Typing tool
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Typing tool
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Complete norovirus genomes
| LC699536 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5089
ORF2: 5070..6692
ORF3: 6692..7495
LOCUS LC699536 7527 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/408/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699536
VERSION LC699536.1
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JOURNAL Unpublished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 7527)
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..7527
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/408/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2021-06"
gene <1..5089
/gene="POL"
CDS <1..5089
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDG75412.1"
/translation="SNDASAAAVANSNNDIAKSSSDGEFSNMAVTFKRALGARPKQPP
PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVFGLPELTTVRQPEETNT
AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV
ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS
PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK
QALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK
DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE
IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT
LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDLATMI
RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN
SIAHWLLTLCALSEITDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL
KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHED
PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5070..6692
/gene="VP1"
CDS 5070..6692
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75413.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRKRAL"
gene 6692..7495
/gene="VP2"
CDS 6692..7495
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75414.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRMSPFMRGAHNIS
FVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtctaacgac gcttccgctg ccgctgttgc caacagcaac aacgacatcg caaaatcttc
61 aagtgacggt gagttttcta acatggctgt cacttttaag cgggccctcg gggcgcggcc
121 taaacagccg cccccgaagg aaataccacc cagacccccg cgaccaccca caccagaatt
181 ggtcaaaaag atccctcctc ccccacccaa cggggaggat gaactagtgg tctcttacag
241 cgccaaagat ggcgttttcg gactgcctga gctcaccact gtcagacaac cggaagaaac
301 caacacggcg tttagtgtcc ccccactcaa ccaaagagag agcagagacg ccaaggagcc
361 attaactgga acaatcattg aaatgtggga tggagaaatc taccattacg gcctgtacgt
421 ggagcgaggt cttatacttg gtgtgcacaa gccaccagca gccatcagcc tcgccaaggt
481 cgagctggca ccgctctctt tgttctggag acctgtatac actccccagt acctcatctc
541 tccagacact cttaggagat tacatggaga gtcattcccc tacactgcat ttgacaacaa
601 ttgctacgcc ttttgttgtt gggtgttaga cctaaacgac tcgtggctaa gcaggagaat
661 gattcagaga acaacaggct tcttcaggcc gtaccaggat tggaacagga aacccctccc
721 tactatggat gattccaaat taaagaaggt agccaacata ttcttgtgca ctttgtcttc
781 actattcacc agacccatta aggatataat agggaagttg aaacctctca acatccttaa
841 tatcctggct acatgtgatt ggaccttcgc aggcatagtg gaatccttaa tactcttggc
901 agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgatcg cccccttgct
961 aggtgattat gaactgcaag gacccgagga ccttgcagtg gaactggtcc caatagtgat
1021 gggggggata ggtttggtgc taggatttac caaagagaaa atcggaaaga tgctgtcatc
1081 cgctgcatcc actttaagag cttgcaaaga ccttggtgca tacggactgg aaatcttaaa
1141 attggtcatg aagtggttct tcccaaagaa agaggaagca aatgaactgg ctatggtgag
1201 atccatcgag gatgcagtgc tagacctcga ggcaattgaa aacaaccaca tgaccactct
1261 gctcaaagac aaagacagct tgacaaccta catgagaacc cttgaccttg aggaggagaa
1321 agccagaaaa ctctcaacca aatctgcttc acccgatatt gtgggcacaa ttaactctct
1381 tctggcaaga atcgctgctg cacgctccct agtgcatcgg gcgaaagaag agctctccag
1441 caggccgaga cctgtcgttg taatgatatc gggaagacca gggataggga aaactcatct
1501 tgccagggag ctggccaaga agatcgcggc ctccctcaca ggggaccagc gtgtgggcct
1561 catcccacgc aatggtgtcg accactggga cgcatacaag ggcgaaagag ttgtcctatg
1621 ggacgactat ggaatgagca accccatcca tgatgccctc aggttgcagg agcttgctga
1681 cacttgtccc ctcacgctaa attgtgacag aattgagaac aagggaaaag tctttgacag
1741 tgatgccata attatcacca ccaacctggc caacccagca ccactggatt atgtcaactt
1801 tgaagcgtgc tcgagacgca ttgatttcct cgtgtacgca gaagcccctg aggtggagaa
1861 ggcaaagcgc gacttcccag gtcaacctga catgtggaag aacgctttca gtcctgactt
1921 ctcacacata aaactgtcat tggctccaca gggtggtttt gacaagaacg gcaacacccc
1981 gcatggaaaa ggggtcatga agaccctcac cactggctcc ctcatcgccc gagcatcagg
2041 gttactccat gagaggctag atgaatatga attgcaaggc ccagccctca ccactttcaa
2101 ctttgaccgc aacaaggtac ttgcttttag acagcttgct gctgaaaaca agtatgggct
2161 gatggacaca atgagagttg gaaaacagct caaggatgtc aagactatgt cagacctcaa
2221 acaagcactt aagaacatcg cgatcaagaa gtgccagata gtgtacaatg gtggcaccta
2281 cacacttgag gctgatggca agggcaatgt gaaagttgac aaagtgcaaa gtgccactgt
2341 gcagaccaac aatgaactag ccggtgccct acaccaccta agatgcgcta gaatcagata
2401 ctatgttaag tgcgtccagg aggcactgta ttccatcatc caaatcgctg gggctgcatt
2461 cgtcaccacg cgcatcgcta agcgcatgaa tatacagaat ctctggtcca agccacaggt
2521 ggaagacaca gaagagatgg ccaacaaaga tggttgccta aaacccaaag atgatgaaga
2581 gtttgtcgtt tcatccgacg acatcaaaac tgagggcaag aaagggaaga acaagtccgg
2641 ccgtggcaag aagcacacag ccttttcaag taaagggctc agtgatgagg agtacgatga
2701 gtacaaaaga atcagagaag aaaggaatgg taagtactcc atagaagagt accttcagga
2761 cagagacagg tactacgagg aagtggccat tgccagggca accgaagagg acttctgtga
2821 agaagaagag gccaaaatcc ggcagaggat tttcagacca acaaggaaac aacgcaaaga
2881 agagagggcc tccctcggct tggtcacagg atctgaaatc aggaagagaa acccagaaga
2941 cttcaaaccc aagggaaagc tgtgggctga tgatgacaga agtgttgact ataatgagaa
3001 actcaacttt gaggccccac caagcatctg gtcgcggata gtcaactttg gttcaggctg
3061 gggcttctgg gtctccccca gtctgtttat aacatcaacc catgtcatac cccaaggtgc
3121 aaaagaattc ttcggagtcc ctatcaagca aatccagata cacaagtcag gtgaattctg
3181 ccgattgaga ttcccaaagc caatcagaac tgatgtgacg ggcatgattc tagaagaagg
3241 tgcgcccgag gggaccgtgg ccacactgct catcaagaga ccaactggag agctcatgcc
3301 tctggcagcc agaatgggga cccatgcaac tatgaaaatt caggggcgca cagttggagg
3361 gcaaatgggt atgctcctga caggatccaa cgccaagagt atggacctag gcacaacacc
3421 aggcgactgc ggctgcccct acatctacaa gagggggaat gactacgtgg tcataggggt
3481 ccatacggcc gctgcccgtg gaggaaacac tgtcatatgt gccacccagg gaagtgaggg
3541 agaggccaca cttgaaggag gtgacagtaa agggacatac tgtggcgcgc caatcttggg
3601 cccagggagc gctccgaagc tcagcaccaa gactaagttt tggagatcat ccacaacacc
3661 actcccacct ggcacctacg aaccagccta cctcggtggc aaagacccta gagtcaaagg
3721 tggcccttca ttgcaacaag ttatgaggga ccagctgaag ccattcacag aacccagagg
3781 caaaccacca aggccaaatg tgttggaagc tgccaagaaa accatcatca atgtccttga
3841 gcaaacaatt gatccacccc aaaaatggtc atttgcacaa gcttgcgcat cccttgacaa
3901 aaccacctcc agcggccacc cgcaccacat gcggaaaaac gactgttgga atggggagtc
3961 tttcacagga aaattggctg accaagcctc caaggccaac ctaatgtttg aagagggaaa
4021 gaacatgact ccagtctaca caggtgcact taaagatgag ttggtaaaga ccgacaaagt
4081 ttatggtagg gtcaagaaga ggcttctgtg gggttcagat ctggcgacca tgatacggtg
4141 cgcccgagct ttcggaggcc tcatggatga actcaaggca cactgtgtca cactccctgt
4201 cagagttggt atgaacatga atgaggatgg ccccatcatc ttcgagaagc actccagata
4261 tagataccac tatgatgctg actattcccg gtgggactca acacaacaaa gggatgtgct
4321 agcagcagca ctagaaatca tggttaagtt ctctccagaa ccacacctgg cccagatagt
4381 tgcagaagac ctcctctccc ccagcgtgat ggatgtgggt gactttcaaa tatcaataag
4441 tgagggtctc ccctctgggg tgccttgtac ctcccagtgg aattccatcg cccactggct
4501 cctcactcta tgtgcactct ctgaaatcac ggacctgtcc cctgatatca ttcaggccaa
4561 ctcccttttc tccttctatg gtgatgatga gattgtaagc acagacataa agttggaccc
4621 agagaggctg acagcaaaac tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac
4681 tgaaggacct cttgttatct ctgaagacct ggatggtctg acattcctcc ggagaactgt
4741 gacccgtgac ccagctggct ggtttggaaa attggaacaa agttcaattc ttaggcaaat
4801 gtactggacc aggggtccca accatgaaga cccatttgaa acaatgatac cacattccca
4861 aagacccata caattgatgt ccttgctggg cgaggctgca ctccacggcc cggcattcta
4921 cagcaaagtt agtaaattag ttattgcaga gttgaaggaa ggaggcatgg atttttacgt
4981 acccagacaa gagccaatgt tcagatggat gagattctca gatctgagca cgtgggaggg
5041 cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac gccaacccat
5101 ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg gctctggagc
5161 ccgttgttgg tgccgccatt gcggcacctg tagcgggcca acaaaatgta attgacccct
5221 ggattagaaa caattttgta caagcccctg gtggagagtt tacagtgtcc cctagaaacg
5281 ctccaggtga aatactatgg agcgcgccct tgggccctga tctaaatccc tacttatctc
5341 atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta attctcgcgg
5401 ggaacgcgtt caccgcaggg aaggtcatat ttgcagcagt cccaccaaat tttccaactg
5461 aaggcttgag ccccagccag gtcactatgt tcccccatat agtagtagat gttaggcaac
5521 tagaacctgt gttgattccc ttacccgatg ttaggaataa tttctatcat tacaatcaat
5581 caaatgaccc cactattaag ttgatagcaa tgttgtatac accacttagg gctaataatg
5641 ctggggatga tgtcttcaca gtctcttgcc gagttctcac gaggccatcc cccgattttg
5701 acttcatatt tctagtgcca cccacagttg agtcaagaac taaaccattc tctgtcccag
5761 ttttgactgt tgaggagatg accaattcaa gattccccat ccctttggaa aagttgttca
5821 cgggtcccag cagtgccttt gttgtccaac cacaaaacgg taggtgcacg actgatggcg
5881 tgctcctagg caccacccaa ctgtctcctg tcaacatctg tgccttcaga ggagatgtca
5941 cccacatcac aggtagtcat aactacacaa tgaatttggc ttctcaaaat tggagcaatt
6001 acgacccaac agaagaaatt ccagcccctc tagggactcc agactttgtg gggaagattc
6061 aaggcatgct tacccaaacc acaaggacag atggctcaac acgcggccac aaagccacag
6121 tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt gaaactgaca
6181 caaacaatga ttttgaagct aaccaaaaca caaagttcac cccagttggt gtcatccaag
6241 atggtggcac cacccaccga aatgaacccc aacagtgggt gctcccaagt tactcaggca
6301 ggaacactcc taatgtgcat ctggcccccg ctgtagcccc cacttttccg ggtgagcaac
6361 tcctcttctt cagatccacc atgcccggat gcagcgggta ccccaacatg gatttggatt
6421 gtctgctccc tcaggaatgg gtgcagtact tctaccaaga ggcagcccca gcacaatctg
6481 atgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt gaatgtaagc
6541 ttcataaatc aggctatgtt acagtggctc acactggcca acatgatttg gttatccccc
6601 ccaatggtta ttttaggttt gattcctggg tcaaccagtt ttacacgctt gcccccatgg
6661 gaaacggagc ggggcgtaaa cgtgcactat aatggctgga actttctttg ctggattggc
6721 atctgatgtc cttggctctg gacttggctc ccttatcaat gctggggctg gggccatcaa
6781 ccaaaaagtt gagtttgaaa ataatagaaa attgcaacaa gcatccttcc aatttagcag
6841 caatctacag caggcttcct tccaacatga caaagagatg ctccaagcac aaattgaggc
6901 taccaaaagg ttacaacagg aaatgatgaa agttaagcag gcaatgctct tagagggtgg
6961 gttctctgag acagatgcag cccgcggggc aatcaacgcc cctatgacaa aagctttgga
7021 ctggagcggg acaaggtact gggctcctga tgctaggact acaacataca atgcaggccg
7081 cttctccacc ccccaaccat cgggggcgct gccaggaaga gctaacctta gggatgctgt
7141 ccctgctcgg ggttcctcta gtaagtcttc taattcttct gctgctactt ctgtgtactc
7201 aaatcaaact atttcaacga gacttggttc tacagctggt tctggtacca gtgtctcgag
7261 cttcccgtca actgcaagga ctaggagctg ggttgaggat caaagtagga tgtcaccttt
7321 catgaggggg gcccacaaca tatcgtttgt taccccacca tctagcagat cctctagcca
7381 aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg cttttaacac
7441 gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg tgtaatgtga
7501 aaaggcaaaa ttgatcatct ttctttt
//