Typing tool
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Typing tool
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Complete norovirus genomes
| LC699533 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5096
ORF2: 5077..6699
ORF3: 6699..7505
LOCUS LC699533 7505 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/58/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699533
VERSION LC699533.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
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JOURNAL Unpublished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 7505)
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..7505
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/58/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2021-04"
gene <1..5096
/gene="POL"
CDS <1..5096
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDG75403.1"
/translation="MASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQ
PPPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVFGLPELTTVRQPEET
NTAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLA
KVELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKS
ASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAK
KIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPL
TLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMSD
LKQALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCA
RIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLK
PKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTG
SEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSL
FITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTV
ATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPG
SAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNG
ESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDLAT
MIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDST
QQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEY
GLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNH
EDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5077..6699
/gene="VP1"
CDS 5077..6699
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75404.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6699..7505
/gene="VP2"
CDS 6699..7505
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75405.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 agatggcgtc taacgacgct tccgctgccg ctgttgccaa cagcaacaac gacatcgcaa
61 aatcttcaag tgacggtgtg ttttctaaca tggctgtcac ttttaagcgg gccctcgggg
121 cgcggcctaa acagccgccc ccgaaggaaa taccacccag acccccgcga ccacccacac
181 cagaattggt caaaaagatc cctcctcccc cacccaacgg ggaggatgaa ctagtggtct
241 cttacagcgc caaagatggc gttttcggac tgcctgagct caccactgtc agacaaccgg
301 aagaaaccaa cacggcgttc agtgtccccc cactcaacca aagagagagc agagacgcca
361 aggagccatt aactggaaca atcattgaaa tgtgggatgg agaaatctac cattacggcc
421 tgtacgtgga gcgaggtctt atacttggtg tgcacaagcc accagcagcc atcagcctcg
481 ccaaggtcga gctggcaccg ctctctttgt tctggagacc tgtatacacc ccccagtacc
541 tcatctctcc agacactctt aggagattac atggagagtc attcccctac actgcatttg
601 acaacaattg ctacgccttt tgttgttggg tattagacct aaacgactcg tggctaagca
661 ggagaatgat tcagagaaca acaggcttct tcaggccgta ccaggattgg aacaggaaac
721 ccctccctac tatggatgat tccaaattaa agaaggtagc taacatattc ttgtgcactt
781 tgtcttcact attcaccaga cccattaagg atataatagg gaagttgaaa cctctcaaca
841 tccttaatat tctggctaca tgtgattgga cctttgcagg catagtggaa tccttaatac
901 tcttggcaga actctttgga gttttctgga cacccccaga tgtgtctgcg atgatcgccc
961 ccttgctagg tgattatgaa ctgcaaggac ccgaggacct tgcagtggaa ctggtcccaa
1021 tagtgatggg ggggataggt ttggtgctag gatttaccaa agagaaaatc ggaaagatgc
1081 tgtcatccgc tgcatccact ttaagagctt gtaaagacct tggtgcatac ggactggaaa
1141 tcttaaaatt ggtcatgaag tggttcttcc caaagaaaga ggaagcaaat gaactggcta
1201 tggtgagatc catcgaggat gcagtgctag acctcgaggc aattgaaaac aaccacatga
1261 ccactctgct caaagacaaa gacagcttga caacctacat gagaaccctt gaccttgagg
1321 aggagaaagc cagaaaactc tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca
1381 actctcttct ggcaagaatc gctgctgcac gctccctagt gcatcgggcg aaagaagagc
1441 tctccagcag gccgagacct gtcgttgtaa tgatatcggg aagaccaggg atagggaaaa
1501 ctcaccttgc cagggagctg gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg
1561 tgggccttat cccacgcaat ggtgtcgacc actgggacgc atacaagggc gaaagagttg
1621 tcctatggga cgactatgga atgagcaacc ccatccatga tgccctcagg ttgcaggagc
1681 ttgctgacac ttgtcccctc acgctaaatt gtgacaggat tgagaacaag ggaaaagtct
1741 ttgacagtga tgccataatt atcaccacca acctggccaa cccagcacca ctggattatg
1801 tcaactttga agcgtgctcg agacgcattg atttcctcgt gtacgcagaa gcccctgagg
1861 tggagaaggc aaagcgcgac ttcccaggtc aacctgacat gtggaagaac gctttcagtc
1921 ctgacttctc acacataaaa ctgtcattgg ctccacaggg tggttttgac aagaacggca
1981 acaccccgca tggaaaaggg gtcatgaaga ccctcaccac tggctccctc atcgcccgag
2041 catcagggtt actccatgag aggctagatg aatatgaatt gcaaggccca gccctcacca
2101 ctttcaactt tgaccgcaac aaggtacttg cttttagaca gcttgctgct gaaaacaagt
2161 atgggctgat ggacacaatg agagttggga aacagctcaa ggatgtcaag actatgtcag
2221 acctcaaaca agcacttaag aacatcgcga tcaagaagtg ccagatagtg tacaatggtg
2281 gcacctacac gcttgaggct gatggcaagg gcaatgtgaa agttgacaaa gtgcaaagtg
2341 ccactgtgca gaccaacaat gaactagccg gtgccctaca ccacctaaga tgcgctagaa
2401 tcagatacta tgttaagtgc gtccaggagg cactgtattc catcatccaa atcgctgggg
2461 ctgcattcgt caccacgcgc atcgctaagc gcatgaatat acagaatctc tggtccaagc
2521 cacaggtgga agacacagaa gagatggcca acaaagatgg ttgcctaaaa cccaaagatg
2581 atgaagagtt tgtcgtttca tccgacgaca tcaaaactga gggcaagaaa gggaagaaca
2641 agtccggccg tggcaagaag cacacagcct tttcaagtaa agggctcagt gatgaggagt
2701 acgatgagta caaaagaatc agagaagaaa ggaatggtaa gtactccata gaagagtacc
2761 ttcaggacag agacaggtac tacgaggaag tggccattgc cagggcaacc gaagaggact
2821 tctgtgaaga agaagaggcc aaaatccggc agaggatttt cagaccgaca aggaaacaac
2881 gcaaagaaga gagggcctct ctcggcttgg tcacaggatc tgaaatcagg aagagaaacc
2941 cagaagactt caaacccaag ggaaagctgt gggctgatga tgacagaagt gttgactaca
3001 atgagaaact caactttgag gccccaccaa gcatctggtc gcggatagtc aactttggtt
3061 caggctgggg cttctgggtc tcccccagtc tgtttataac atcaacccat gtcatacccc
3121 aaggtgcaaa agaattcttc ggagtcccta tcaagcaaat tcagatacac aagtcaggtg
3181 aattctgccg attgagattc ccaaagccaa tcagaactga tgtgacgggc atgattctag
3241 aagaaggtgc gcccgagggg accgtggcca cactgctcat caagagacca actggagagc
3301 tcatgcctct ggcagccaga atggggaccc atgcaaccat gaaaattcag gggcgcacag
3361 ttggagggca aatgggtatg ctcctgacag gatccaacgc caagagtatg gacctaggca
3421 caacaccagg cgactgcggc tgcccctaca tctacaagag ggggaatgac tacgtggtca
3481 taggggtcca tacggccgct gcccgtggag gaaacactgt catatgtgcc acccagggaa
3541 gtgagggaga ggccacactt gaaggaggtg acagtaaagg gacatactgt ggcgcgccaa
3601 tcttgggccc agggagcgct ccgaagctca gcaccaagac taagttttgg agatcatcca
3661 caacaccact cccacctggc acctacgaac cagcctacct cggtggcaaa gaccctagag
3721 tcaaaggtgg cccttcattg caacaagtta tgagggacca gctgaagcca ttcacagaac
3781 ccagaggcaa accaccaagg ccaaatgtgt tggaagctgc caagaaaacc atcatcaatg
3841 tccttgagca aacaattgat ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc
3901 ttgacaaaac cacctccagc ggccacccgc accacatgcg gaaaaacgac tgttggaatg
3961 gggagtcttt cacaggaaaa ttggctgacc aagcctccaa ggccaaccta atgtttgaag
4021 agggaaagaa catgactcca gtctacacag gtgcacttaa agatgagttg gtaaagaccg
4081 ataaagttta tggtagggtc aagaagaggc ttctgtgggg ttcagatctg gcgaccatga
4141 tacggtgcgc ccgagctttc ggaggcctca tggatgaact caaggcacac tgtgtcacac
4201 tccctgtcag agttggtatg aacatgaatg aggatggccc catcatcttc gagaagcact
4261 ccagatatag ataccactat gatgctgact attcccggtg ggactcaaca caacaaaggg
4321 atgtgctagc agcagcacta gaaatcatgg ttaagttctc tccagaacca cacctggccc
4381 agatagttgc agaagacctc ctctccccca gcgtgatgga tgtgggtgac tttcaaatat
4441 caataagtga gggtctcccc tctggggtgc cttgtacctc ccagtggaat tccatcgccc
4501 actggctcct cactctatgt gcactctctg aagtcacgga cctgtcccct gatatcattc
4561 aggccaactc ccttttctcc ttctatggtg atgatgagat tgtaagcaca gacataaagt
4621 tggacccaga gaggctgaca gcaaaactca aggagtacgg gctgaaacca acccgccccg
4681 acaaaactga aggacccctt gttatctctg aagacctgga tggtctgaca ttcctccgga
4741 gaactgtgac ccgtgatcca gccggctggt ttgggaaatt ggaacaaagt tcaattctta
4801 ggcaaatgta ctggaccagg ggtcccaacc atgaagaccc atttgaaaca atgataccac
4861 attcccaaag acccatacaa ttgatgtcct tgctgggcga ggctgcactc cacggcccgg
4921 cattctacag caaagttagc aaattagtta ttgcagagtt gaaggaagga ggcatggatt
4981 tttacgtacc cagacaagag ccaatgttca gatggatgag attctcagat ctgagcacgt
5041 gggagggcga tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgcc
5101 aacccatctg atgggtccgc agccaacctc gtcccagagg tcaacaatga ggttatggct
5161 ctggagcccg ttgttggtgc cgccattgcg gcacctgtag cgggccaaca aaatgtaatt
5221 gacccctgga ttagaaacaa ttttgtacaa gcccctggtg gagagtttac agtgtcccct
5281 agaaacgctc caggtgaaat actatggagc gcgcccttgg gccctgatct aaatccctac
5341 ttatctcatt tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt
5401 ctcgcgggga acgcgttcac cgccgggaag gtcatatttg cagcagtccc accaaatttt
5461 ccaactgaag gcttgagccc cagccaggtc actatgttcc cccatatagt agtagatgtt
5521 aggcaactag aacctgtgtt gattccctta cccgatgtta ggaataattt ctatcattac
5581 aatcaatcaa atgaccccac tattaagttg atagcaatgt tgtatacacc acttagggct
5641 aataatgctg gggatgatgt cttcacagtc tcttgccgag ttctcacgag gccatccccc
5701 gattttgact tcatatttct agtgccaccc acagttgagt caagaactaa accattctct
5761 gtcccagttt tgactgttga ggagatgacc aattcaagat tccccatccc tttggaaaag
5821 ttgttcacgg gtcccagcag tgcctttgtt gtccaaccac aaaacggtag gtgcacgact
5881 gatggcgtgc tcctaggcac cacccaactg tctcctgtca acatctgcgc cttcagagga
5941 gatgtcaccc acatcacagg tagtcataac tacacaatga atttggcttc tcaaaattgg
6001 agcaattacg acccaacaga agaaattcca gcccctctag ggactccaga ctttgtgggg
6061 aagattcaag gcatgcttac ccaaaccaca aggacagatg gctcaacacg cggccacaaa
6121 gccacagtgt acactgggag cgccgacttt gctccaaaac tgggtagagt tcaatttgaa
6181 actgacacaa acaatgattt tgaagctaac caaaacacaa agttcacccc agttggtgtc
6241 atccaagatg gtggcaccac ccaccgaaat gaaccccaac agtgggtgct cccaagttac
6301 tcaggcagga acactcctaa tgtgcatctg gcccccgctg tagcccccac ttttccgggt
6361 gagcaactcc tcttcttcag atccaccatg cccggatgca gcgggtaccc caacatggat
6421 ttggattgtc tgctccctca ggaatgggtg cagtacttct accaagaggc agccccagca
6481 caatctgatg tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgaa
6541 tgtaagcttc ataaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt
6601 atccccccca atggttattt taggtttgat tcctgggtca accagtttta cacgcttgcc
6661 cccatgggaa acggagcggg gcgtagacgt gcactataat ggctggaact ttctttgctg
6721 gattggcatc tgatgtcctt ggctctggac ttggctccct tatcaatgct ggggctgggg
6781 ccatcaacca aaaagttgag tttgaaaata atagaaaatt gcaacaagca tccttccaat
6841 ttagcagcaa tctacaacag gcttcctttc aacatgacaa agagatgctc caagcacaaa
6901 ttgaggctac caaaaggtta caacaggaaa tgatgaaagt taagcaggca atgctcttag
6961 agggtgggtt ctctgagaca gatgcagccc gcggggcagt caacgcccct atgacaaaag
7021 ctttggactg gagcgggaca aggtactggg ctcctgatgc taggactaca acatacaatg
7081 caggccgctt ctccaccccc caaccatcgg gggcgctgcc aggaagagct aatcttaggg
7141 atgctgtccc tgctcggggt tcctctagta agtcttctaa ttcttctgct gctacttctg
7201 tgtactcaaa tcaaactatt tcaacgagac ttggttctac agctggttct ggtaccagtg
7261 tctcgagctt cccgtcaact gcaaggacta ggagctgggt tgaggatcaa agtaggaatt
7321 tgtcaccttt catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcagat
7381 cctctagcca aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg
7441 cttttaacac gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg
7501 tgtaa
//