Typing tool
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Typing tool
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Complete norovirus genomes
| MW305528 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS MW305528 7525 bp RNA linear VRL 06-JUL-2021
DEFINITION Norovirus GII isolate ONVHH2342 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305528
VERSION MW305528.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7525)
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JOURNAL Unpublished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 7525)
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..7525
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="ONVHH2342"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Peru"
/collection_date="29-Jan-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="QPJ58920.1"
/translation="AVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPPPKETPPR
PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGISGLPELTTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLRRLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIT
IKKCQIVYNGSTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMTNKDGCPKPKDDEEFVV
SSDDIRTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE
AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA
LEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
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="QPJ58921.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
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="QPJ58922.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQSQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLREAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 ccgctgttgc caacagcaac aacgacatcg caaaatcttc aagtgacggt atgttttcta
61 acatggctgt cacttttaag cgggccctcg gggcgcggcc taaacagccg cccccgaagg
121 aaacaccacc cagacccccg cgaccaccca caccagaatt ggtcaaaaag atccctcctc
181 ccccacccaa cggggaggat gaactagtgg tctcttacag cgccaaagat ggcatttccg
241 gactgcctga gctcaccact gtcagacaac cggaagaaac caacacggcg ttcagtgtcc
301 ccccactcaa ccaaagggag agcagggacg ccaaggagcc actaactgga acaattattg
361 aaatgtggga tggagaaatc taccattacg gcctgtacgt ggaacgaggt cttatacttg
421 gtgtgcacaa gccaccggca gccatcagcc ttgccaaggt cgagctaaca ccgctctctt
481 tgttctggag acctgtatac accccccagt atctcatctc tccagacact cttaggagat
541 tacatggaga gacattcccc tacactgcat ttgacaacaa ttgctacgcc ttttgttgtt
601 gggtattaga cctaaacgac tcatggctaa gcaggagaat gattcagaga acaacaggtt
661 tcttcaggcc gtaccaggat tggaacagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agccaacata ttcttgtgca ctttgtcttc acttttcacc agacccatta
781 aggacataat agggaagttg aaacctctta acatccttaa cattctggct acatgtgatt
841 ggaccttcgc aggcatagtg gaatctttaa tactcttagc agaactcttt ggagttttct
901 ggacaccccc agatgtgtct gcgatgatcg cccccctgct aggtgattat gaactgcaag
961 gacccgagga ccttgcagtg gaactggtcc caatagtgat gggggggata ggtttggtgc
1021 taggatttac caaagagaaa attggaaaga tgctatcatc cgctgcatcc actttaagag
1081 cttgtaaaga tcttggtgca tacggactgg aaattttaaa attggtcatg aagtggttct
1141 tcccaaagaa agaggaagca aacgaactgg ctatggtgag atccatcgag gatgcagtgc
1201 tagacctcga ggcaatcgaa aacaaccata tgaccaccct actcaaagac aaagacagct
1261 tggcaaccta catgagaacc cttgaccttg aggaggagaa agccagaaaa ctctcaacca
1321 aatctgcctc acccgacatt gtgggcacaa tcaactctct cctggcaaga atcgctgctg
1381 cacgctccct agtgcatcgg gcgaaagaag agctctccag caggccgaga cctgtcgttg
1441 tgatgatatc gggaagacca gggataggga aaactcacct tgctagggag ctggccaaga
1501 agatcgcggc ctccctcaca ggggaccagc gtgtgggtct tatcccacgc aatggtgtcg
1561 atcactggga cgcatacaag ggcgaaagag ttgtcctatg ggacgactat ggaatgagca
1621 accccatcca tgatgccctc aggctgcagg aacttgctga cacttgcccc ctcacgctaa
1681 attgtgacag aatcgagaac aaagggaaag tctttgacag tgatgccata attatcacca
1741 ccaatctggc caacccagca ccactggatt atgtcaactt tgaagcgtgc tcgagacgta
1801 ttgacttcct cgtgtacgca gaagcccctg aggtggagaa ggcaaagcgc gacttcccag
1861 gtcaacctga catgtggaag aacgctttca gtcctgactt ctcacacata aaactgtcac
1921 tggctccaca gggtggtttt gacaagaacg gcaacacccc gcatggaaaa ggggtcatga
1981 agaccctcac cactggctcc ctcatcgccc gagcatcagg gttactccat gagaggctag
2041 atgaatatga actgcaaggc ccagccctca ccactttcaa ctttgaccgc aacaagatac
2101 ttgcttttag acagcttgct gctgaaaaca agtatgggct gatggacaca atgagagttg
2161 gaaaacagct caaggatgtc aagaccatgt cagacctcaa acaagcactc aagaacatca
2221 cgatcaagaa gtgccagata gtgtacaatg gtagcaccta cacacttgag gccgatggca
2281 agggtagtgt gaaagttgac aaagtgcaaa gtgccactgt gcagaccaac aatgaactag
2341 ccggtgccct acaccaccta aggtgcgcta ggatcagata ctatgttaag tgcgtccagg
2401 aggcactgta ctccatcatc caaatcgctg gggctgcatt tgtcaccacg cgcatcgcta
2461 agcgcatgaa tatacaaaat ctctggtcca agccacaggt ggaagacaca gaagagatga
2521 ccaacaaaga tggttgccca aaacccaaag atgatgaaga gtttgtcgtc tcatccgacg
2581 acatcagaac tgagggcaag aaagggaaga acaagtccgg ccgtggcaag aagcacacag
2641 ccttttcaag caaagggctc agtgatgagg agtacgatga gtacaagaga atcagagaag
2701 aaaggaatgg taagtactcc atagaagaat accttcagga cagagacagg tactacgagg
2761 aggtggccat cgccagggca accgaagagg acttctgtga agaagaagag gccaaaatcc
2821 ggcagaggat ttttagacca acaaggaaac aacgcaaaga agagagggcc tctcttggct
2881 tggtcacagg ctctgaaatc aggaagagaa atccagaaga cttcaaaccc aagggaaagc
2941 tgtgggctga tgatgacaga agtgttgact ataacgagaa actcaacttt gaggccccac
3001 caagcatttg gtcgcggata gtcaactttg gttcaggctg gggcttctgg gtctccccca
3061 gtctgtttat aacatcaacc catgtcatac cccaaggtgc aaaagagttc ttcggagtcc
3121 ctatcaagca aatccagata cataaatcag gtgagttctg ccggttgaga ttcccaaagc
3181 caatcagaac tgatgtgacg ggcatgattc tagaagaagg tgcgcccgag gggaccgtgg
3241 ccacactgct catcaagaga ccaactggag agctcatgcc tctggcagcc agaatgggga
3301 cccatgcaac catgaaaatt caggggcgca cagttggagg gcaaatgggt atgctcctga
3361 caggatccaa cgccaagagt atggacctag gtacaacacc aggcgactgc ggctgcccct
3421 acatctacaa gagggggaat gactacgtag tcataggagt ccatacggcc gctgcccgtg
3481 gaggaaacac tgtcatatgt gccacccagg ggagtgaggg agaagccaca cttgaaggag
3541 gtgacagtaa agggacatac tgtggcgctc caatcttggg cccagggagc gctccgaagc
3601 tcagtaccaa gactaagttt tggagatcat ccacaacacc actcccacct ggcacctacg
3661 aaccagccta cctcggtggc aaagacccca gagtcaaagg tggtccttca ttgcaacaag
3721 ttatgaggga ccagctaaag ccattcacag aacccagagg caaaccacca agaccaaatg
3781 tgttggaagc tgccaagaaa accatcatta atgtccttga gcaaacaatt gacccacccc
3841 aaaaatggtc attcgcgcag gcttgcgcat cccttgacaa gaccacctcc agcggccacc
3901 cgcaccacat gcggaaaaac gattgttgga atggggagtc cttcacagga aaattggctg
3961 atcaagcctc caaggccaac ctaatgtttg aggagggaaa gaacatgact ccagtctaca
4021 caggtgcact taaagatgag ttggtaaaga ccgataaagt ttatggtaag atcaagaaga
4081 ggcttctgtg gggttcagat ctggcgacca tgatacggtg cgcccgagct tttggaggcc
4141 ttatggatga actcaaggcg cactgtgtca cacttcctgt cagagttggt atgaacatga
4201 atgaggatgg ccccatcatc tttgagaagc actccagata tagatatcac tatgatgctg
4261 attattcccg gtgggactca acacaacaaa gggatgtgct agcagcagca ctagaaatca
4321 tggtcaagtt ctctccagaa ccacacctgg cccaggtagt tgcagaagac ctcctttccc
4381 ctagcgtaat ggatgtaggt gactttcaaa tatcaataag tgagggtctt ccctctgggg
4441 taccttgtac ctcccagtgg aattccatcg cccactggct cctcactctt tgtgcactct
4501 ctgaagtcac ggacctgtcc cctgacatca ttcaggccaa ctcccttttc tccttctatg
4561 gtgatgatga gattgtgagc acagacataa agttggaccc agagaagctg acggcaaaac
4621 tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac tgaaggaccc cttgttatct
4681 ctgaagacct ggatggcctg acattcctcc ggagaactgt gacccgtgat ccagctggct
4741 ggtttggaaa attggaacaa agttcaattc tcagacaaat gtactggacc aggggtccca
4801 accatgaaga tccatttgaa acaatgatac cacactccca aagacccata caattgatgt
4861 ccttgctggg cgaggctgca ctccacggcc cggcatttta tagcaaaatt 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 taattttgta
5221 caagcccctg gtggagagtt tacagtgtcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct tgggccctga tctgaatccc tacctatccc atttggccag aatgtacaat
5341 ggttatgcag gtggttttga agtgcaggta attctcgcgg ggaacgcgtt caccgccggg
5401 aaggtcatat ttgcagcagt cccaccaaat tttccaactg aaggcctgag ccccagccag
5461 gtcactatgt tcccccacat agtagtagat gttaggcaac tagaacctgt gttgattccc
5521 ttacccgatg tcaggaacaa tttctatcat tacaatcaat caaatgaccc caccattaag
5581 ttgatagcaa tgttgtatac accacttagg gctaacaatg ctggggatga tgtcttcaca
5641 gtttcttgcc gagttctcac gagaccatcc cctgactttg atttcatatt tctagtgcca
5701 cccacagttg agtcaagaac taaaccattc tctgtcccag ttttaactgt tgaggagatg
5761 accaattcaa gattccccat tcctttggaa aagctgttca cgggtcctag cagtgccttt
5821 gttgtccaac cacaaaacgg caggtgcacg actgatggcg tgctcctagg caccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggagatgtca cccacatcac aggtagtcgt
5941 aactacacaa tgaatttggc ttctcaaaat tggaacaatt atgacccaac agaagaaatc
6001 ccagcccctc taggaacccc agactttgtg gggaagattc aaggcgtgct cacccaaacc
6061 acaaggacag atggctcaac acgcggccac aaagccacag tgtacactgg gagcgccgac
6121 tttgctccaa aactgggtag agttcaattt gaaactgaca cagaccatga ttttgaagct
6181 aaccaaaaca caaagttcac cccagtcggc gtcatccaag atggtagcac cacccaccga
6241 aatgaacccc aacagtgggt actcccaagt tactcaggca gaaatactca taatgtgcat
6301 ctggcccccg ctgtagcccc tacttttccg ggtgagcaac ttctcttctt cagatccacc
6361 atgcccggat gcagcgggta ccccaacatg gacttggact gtctgctccc ccaggaatgg
6421 gtgcagtact tctaccaaga ggcagcccca gcacaatctg atgtggctct gctaaggttt
6481 gtgaatccag acacaggtag ggttttgttt gagtgtaagc ttcataaatc aggctatgtt
6541 acagtggctc acactggcca acatgatttg gttattcccc ccaatggtta ttttagattt
6601 gattcctggg tcaaccagtt ctacacgctt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgcagtat aatggctgga gctttctttg ctggattggc atctgatgtt cttggctctg
6721 gacttggttc ccttatcaat gctggggctg gggccatcaa ccaaaaagtt gagtttgaaa
6781 ataacagaaa attgcaacaa gcatccttcc aatttagcag caatctacag caggcttcct
6841 tccaacatga caaagagatg ctccaatcac aaattgaagc caccaaaaag ttacaacagg
6901 aaatgatgaa agttaagcag gcaatgcttc tagagggtgg gttctctgag acggatgcag
6961 cccgcggggc aatcaacgcc cccatgacaa aagctttgga ctggagcggg acaaggtact
7021 gggctcccga tgctaggact acaacataca atgcaggccg cttttccacc cctcaaccat
7081 cgggggcatt gccaggaaga gctaatctta gggaagctgt ccctgctcgg ggttcctcca
7141 gtaaatcttc taattcttct actgctactt ctgtgtactc aaatcaaact acttcaacga
7201 gacttggttc tacagctggt tctggtacca gtgtctcgag cctcccgtca actgcgagga
7261 ctaggagctg ggttgaggat caaagtagga atttgtcacc ttttatgagg ggggcccaca
7321 acatatcgtt tgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctaaaga gattttggac tcctggactg gcgctttcaa cacgcgcagg cagccactct
7441 tcgctcacat tcgtaagcga ggggagtcac gggcgtaatg tgaaaagaca aaattgattg
7501 tttttctttt tctttagtgt ctttt
//