Typing tool
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Typing tool
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Complete norovirus genomes
| LC699529 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5076
ORF2: 5057..6679
ORF3: 6679..7485
LOCUS LC699529 7497 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2448/Tokyo/2020/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699529
VERSION LC699529.1
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JOURNAL Unpublished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 7497)
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..7497
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/2448/Tokyo/2020/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2020-02"
gene <1..5076
/gene="POL"
CDS <1..5076
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDG75391.1"
/translation="SAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEI
PPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSV
PPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELAP
LSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILN
ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPI
VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPDIV
GTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASL
TGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ
PDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL
DEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALK
NIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCARIRYYV
KCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEE
FVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKR
NPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH
VIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIK
RPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLS
TKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPN
VLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGK
LADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCAR
AFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVL
AAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTR
PDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFET
MIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
gene 5057..6679
/gene="VP1"
CDS 5057..6679
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75392.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPVPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6679..7485
/gene="VP2"
CDS 6679..7485
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75393.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARATTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tccgctgccg ctgttgccaa cagcaacaac gacatcgcaa aatcttcaag tgacggtgtg
61 ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa acagccgccc
121 ccgaaggaga taccacccag acccccgcga ccacccacac cagaattggt caaaaagatc
181 cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacagcgc caaagatggc
241 gtctccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa cacggcgttc
301 agtgtccccc cactcaacca aagagagagc agggacgcca aggagccatt aactggaaca
361 atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga acgaggtctt
421 atacttggtg tgcacaagcc accagcagcc atcagcctcg ccaaggtcga gctggcaccg
481 ctctctttgt tctggagacc tgtatacacc ccccagtacc tcatctctcc agacactctt
541 aggagattac atggagagtc attcccctac actgcatttg acaacaattg ctacgccttt
601 tgttgttggg tattagacct aaacgactca tggctaagca ggagaatgat tcagagaaca
661 acaggcttct tcaggccgta ccaggattgg aacaggaaac ccctccccac tatggatgat
721 tccaaattaa agaaggtagc caacatattc ttgtgcactt tgtcttcact attcaccaga
781 cccattaagg acataatagg gaagttgaaa cctctcaaca tccttaatat tctggctaca
841 tgtgattgga ccttcgcagg catagtggaa tccttaatac tcttggcaga actctttgga
901 gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgctagg tgattatgaa
961 ctgcaaggac ccgaggacct tgcagtggaa ctggtcccaa tagtgatggg ggggataggt
1021 ttggtgctag gatttaccaa agagaaaatc ggaaagatgc tgtcatccgc tgcatccact
1081 ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt ggtcatgaag
1141 tggttcttcc caaagaaaga ggaagcaaat gaactggcta tggtgagatc catcgaggat
1201 gcagtactag acctcgaggc aattgaaaac aaccacatga ccaccctgct caaagacaaa
1261 gacagcttga caacctacat gagaaccctt gaccttgagg aggagaaagc cagaaaactc
1321 tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca actctcttct ggcaagaatc
1381 gctgctgcac gctccctagt gcatcgggcg aaagaagagc tctccagcag gccgagacct
1441 gtcgttgtaa tgatatcggg aagaccaggg atagggaaaa ctcaccttgc cagggagctg
1501 gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggccttat cccacgcaat
1561 ggtgtcgacc actgggacgc atacaagggc gaaagagttg tcctatggga cgactatgga
1621 atgagcaacc ccatccatga tgccctcagg ttgcaggagc ttgctgacac ttgtcccctc
1681 acgctaaatt gtgacagaat tgagaacaag ggaaaagtct ttgacagtga tgccataatt
1741 atcaccacca acctggccaa cccagcacca ctggattatg tcaactttga agcgtgctcg
1801 agacgcattg attttctcgt gtacgcagaa gcccctgagg tggagaaggc aaagcgcgac
1861 ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc acacataaaa
1921 ctgtcattgg ctccacaggg tggttttgac aagaacggca acaccccgca tggaaaaggg
1981 gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt actccatgag
2041 aggctagatg aatatgaatt gcaaggccca gccctcacca ctttcaactt tgaccgcaac
2101 aagatacttg cttttagaca gcttgctgct gaaaacaagt atgggctgat ggacacaatg
2161 agagttggaa aacagctcaa ggatgtcaag actatgtcag acctcaaaca agcacttaag
2221 aacatcgcga tcaagaagtg ccagatagtg tacaatggtg gcacctacac acttgaggct
2281 gatggcaagg gcaatgtgaa agttgacaaa gtgcaaagtg ccactgtgca gaccaacaat
2341 gaactagccg gtgccctaca ccacctaaga tgcgctagaa tcagatacta tgttaagtgc
2401 gtccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt caccacgcgc
2461 atcgctaagc gcatgaatat acagaatctc tggtccaagc cacaggtgga agacacagaa
2521 gagatggcca acaaagatgg ttgcctaaaa cccaaagatg atgaagagtt tgtcgtttca
2581 tccgacgaca tcaaaactga gggcaagaaa gggaagaaca agtccggccg tggcaagaag
2641 cacacagcct tctcaagtaa agggctcagt gatgaggagt acgatgagta caaaagaatc
2701 agagaagaaa ggaatggtaa gtactccata gaagagtacc ttcaggacag agacaggtac
2761 tacgaggaag tggccattgc cagggcaacc gaagaggact tctgtgaaga agaagaggcc
2821 aaaatccggc agaggatttt cagaccaaca aggaaacaac gcaaagaaga gagggcctct
2881 ctcggcttgg tcacaggatc tgaaatcagg aagagaaacc cagaagactt caaacccaag
2941 ggaaagctgt gggctgatga tgacagaagt gttgactaca atgagaaact caactttgag
3001 gccccaccaa gcatctggtc gcggatagtc aactttggtt caggctgggg cttctgggtc
3061 tcccccagtc tgtttataac atcaacccat gtcatacccc aaggtgcaaa agaattcttc
3121 ggagtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg attgagattc
3181 ccaaagccaa tcagaactga tgtgacgggc atgattctag aagaaggtgc gcccgagggg
3241 accgtggcca cactgctcat caagagacca actggagagc tcatgcctct ggcagccaga
3301 atggggaccc atgcaaccat gaaaattcag gggcgcacag ttggagggca aatgggtatg
3361 ctcctgacag gatccaacgc caagagtatg gacctaggca caacaccagg cgactgcggc
3421 tgcccctaca tctacaagag ggggaatgac tatgtggtca taggggtcca tacggccgct
3481 gcccgtggag gaaacactgt catatgtgcc acccagggaa gtgagggaga ggccacactt
3541 gaaggaggtg acagtaaagg gacatactgt ggcgcgccaa tcttgggccc agggagcgct
3601 ccgaagctca gcaccaagac taagttttgg agatcatcca caacaccact cccacctggc
3661 acctacgaac cagcctacct cggtggcaaa gaccctagag tcaaaggtgg tccttcattg
3721 caacaagtta tgagggacca gctgaagcca ttcacagaac ccagaggcaa accaccaaga
3781 ccaaatgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca aacaattgat
3841 ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac cacctccagc
3901 ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcttt cacaggaaaa
3961 ttggctgacc aagcctccaa ggccaaccta atgtttgaag agggaaagaa catgactcca
4021 gtctacacag gtgcacttaa agatgagttg gtaaagaccg ataaagttta tggtaaggtc
4081 aagaagaggc ttctgtgggg ttcagatctg gcgaccatga tacggtgcgc ccgagctttc
4141 ggaggcctca tggatgaact caaggcacac tgtgtcacac tccctgtcag agttggtatg
4201 aacatgaatg aggatggccc catcatcttc gagaagcact ccagatatag ataccactat
4261 gatgctgact attcccggtg ggactcaaca caacaaaggg atgtgctagc agcagcacta
4321 gaaatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc agaagacctc
4381 ctctccccca gcgtgatgga tgtgggtgac tttcaaatat caataagtga gggtctcccc
4441 tctggggtgc cttgtacctc ccagtggaat tccatcgccc actggctcct cactctatgt
4501 gcactctctg aagtcacgga cctgtcccct gatatcattc aggccaactc ccttttctcc
4561 ttctatggtg atgatgagat tgtaagcaca gacataaagt tggacccaga gaggctgaca
4621 gcaaaactca aggagtacgg gctgaaacca acccgccccg acaaaactga gggacccctt
4681 gttatctctg aagacctgga tggtctgaca ttcctccgga gaactgtgac ccgtgatcca
4741 gctggctggt ttggaaaatt ggaacaaagt tcaattctta ggcaaatgta ctggaccagg
4801 ggtcccaacc atgaagatcc atttgaaaca atgataccac attcccaaag acccatacaa
4861 ttgatgtcct tgctgggcga ggctgcactc cacggcccgg cattctacag caaagttagc
4921 aaattagtta ttgcagagtt gaaggaagga ggcatggatt tttacgtacc cagacaagag
4981 ccaatgttca gatggatgag attctcagat ctgagcacgt gggagggcga tcgcaatctg
5041 gctcccagtt ttgtgaatga agatggcgtc gagtgacgcc aacccatctg atgggtccgc
5101 agccaacctc gtcccagagg tcaacaatga ggttatggct ctggagcccg ttgttggtgc
5161 cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaacaa
5221 ttttgtacaa gcccctggtg gagagttcac agtgtcccct agaaacgctc caggtgaaat
5281 actatggagc gcgcccttgg gccctgatct aaatccctac ttatctcact tggccagaat
5341 gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga acgcgtttac
5401 cgccgggaag gtcatatttg cagcagtccc accaaatttt ccaactgaag gcttgagccc
5461 cagccaggtc actatgttcc cccatatagt ggtagatgtt aggcaactag aacctgtgtt
5521 gattccctta cccgatgtta ggaataattt ctatcattac aatcaatcaa atgaccccac
5581 tattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg gggatgatgt
5641 cttcacagtt tcttgccgag ttctcacgag gccatccccc gattttgact tcatatttct
5701 agtgccaccc acagttgagt caagaactaa accattctct gtcccagttt tgactgttga
5761 ggagatgacc aattcaagat tccccgttcc tttggaaaag ttgttcacgg gtcccagcag
5821 tgcctttgtt gtccaaccac aaaacggtag gtgcacgact gatggcgtgc tcctaggcac
5881 cacccaactg tctcctgtca acatctgcgc cttcagagga gatgtcaccc acatcacagg
5941 tagtcataac tacacaatga atttggcttc tcaaaattgg agcaattacg acccaacaga
6001 agaaattcca gcccctctag ggactccaga ctttgtgggg aagattcaag gcatgcttac
6061 ccaaaccacc aggacagatg gctcaacacg cggccacaaa gccacagtgt acactgggag
6121 cgccgacttt gctccaaaac tgggtagagt tcaatttgaa actgacacaa acaatgattt
6181 tgaagctaac caaaacacaa agttcacccc agttggtgtc atccaagatg gtggcaccac
6241 ccaccgaaat gaaccccaac agtgggtgct cccaagttac tcaggcagga acactcctaa
6301 tgtgcatctg gcccccgctg tagcccccac ttttccaggt gagcaactcc tcttcttcag
6361 atccaccatg cccggatgca gcgggtaccc caacatggat ttggattgtc tgctccccca
6421 ggaatgggtg cagtacttct accaagaggc agccccagca caatctgatg tggctctgct
6481 aagatttgtg aatccagaca caggtagggt tttgtttgaa tgtaagcttc ataaatcagg
6541 ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca atggttattt
6601 taggtttgat tcctgggtca accagtttta cacgcttgcc cccatgggaa atggagcggg
6661 gcgtagacgt gcactataat ggctggaact ttctttgctg gattggcatc tgatgtcctt
6721 ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgag
6781 tttgaaaata atagaaaatt gcaacaagca tccttccaat ttagcagcaa tctacaacag
6841 gcttcctttc aacatgacaa agagatgctc caagcacaaa ttgaggctac caaaaggtta
6901 caacaggaaa tgatgaaagt taagcaggca atgctcttag agggtgggtt ctctgagaca
6961 gatgcagccc gcggggcaat caacgcccct atgacaaaag ctttggactg gagcgggaca
7021 aggtactggg ctcctgatgc tagggctaca acatacaatg caggccgctt ttccaccccc
7081 caaccatcgg gggcgctgcc aggaagagct aaccttaggg atgctgtccc tgctcggggt
7141 tcctctagta agtcttctaa ttcttctact gctacttctg tgtactcaaa tcaaactatt
7201 tcaacgagac ttggttctac agctggttct ggtaccagtg tctcgagctt cccgtcaact
7261 gcaaggacta ggagctgggt tgaggatcaa agcaggaatt tgtcaccttt catgaggggg
7321 gcccacaaca tatcgtttgt caccccacca tctagcagat cctctagcca aggcacagtc
7381 tcaaccgtgc ctaaagagat tttggactcc tggactggcg cttttaacac gcgcaggcag
7441 ccactcttcg ctcacattcg taagcgaggg gagtcacggg tgtaatgtga aaagaca
//