Typing tool
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Typing tool
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Complete norovirus genomes
| LC699538 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS LC699538 7539 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/759/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699538
VERSION LC699538.1
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JOURNAL Unpublished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 7539)
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..7539
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/759/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2021-11"
gene <1..5090
/gene="POL"
CDS <1..5090
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDG75418.1"
/translation="SNDAFAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPP
PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNT
AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV
ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLNR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL
NILNVLATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS
PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEYELQGPALATFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK
QALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK
DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE
IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT
LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMV
RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL
KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGPNHED
PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5071..6693
/gene="VP1"
CDS 5071..6693
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75419.1"
/translation="MKMASSDVNPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGGVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
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="BDG75420.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSNFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSNQGTVSTVPKEILDSWTGAFNTRRQPLFAHVRKRGESRV"
ORIGIN
1 cgtctaacga cgctttcgct gccgctgttg ctaacagcaa caacgacatc gcaaaatctt
61 caagtgacgg tatgttttct aacatggctg tcacttttaa gcgggccctc ggggcgcggc
121 ctaaacagcc gcccccgaag gaaataccac ccaggccccc gcgaccaccc acgccagaat
181 tggtcaaaaa gatccctcct cccccaccca acggagagga tgaactagtg gtctcttaca
241 acgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa ccggaagaaa
301 ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac gccaaggagc
361 cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac ggcctgtacg
421 tggaacgagg tctcatactt ggtgtgcaca agccaccagc agccatcagc ctcgctaagg
481 tcgagctggc accactctct ttgttctgga ggcctgtata caccccccag taccttatct
541 ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgct tttgacaaca
601 attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta aacaggagaa
661 tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg aaacccctcc
721 ccactatgga tgactccaaa ttaaagaagg tagccaacat attcttgtgc actttgtctt
781 cactattcac caggcccatc aaggacataa tagggaagtt gaaacctctc aacatcctta
841 atgttctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta atactcttgg
901 cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttgc
961 ttggtgatta tgaactgcaa ggacccgagg accttgcagt agaactggtc ccagtagtga
1021 tgggggggat aggtttggtg ctaggattta ccaaagagaa gatcggtaaa atgttgtcgt
1081 ccgctgcatc cactttaaga gcttgcaaag accttggtgc atacggactg gaaatcttaa
1141 aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg gccatggtga
1201 gatccatcga ggatgcagta ctagacctcg aggcaattga aaacaaccac atgaccaccc
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 aggaataggg aaaactcacc
1501 ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag cgtgtgggcc
1561 ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaagg gttgtcctat
1621 gggacgacta tggaatgagc aaccccatcc atgatgccct taggttgcag gagcttgctg
1681 acacttgccc cctcacgcta aattgtgaca gaattgagaa caaaggaaaa gtctttgata
1741 gtgatgccat aattatcacc accaacctgg ccaacccagc accactagat tatgtcaatt
1801 ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc agaagctcct gaggtggaga
1861 aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc agtcctgact
1921 tctcacacat aaaactgaca ttggctccac agggtggttt tgacaagaac ggcaacaccc
1981 cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc cgagcatcag
2041 ggttactcca tgagaggcta gatgaatatg aattgcaagg cccagccctc gccactttca
2101 actttgaccg caacaagata ctcgctttta gacagcttgc tgctgaaaac aagtatgggc
2161 tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg tcagacctca
2221 aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat ggtggcacct
2281 acacacttga ggctgatggc aagggcagtg tgaaagttga taaggtgcag agtgccactg
2341 tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct agaatcagat
2401 actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct ggggctgcat
2461 tcgtcacaac gcgcatcgct aagcgcatga atatacagaa tctctggtcc aagccacagg
2521 tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa gatgatgaag
2581 agtttgtcgt ttcatccgac gacatcaaga ctgagggcaa gaaggggaag aacaagtccg
2641 gccgtggcaa gaagcacaca gccttttcaa gtaaagggct cagtgatgag gagtacgatg
2701 agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag taccttcagg
2761 acagagacag gtactacgag gaggtggcca ttgccagggc aaccgaagag gacttctgtg
2821 aagaagaaga ggccaaaatc cggcagagga tttttagacc aacaaggaaa caacgcaaag
2881 aagagagggc ttctcttggc ttagtcacgg gttctgaaat caggaagaga aacccagaag
2941 acttcaaacc caagggaaag ctgtgggctg atgacgacag aagtgttgac tacaatgaaa
3001 aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct
3061 ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata ccccaaggtg
3121 caaaggagtt cttcggagtc cctatcaagc aaatccagat acacaagtca ggtgaattct
3181 gccgattgag atttccaaag ccaatcagaa ccgatgtgac gggcatgatt ctagaagaag
3241 gtgcgcccga ggggaccgtg gccacactgc ttatcaagag accaactgga gagctcatgc
3301 ctctggcagc cagaatgggg acccatgcaa ccatgaaaat ccaggggcgc acagttggag
3361 ggcaaatggg tatgctcctg acaggatcta acgccaagag tatggaccta ggcacaacac
3421 caggcgactg tggctgcccc tacatctaca agagggggaa tgactacgtg gtcatagggg
3481 tccatacggc tgctgcccgt ggaggaaaca ctgtcatatg tgccacccag ggaagtgagg
3541 gagaggccac acttgaagga ggtgacagca aagggacata ctgtggcgcg ccaatcttgg
3601 gcccagggag cgctccgaag ctcagcacta agactaagtt ttggagatca tccacaacac
3661 cactcccacc tggcacctac gaaccagcct acctcggtgg caaagaccct agagtcaaag
3721 gtggcccttc attgcaacaa gttatgaggg accagctgaa gccattcaca gaacccagag
3781 gcaaaccacc aagaccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg
3841 agcaaacaat tgatccaccc cagaaatggt catttgcgca agcttgcgca tcccttgaca
3901 aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt
3961 ccttcacagg aaagttggct gaccaagcct ccaaggccaa cctaatgttt gaagagggaa
4021 agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag accgataaag
4081 tgtatggtaa ggtaaagaag aggcttctat ggggttcaga tctggcgacc atggtacggt
4141 gcgcccgagc ttttggaggt ctcatggatg aactcaaggc acactgtgtc acactccctg
4201 tcagagttgg tatgaacatg aatgaggatg gccccatcat cttcgagaag cactccagat
4261 atagatatca ttatgatgct gactattccc ggtgggactc aacacaacaa agggatgtgc
4321 tggcagcagc actagagatc atggttaagt tctctccaga accacacctg gcccagatag
4381 ttgcagaaga cctcctttcc cctagcgtga tggatgtggg tgactttcaa atatcaataa
4441 gtgagggtct cccatctggg gtaccttgca cctcccagtg gaattccatc gcccactggc
4501 tcctcactct gtgtgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcta
4561 actccctttt ctccttctat ggtgatgatg agattgtaag cacagatata aagttggacc
4621 cagagaggct aacagcaaag ctcaaggagt acgggctgaa accaacccgc cccgacaaaa
4681 ctgaaggacc ccttgtcatc tctgaagacc tggatggtct gacattcctc cggagaactg
4741 tgacccgtga tccagctggc tggtttggaa aattggaaca aggttcaatt cttaggcaaa
4801 tgtactggac caggggcccc aaccatgaag acccatttga aacaatgata ccacactccc
4861 aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcattct
4921 acagcaaaat tagcaaatta gtcattgcag agttgaagga aggtggcatg gatttttacg
4981 tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg
5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgtcaaccca
5101 tctgatgggt ccgcagccag cctcgtccca gaggtcaaca atgaggttat ggctctggag
5161 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtatc ccctagaaac
5281 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaaccc ctacttgtct
5341 cacttagcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aatcctcgcg
5401 gggaacgcgt tcaccgctgg gaaggtcata tttgcagcag tcccaccaaa tttcccaact
5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgtcaggcaa
5521 ttagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa
5581 tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag ggctaataat
5641 gctggggacg atgtcttcac agtttcttgt cgagttctca cgagaccatc ccccgatttt
5701 gacttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca
5761 gttttgactg ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc
5821 acgggtccca gtagtgcctt tgttgtccaa ccacaaaatg gtaggtgcac gactgatggc
5881 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag aggaggtgtc
5941 acacatatca caggtagtca taactataca atgaatttgg cttctcaaaa ttggagcaac
6001 tatgacccaa cagaagaaat cccagcccct ctagggactc cagactttgt ggggaagata
6061 caaggcatgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca
6121 gtgtatactg ggagcgccga ctttgctcca aaactgggta gagtccagtt tgaaactgac
6181 acaaacaatg attttgaggc taaccaaaac acaaagttca ccccagttgg tgtcatccaa
6241 gatggtggca ccactcatcg aaatgaaccc caacagtggg tgcttccaag ttactcaggc
6301 aggaacactc ctaatgtgca tctggccccc gcagtggccc ccacttttcc gggtgagcag
6361 ctccttttct ttagatccac catgcccgga tgcagcgggt accccaacat ggatttggat
6421 tgtctgctcc cccaggaatg ggtgcagtac ttctaccagg aggcagcccc agcacaatct
6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaag
6541 cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc
6601 cccaacggtt attttagatt tgattcctgg gtcaaccagt tctacacact tgcccccatg
6661 ggaaatggag cggggcgtag acgtgcacta taatggctgg agctttcttt gctggattgg
6721 catctgatgt tcttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataatagaa aattgcagca agcatccttc caatttagca
6841 gcaatctaca acaggcttcc tttcaacatg ataaagagat gctccaagca caaattgagg
6901 ctaccaaaag gttacaacag gaaatgatga gagttaagca ggcaatgctc ctagagggtg
6961 ggttctctga gacagatgca gcccgcgggg caatcaacgc ccctatgaca aaagccttgg
7021 actggagcgg gacaaggtac tgggctcctg acgctaggac tacaacatac aatgcaggcc
7081 gcttctccac cccccaacca tcgggggcgc tgccaggaag agccaatttt agggatgctg
7141 tccctgctcg gggttcctct agcaagtctt ccaattcttc tactgctact tctgtgtatt
7201 caaatcaaac aatttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga
7261 acttcccgtc aactgcaagg actaggagct gggttgagga ccaaagtagg aatttgtcac
7321 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc aggtcctcta
7381 accaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagccactc ttcgctcatg ttcgtaagcg aggggagtca cgggtgtaat
7501 gtgaaaaggc aaaattgttt ttcttttctt tagtgtctt
//