccccatat agtagtagat gttaggcaat tagaacctgt gttgattccc
5521 ttgcccgatg ttaggaataa tttctatcat tacaatcaat caaatgaccc cactatcaag
5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggggatga tgtcttcaca
5641 gtttcttgcc gagttctcac gagaccatcc cccgattttg atttcatatt tctagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttctaactgt tgaggagatg
5761 accaattcaa gattccccat tcccttggaa aagttgttca cgggtcccag cagtgccttt
5821 gttgtccaac cacaaaacgg caggtgcacg actgatggcg tgctcctagg caccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggagatgtca cccacatcac aggtagtcgc
5941 aactacacaa tgaatttggc ttcacaaaat tggaacaatt atgacccaac agaagaaatc
6001 ccagcccctc taggaactcc agactttgtg gggaagattc aaggcgtgct cacccaaacc
6061 acaaggacag atggctcaac acgcggccac aaagccacag tgtacactgg gagcgccgac
6121 tttgctccaa aactgggtag agttcaattt gaaactgaca cagaccatga ttttgaagct
6181 aaccaaaaca caaagttcac cccagtcggt gtcatccaag atggtagcac cacccaccaa
6241 aatgaacccc aacagtgggt gctcccaagt tactcaggca gaaatactca taatgtgcat
6301 ctggcccccg ctgtagcccc cacttttccg ggtgagcaac ttctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gatttggact gtctactccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg atgtggctct gctaagattt
6481 gtgaatccag acacaggtag ggttttgttt gagtgtaagc ttcataaatc aggctatgtc
6541 acagtggctc acactggcca acatgatttg gttattcccc ccaatggtta ttttagattt
6601 gattcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcagtat aatggctgga gctttctttg ctggattggc atctgatgtc cttggctctg
6721 gacttggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa
6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctacaa caggcttcct
6841 ttcaacatga caaagagatg ctccaagcac aaattgaggc caccaaaaag ctacaacagg
6901 aaatgatgaa agttaagcag gcaatgctcc tagagggtgg gttctctgag acagatgcag
6961 cccgcggggc aatcaacgcc cctatgacaa aagtcttgga ctggagcggg acaaggtact
7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccat
7081 cgggggcact gccaggaaaa gccaatctta gggatgctgt ccctgctcgg ggttcctcca
7141 gtaaatcttc taactcttct actgctactt ctgtgtactc aaatcaaact acttcaacga
7201 gacttggttc tacagctggt tctggtacca gtgtctcgag cctcccgtca actgcaagga
7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc tttcatgagg ggggcccaca
7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga ggttttggac tcctggactg gcgctttcaa cacgcgcagg cagccactct
7441 tcgctcacat tcgtaagcga ggggagtcac gggcgtaatg tgaaaagaca aaattgatta
7501 tctttctttt tctttagtgt c
//