Typing tool
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Typing tool
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Complete norovirus genomes
| LC699534 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS LC699534 7511 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/136/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699534
VERSION LC699534.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T.,
Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M.,
Suzuki,J. and Sadamasu,K.
TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney
[P31]
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7511)
AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R.,
Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E.,
Fujiwara,T., Miyake,H., Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (10-MAR-2022) Contact:Yu Yaoita Tokyo Metropolitan
Institute of Public Health, Department of Microbiology;
Hyakunincho3-24-1, Shinjyuku, Tokyo 169-0073, Japan URL
:http://www.tokyo-eiken.go.jp/
FEATURES Location/Qualifiers
source 1..7511
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/136/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2021-05"
gene <1..5090
/gene="POL"
CDS <1..5090
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDG75406.1"
/translation="SNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQPP
PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNT
AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV
ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS
PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK
QALKNIAIKKCQIVHNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK
DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE
IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT
LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PKPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDLATMI
RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL
KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHED
PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5071..6693
/gene="VP1"
CDS 5071..6693
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75407.1"
/translation="MKMASSDANPSDGPAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHTTGSHNYIMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6693..7499
/gene="VP2"
CDS 6693..7499
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75408.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 agtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc gcaaaatctt
61 caagtgacgg tgtgttatct agcatggctg tcacttttaa gcgggccctc ggggcgcggc
121 ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc acaccagaat
181 tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg gtctcttaca
241 gcgccaaaga tggcgtttcc ggactgcctg agcttaccac tgtcagacaa ccggaagaaa
301 ccaatacggc gttcagtgtc cccccactca accaaagaga gagcagagac gccaaggagc
361 cattaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac ggcctgtacg
421 tggagcgagg tcttatactt ggtgtgcaca agccaccagc agccatcagc ctcgccaagg
481 tcgagctggc accgctctct ttgttctgga gacctgtata caccccccag tacctcatct
541 ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca tttgacaaca
601 attgctacgc cttttgttgt tgggtattag acctaaacga ctcgtggcta agcaggagaa
661 tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg aaacccctcc
721 ctactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc actttgtctt
781 cactattcac cagacccatt aaggatataa tagggaagtt gaaacctctc aacatcctta
841 atattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta atactcttgg
901 cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttgc
961 taggtgatta tgaactgcaa ggacccgagg accttgcagt ggaactggtc ccaatagtga
1021 tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaag atgctgtcat
1081 ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg gaaatcttaa
1141 aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg gctatggtga
1201 gatccatcga ggatgcagtg ctagacctcg aggcaattga aaacaaccac atgaccactc
1261 tgctcaaaga caaagacagc ttgacaacct acatgagaac ccttgacctt gaggaggaga
1321 aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca atcaactctc
1381 ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa gagctctcca
1441 gcaggccgag acctgtcgtt gtaatgatat cgggaagacc agggataggg aaaactcacc
1501 ttgccaggga gctggccaag aagatcgcgg cctcccttac aggggaccag cgtgtgggcc
1561 ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga gttgtcctat
1621 gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcag gagcttgctg
1681 acacttgtcc cctcacgcta aattgtgaca gaattgagaa caagggaaaa gtctttgaca
1741 gtgatgccat aattatcacc accaacctgg ccaacccagc accactggat tatgtcaact
1801 ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc agaagcccct gaggtggaga
1861 aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc agtcctgact
1921 tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac ggcaacaccc
1981 cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc cgagcatcag
2041 ggttactcca tgagaggcta gatgaatatg aattgcaagg cccagccctc accactttca
2101 actttgaccg caacaaggta cttgctttta gacagcttgc tgctgaaaac aagtatgggc
2161 tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagactatg tcagacctca
2221 aacaagcact taagaacatc gcgatcaaga agtgccagat agtgcacaat ggtggcacct
2281 acacacttga ggctgatggc aagggcaatg tgaaagttga caaagtgcaa agtgccactg
2341 tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct agaatcagat
2401 actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct ggggctgcat
2461 tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc aagccacagg
2521 tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa gatgatgaag
2581 agtttgtcgt ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaagtccg
2641 gccgtggcaa gaagcacaca gccttttcaa gtaaagggct cagtgatgag gagtacgatg
2701 agtacaaaag aatcagagaa gaaaggaacg gtaagtactc catagaagag taccttcagg
2761 acagagacag gtactacgag gaagtggcca ttgccagggc aaccgaagag gacttctgtg
2821 aagaagaaga ggccaaaatc cggcagagga ttttcagacc aacaaggaaa caacgcaaag
2881 aagagagggc ctctctcggc ttggtcacag gatctgaaat caggaagaga aacccagaag
2941 acttcaaacc caagggaaag ctgtgggctg atgatgacag aagtgttgac tacaatgaga
3001 aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct
3061 ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata ccccaaggtg
3121 caaaagaatt cttcggagtc cctatcaagc aaatccagat acacaagtca ggtgaattct
3181 gccgattgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt ctagaagaag
3241 gtgcgcccga ggggaccgtg gccacactgc tcatcaagag accaactgga gagctcatgc
3301 ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc acagttggag
3361 ggcaaatggg tatgctcctg acaggatcca acgccaagag tatggaccta ggcacaacac
3421 caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg gtcatagggg
3481 tccatacggc cgctgcccgt ggaggaaaca ctgtcatatg tgccacccag ggaagtgagg
3541 gagaggccac acttgaagga ggtgacagta aagggacata ctgtggcgcg ccaatcttgg
3601 gcccagggag cgctccgaag ctcagcacca agactaagtt ttggagatca tccacaacac
3661 cactcccacc tggcacctac gaaccagcct acctcggtgg caaagaccct agagtcaaag
3721 gtggcccctc attgcaacaa gttatgaggg accagctgaa gccattcaca gaacccagag
3781 gcaaaccacc aaagccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg
3841 agcaaacaat tgatccaccc caaaaatggt catttgcgca agcttgcgca tcccttgaca
3901 aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt
3961 ctttcacagg aaaattggct gaccaagcct ccaaggccaa cctaatgttt gaagagggaa
4021 agaacatgac tccagtctac acgggtgcac ttaaagatga gttggtaaag accgataaag
4081 tttatggtag ggtcaagaag aggcttctgt ggggttcaga tctggcgacc atgatacggt
4141 gcgcccgagc tttcggaggc ctcatggatg aactcaaggc acactgtgtc acactccctg
4201 tcagagttgg tatgaacatg aatgaggatg gccccatcat cttcgagaag cactccagat
4261 atagatacca ctatgatgct gactattccc ggtgggactc aacacaacaa agggatgtgc
4321 tagcagcagc actagaaatc atggttaagt tctctccaga acctcacctg gcccagatag
4381 ttgcagaaga cctcctctcc cccagcgtga tggatgtggg tgactttcaa atatcaataa
4441 gtgagggtct cccctctggg gtgccttgta cctcccagtg gaattccatc gcccactggc
4501 tcctcactct atgtgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcca
4561 actccctttt ctccttctat ggtgatgatg agattgtaag cacagacata aagttggacc
4621 cagagaggct gacagcaaaa ctcaaggagt acgggctgaa accaacccgt cccgacaaaa
4681 ctgaaggacc ccttgttatc tctgaagacc tggatggtct gacattcctc cggagaactg
4741 tgacccgtga tccagccggc tggtttggaa aattggaaca aagttcaatt cttaggcaaa
4801 tgtactggac caggggtccc aaccatgaag acccatttga aacaatgata ccacattccc
4861 aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcattct
4921 acagcaaagt tagcaaatta gttattgcag agttgaagga aggaggcatg gatttttacg
4981 tacccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg
5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca
5101 tctgatgggc ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag
5161 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtgtc ccctagaaac
5281 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaatcc ctacttatct
5341 catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg
5401 gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa
5521 ctagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa
5581 tcaaatgacc ccactattaa gttgatagca atgttgtata caccacttag ggctaataat
5641 gctggggatg atgtcttcac agtctcttgc cgagttctca cgaggccatc ccccgatttt
5701 gatttcatat ttctagtgcc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca
5761 gttttgactg ttgaggagat gaccaattca agattcccca tccctttgga aaagttgttc
5821 acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gtaggtgcac gactgatggc
5881 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcgccttcag aggagatgtc
5941 acccacacca caggtagtca taactacata atgaatttgg cttctcaaaa ttggagcaat
6001 tacgacccaa cagaagaaat tccagcccct ctagggactc cagactttgt ggggaagatt
6061 caaggcatgc ttacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaactgac
6181 acaaacaatg attttgaagc taaccaaaac acaaagttca ccccagttgg tgtcatccaa
6241 gatggtggca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc
6301 aggaacactc ctaatgtgca tctggccccc gctgtagccc ccacttttcc gggtgagcaa
6361 ctcctcttct tcagatccac catgcccgga tgcagcgggt accccaacat ggatttggat
6421 tgtctgctcc ctcaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacaatct
6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgaatgcaag
6541 cttcataagt caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc
6601 cccaatggtt attttaggtt tgattcctgg gtcaaccagt tttacacgct tgcccccatg
6661 ggaaacggag cggggcgtag acgtgcacta taatggctgg aactttcttt gctggattgg
6721 catctgatgt ccttggctct ggacttggct cccttatcaa tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataatagaa aattgcaaca agcatccttc caatttagca
6841 gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca caaatcgagg
6901 ctaccaaaag gttacaacag gaaatgatga aagttaagca ggcaatgctc ttagagggtg
6961 ggttctctga gacagatgca gcccgcgggg caatcaacgc ccctatgaca aaagctttgg
7021 actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacatac aatgcaggcc
7081 gcttctccac cccccaacca tcgggggcgc tgccaggaag agctaatctt agggatgctg
7141 tccctgctcg gggttcctct agtaagtctt ctaattcttc tgctgctact tctgtgtact
7201 caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga
7261 gcttcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtcac
7321 ccttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta
7381 gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttta
7441 acacgcgcag gcagccactc ttcgctcaca ttcgtaagcg aggggagtca cgggtgtaat
7501 gtgaaaagac g
//