Typing tool
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Typing tool
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Complete norovirus genomes
| MW305680 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5068
ORF2: 5049..6671
ORF3: 6671..7477
LOCUS MW305680 7492 bp RNA linear VRL 18-JUL-2024
DEFINITION Norovirus GII isolate 11632-c2 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MW305680
VERSION MW305680.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7492)
AUTHORS Tohma,K., Lepore,C.J., Martinez,M., Degiuseppe,J.I., Khamrin,P.,
Saito,M., Mayta,H., Nwaba,A.U.A., Ford-Siltz,L.A., Green,K.Y.,
Galeano,M.E., Zimic,M., Stupka,J.A., Gilman,R.H., Maneekarn,N.,
Ushijima,H. and Parra,G.I.
TITLE Genome-wide analyses of human noroviruses provide insights on
evolutionary dynamics and evidence of coexisting viral populations
evolving under recombination constraints
JOURNAL PLoS Pathog 17 (7), e1009744 (2021)
PUBMED 34255807
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7492)
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..7492
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="11632-c2"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan"
/collection_date="15-May-2013"
/note="genotype: GII.4[GII.P31]"
gene <1..5068
/gene="ORF1"
CDS <1..5068
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QPJ59376.1"
/translation="AVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKETPPR
PPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELAPLSL
FWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILA
TCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEY
ELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIA
IKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEEFVV
SSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGGAPKLSTKT
KFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLE
AAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAA
LEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIP
HSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
mat_peptide <1..958
/gene="ORF1"
/product="p48"
mat_peptide 959..2056
/gene="ORF1"
/product="NTPase"
mat_peptide 2057..2593
/gene="ORF1"
/product="p22"
mat_peptide 2594..2992
/gene="ORF1"
/product="VPg"
mat_peptide 2993..3535
/gene="ORF1"
/product="Pro"
mat_peptide 3536..5065
/gene="ORF1"
/product="RdRp"
gene 5049..6671
/gene="ORF2"
CDS 5049..6671
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QPJ59377.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFETNQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6671..7477
/gene="ORF3"
CDS 6671..7477
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QPJ59378.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTAYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRA"
ORIGIN
1 cgctgttgcc aacagcaaca acgacatcgc aaaatcttca agtgacggtg tgttttctaa
61 catggctgtc acttttaagc gggccctcgg ggcgcggcct aaacagccgc ccccgaagga
121 aacaccaccc agacccccgc gaccacccac accagaattg gtcaaaaaga tccctcctcc
181 cccacccaac ggggaggatg aactagtggt ctcttacagc gccaaagatg gcgtttccgg
241 actgcctgag ctcaccactg tcagacaacc ggaagaaacc aacacggcgt tcagtgtccc
301 cccactcaac caaagggaga gcagggacgc caaggagcca ctaactggaa caatcattga
361 aatgtgggat ggagaaatct accattacgg cctgtacgtg gaacgaggtc ttatacttgg
421 tgtgcacaag ccaccggcag ccattagcct tgccaaggtc gagctagcac cgctctcttt
481 gttctggaga cctgtataca ccccccagta tctcatctct ccagacactc ttaggagatt
541 acatggagag tcattcccct acactgcatt tgacaacaat tgctacgcct tttgttgttg
601 ggtattagac ctaaacgact catggctaag caggagaatg attcagagaa caacaggttt
661 cttcaggccg taccaggatt ggaacaggaa acccctcccc actatggatg attccaaatt
721 aaagaaggta gccaacatat tcttgtgcac tttgtcttca ctattcacca gacccattaa
781 ggacataata gggaagttga aacctcttaa catccttaac attctggcta catgtgattg
841 gaccttcgca ggcatagtgg aatccttaat actcttggca gaactctttg gagttttctg
901 gacaccccca gatgtgtctg cgatgatcgc ccccttgcta ggtgattatg aactgcaagg
961 acctgaggac cttgcagtgg aactggtccc aatagtgatg ggggggatag gtttggtgct
1021 aggatttacc aaagagaaaa tcggaaagat gctatcgtct gctgcatcca ctttaagagc
1081 ttgtaaagac cttggtgcat acggactgga aatcttaaaa ttggtcatga agtggttctt
1141 cccaaagaaa gaggaagcaa atgaactggc tatggtgaga tccatcgagg atgcagtgct
1201 agacctcgag gcaattgaga acaaccacat gaccacccta ctcaaagaca aagacagctt
1261 ggcaacctac atgagaaccc ttgaccttga ggaggagaaa gccagaaaac tctcaaccaa
1321 atctgcttca cccgatattg tgggcacaat caactctctt ctggcaagaa tcgctgctgc
1381 acgctcccta gtgcatcggg cgaaagaaga gctctccagc aggccgagac ctgtcgttgt
1441 gatgatatcg ggaagaccag ggatagggaa aactcacctt gccagggagc tggccaagaa
1501 gatcgcggcc tccctcacag gggaccagcg tgtgggtctt atcccacgca atggtgtcga
1561 ccactgggac gcatacaagg gcgaaagagt tgtcctatgg gacgactatg gaatgagcaa
1621 ccccatccat gatgccctca ggttgcagga gcttgctgac acttgccccc tcacactaaa
1681 ttgtgacaga attgagaaca aagggaaagt ctttgacagt gatgccataa ttatcaccac
1741 caatctggcc aacccagcac cactggatta tgtcaacttt gaagcgtgct cgagacgcat
1801 tgatttcctc gtgtacgcag aagcccctga ggtggagaag gcaaagcgcg acttcccagg
1861 tcaacctgac atgtggaaga acgctttcag tcctgacttc tcacacataa aactgtcatt
1921 ggctccacag ggtggttttg acaagaacgg caacaccccg catggaaaag gggtcatgaa
1981 gaccctcacc actggctccc tcatcgcccg agcatcaggg ttactccatg agaggctaga
2041 tgaatatgaa ctgcaaggcc cagccctcac cactttcaac tttgaccgca acaagatact
2101 tgcttttaga cagcttgctg ctgaaaacaa gtatgggctg atggacacaa tgagagttgg
2161 aaaacagctc aaggatgtca agaccatgtc agacctcaaa caagcactca agaacatcgc
2221 gatcaagaag tgccagatag tgtacaatgg tggcacctac acacttgagg ctgatggcaa
2281 gggtagtgtg aaagttgaca aagtacaaag tgccactgtg cagaccaaca atgaactagc
2341 cggtgcccta caccacctaa ggtgcgctag aatcagatac tatgttaagt gcgtccagga
2401 ggcactgtat tccatcatcc aaatcgctgg ggctgcattc gtcaccacgc gcatcgctaa
2461 gcgcatgaat atacagaatc tctggtccaa gccacaggtg gaagacacag aagagatggc
2521 caacaaagat ggttgcctaa aacccaaaga tgatgaagag tttgtcgtct catccgacga
2581 catcaaaact gagggcaaga aagggaagaa caagtccggc cgtggcaaga agcacacagc
2641 cttttcaagc aaagggctca gtgatgagga gtacgatgag tacaagagaa tcagagaaga
2701 aaggaatggt aagtactcca tagaagagta ccttcaggac agagacaggt actacgagga
2761 ggtggccatt gccagggcaa ccgaagagga cttctgtgaa gaagaagagg ccaaaatccg
2821 gcagagaatt ttcagaccaa caaggaaaca acgcaaagaa gagagggcct ctctcggctt
2881 ggtcacaggc tctgaaatca ggaagagaaa cccagaagac ttcaaaccca agggaaagct
2941 gtgggctgat gatgacagaa gtgttgacta caatgagaaa ctcaactttg aggccccacc
3001 aagcatctgg tcgcggatag tcaactttgg ttcaggctgg ggcttctggg tctcccccag
3061 tctgtttata acatcaaccc atgtcatacc ccaaggtgca aaagagttct tcggagtccc
3121 tatcaagcaa atccagatac acaaatcagg tgaattctgc cggttgagat tcccaaagcc
3181 gatcagaact gatgtgacgg gcatgattct agaagaaggt gcgcccgagg ggaccgtggc
3241 cacactgctc atcaagagac caactggaga gctcatgcct ctggcagcca gaatggggac
3301 ccatgcaacc atgaaaattc aggggcgcac agttggaggg caaatgggta tgctcctgac
3361 aggatccaac gccaagagta tggacctagg cacaacacca ggcgactgcg gctgccccta
3421 catctacaag agggggaatg actacgtggt cataggagtc catacggccg ctgcccgtgg
3481 aggaaacact gtcatatgtg ccacccaggg gagtgaggga gaagccacac ttgaaggagg
3541 tgacagtaaa gggacatact gtggcgcacc aatcttgggc ccagggggcg ctccaaagct
3601 cagtaccaag actaagtttt ggagatcatc cacaacacca ctcccacctg gcacctacga
3661 accagcctac ctcggtggca aagaccctag agtcaaaggt ggcccttcat tgcaacaagt
3721 tatgagggac cagctgaagc cattcacaga acccagaggc aaaccaccaa gaccaaatgt
3781 gttggaagct gccaagaaaa ccatcatcaa tgtccttgag caaacaattg atccacccca
3841 aaaatggtca tttgcgcaag cttgcgcatc ccttgacaaa accacctcca gcggccaccc
3901 gcaccacatg cggaaaaacg actgttggaa tggggagtcc ttcacaggaa aattggctga
3961 tcaagcctcc aaggccaacc taatgtttga agagggaaag aacatgactc cagtctacac
4021 aggtgcactt aaagatgagt tggtaaagac cgataaagtt tatggtaagg tcaagaagag
4081 gcttctgtgg ggttcagatc tggcgaccat gatacggtgc gcccgagctt ttggaggcct
4141 tatggatgaa ctcaaggcac actgtgtcac acttcctgtc agggttggta tgaacatgaa
4201 tgaggatggc cccatcatct ttgagaagca ctccagatat agatatcatt atgatgctga
4261 ttattcccgg tgggactcaa cacaacaaag ggatgtgcta gcagcagcac tagaaatcat
4321 ggttaagttc tctccagaac cacacctggc ccagatagtt gcagaagacc tcctttcccc
4381 tagcgtaatg gatgtaggtg actttcaaat atcaataagt gagggtctcc cctctggggt
4441 accttgtacc tcccagtgga attccatcgc ccactggctc ctcactctgt gtgcactctc
4501 tgaagtcacg gacctgtccc ctgatatcat tcaggccaac tcccttttct ccttctatgg
4561 tgatgatgag attgtaagca cagacataaa gttggaccca gagaagctga cagcaaaact
4621 caaggagtac gggctgaaac caacccgccc cgacaaaact gaaggacccc ttgttatctc
4681 tgaagacctg gatggcctga cattcctccg gagaactgtg acccgtgatc cagctggctg
4741 gtttggaaaa ttggaacaaa gttcaattct caggcaaatg tactggacca ggggtcccaa
4801 ccatgaagac ccatttgaaa caatgatacc acactcccaa agacccatac aattgatgtc
4861 cttgctgggc gaggctgcac tccacggccc ggcattctat agcaaaatta gcaaattagt
4921 cattgcagag ttgaaggaag gtggcatgga tttttacgtg cccagacaag agccaatgtt
4981 cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc tggctcccag
5041 ttttgtgaat gaagatggcg tcgagtgacg ccaacccatc tgatgggtcc gcagccaacc
5101 tcgtcccaga ggtcaacaat gaggttatgg ctctggagcc cgttgttggt gccgccattg
5161 cggcacctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac
5221 aagcccctgg tggagagttt acagtatccc ctagaaacgc tccaggtgaa atactatgga
5281 gcgcgccctt gggccctgat ctaaatccct acctatccca tttggccaga atgtacaatg
5341 gttatgcagg tggttttgaa gtgcaggtaa ttctcgcggg gaacgcgttc accgccggga
5401 aggtcatatt tgcagcagtc ccaccaaatt ttccaactga aggcttgagc cccagccagg
5461 tcactatgtt cccccatata gtagtagatg ttaggcaact agaacctgtg ttgattccct
5521 tacccgatgt taggaataat ttctaccatt acaatcaatc aaatgacccc actattaagt
5581 tgatagcaat gttgtataca ccacttaggg ctaataatgc tggggatgat gtcttcacag
5641 tttcttgccg agttctcacg agaccatccc ccgattttga tttcatattt ctagtgccac
5701 ccacagttga gtcaagaact aaaccattct ctgtcccagt tttaactgtt gaggagatga
5761 ccaattcaag attccccatt cctttggaaa agttgttcac gggtcccagc agtgcctttg
5821 ttgtccaacc acaaaacggt aggtgcacga ctgatggcgt gctcctaggc accacccaac
5881 tgtctcctgt caacatctgc accttcagag gagatgtcac ccatatcaca ggtagtcata
5941 actacacaat gaatttggct tctcaaaatt ggaacaatta tgacccaaca gaagaaatcc
6001 cagcccctct aggaactcca gattttgtgg ggaagattca aggcgtgctc acccaaacca
6061 caaggacaga tggctcaaca cgcggccaca aagctacagt gtacactggg agcgccgatt
6121 ttgctccaaa actgggtaga gttcaatttg aaactgacac agaccatgac tttgaaacta
6181 accaaaacac aaagttcacc ccagttggtg tcatccaaga tggtggcacc acccaccgaa
6241 atgaacccca acagtgggtg ctcccaagtt actcaggcag aaatactcct aatgtgcatc
6301 tggcccccgc tgtagccccc acttttccgg gtgagcaact tctcttcttc agatccacca
6361 tgcccggatg cagcgggtac cccaacatgg atttggactg tctgctcccc caggaatggg
6421 tgcagtactt ctaccaagag gcagccccag cacaatctga tgtggctctg ctaagatttg
6481 tgaatccaga cacaggtagg gttttgtttg agtgtaagct tcataaatca ggctatgtta
6541 cagtggctca cactggtcaa catgatttgg ttatcccccc caatggttat tttaggtttg
6601 attcctgggt caaccagttt tacacgcttg cccccatggg aaatggaacg gggcgtagac
6661 gtgcactata atggctggag ctttctttgc tggattggca tctgatgtcc ttggctctgg
6721 acttggttcc cttatcaatg ctggggctgg ggccatcaac caaaaagttg agtttgaaaa
6781 taacagaaaa ttgcaacaag catccttcca atttagcagc aatctacaac aggcttcctt
6841 tcaacatgac aaagagatgc tccaagcaca aattgaggcc accaaaaggc tacaacagga
6901 aatgatgaaa gttaagcagg caatgctcct agagggtggg ttctctgaga cagatgcagc
6961 ccgcggggca atcaacgccc ccatgacaaa agctttggac tggagcggga caaggtactg
7021 ggctcccgat gctaggacta cagcatacaa tgcaggccgc ttttccaccc ctcaaccatc
7081 gggggcactg ccaggaagag ctaatcttag ggatgctgtc cctgctcggg gttcctccag
7141 caagtcttct aattcttcta ctgctacttc tgtgtactca aatcaaacta cttcaacgag
7201 acttggttct acagctggtt ctggtaccag tgtctcgagc ttcccgtcaa ctgcaaggac
7261 taggagctgg gttgaggatc aaagtaggaa tttgtcacct ttcatgaggg gggcccacaa
7321 catatcgttt gtcaccccac catctagcag atcctctagc caaggcacag tctcaaccgt
7381 gcctaaagag attttggact cctggactgg cgctttcaac acgcgcaggc agccactctt
7441 cgctcacatt cgtaagcgag gggagtcacg ggcgtaatgt gaaaagacaa aa
//