Typing tool
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Typing tool
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Complete norovirus genomes
| LC726076 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5088
ORF2: 5069..6691
ORF3: 6691..7488
LOCUS LC726076 7509 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1238F/Tokyo/2022/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726076
VERSION LC726076.1
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., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April
2021-March 2022
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7509)
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (23-AUG-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..7509
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1238F/Tokyo/2022/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2022-02"
gene <1..5088
/gene="POL"
CDS <1..5088
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDQ32344.1"
/translation="SNDASAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPP
PRETPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNT
AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKV
ELAPLSLFWRPVYTPQYLVSPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS
PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI
AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKNAFSHDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERLDEYELQGPTLATFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK
QALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARI
RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKGGCLKPK
DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE
IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT
LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES
FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMV
RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ
RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL
KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGPNHED
PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5069..6691
/gene="VP1"
CDS 5069..6691
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32345.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGGVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6691..7488
/gene="VP2"
CDS 6691..7488
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32346.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGAMPGRRDAVPARGSSSKSSNSS
TATSVYTNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNISFV
TPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tctaacgacg cttccgctgc cgctgttgcc aacagcaaca acgacatcgc aaaatcttca
61 agtgacggta tgttttctaa catggctgtc acttttaagc gggccctcgg ggcgcggcct
121 aaacagccgc ccccgaggga aacaccaccc aggcccccgc gaccacccac gccagaattg
181 gtcaaaaaga tccctcctcc cccacccaac ggggaggatg aactagtggt ctcttacaac
241 gccaaagatg gcgtttccgg actgcctgag ctcaccactg tcagacaacc ggaagaaacc
301 aacacggcgt tcagtgtccc cccactcaac caaagggaga gcagggacgc caaggagcca
361 ctaactggaa caatcattga aatgtgggat ggagaaatct accattacgg cctgtacgtg
421 gaacgaggtc ttgtacttgg tgtgcacaag ccaccagcag ccatcagcct cgctaaggtc
481 gagctggcac cgctctcttt gttctggagg cctgtataca ccccccagta cctcgtctct
541 ccagacactc ttaggagatt acatggagag tcattcccct acactgcttt tgacaacaat
601 tgctacgcct tttgttgttg ggtgttagac ctaaacgact catggctaag caggagaatg
661 attcagagaa caacaggctt cttcaggccg taccaggatt ggaacaggaa acccctcccc
721 actatggatg actccaaatt aaagaaggta gccaacatat tcttgtgcac tttgtcttca
781 ctattcacca ggcccatcaa ggacataata gggaagttga aacctctcaa catccttaat
841 atcctggcta catgtgattg gaccttcgca ggcatagtgg aatccttaat actcttggca
901 gaactctttg gagttttctg gacaccccca gatgtgtctg cgatgatcgc ccccttgctt
961 ggtgattatg aactgcaagg acccgaggac cttgcagtgg aactggtccc agtagtgatg
1021 ggggggatag gtttggtgct aggatttacc aaagagaaga tcggtaaaat gttgtcatcc
1081 gctgcatcca ctttaagagc ttgtaaagac cttggtgcat acggactgga aatcttaaaa
1141 ttggtcatga agtggttctt cccaaagaaa gaggaagcaa atgaactggc catggtgaga
1201 tccatcgagg atgcagtact agacctcgag gcaattgaaa acaaccacat gaccaccctg
1261 ctcaaagaca aagacagctt gacaacctac atgagaaccc ttgaccttga ggaggagaaa
1321 gccagaaaac tctcaaccaa atctgcttca cccgatattg tgggcacaat caactctctt
1381 ctggcaagaa tcgctgctgc acgctcccta gtgcatcggg cgaaagaaga gctctccagc
1441 aggccgagac ctgtcgttgt aatgatatcg ggaagaccag gaatagggaa aactcacctt
1501 gccagggagc tggccaagaa gatcgcggcc tccctcacag gggaccagcg tgtgggcctt
1561 atcccacgca atggtgtcga ccactgggac gcatacaagg gcgaaagggt tgtcctatgg
1621 gacgactatg gaatgagcaa ccccatccat gatgccctta ggttgcagga gcttgctgac
1681 acttgccccc tcacgctaaa ttgtgacaga attgagaaca aaggaaaagt ctttgatagt
1741 gatgccataa ttatcaccac caacctggcc aacccagcac cactagatta tgtcaatttt
1801 gaagcgtgct cgagacgcat tgatttcctc gtgtacgcag aagcccctga ggtggagaag
1861 gcaaagcgcg acttcccagg tcaacctgac atgtggaaga acgctttcag tcatgacttc
1921 tcacacataa aactgacatt ggctccacag ggtggttttg ataagaacgg caacaccccg
1981 catggaaaag gggtcatgaa gaccctcacc actggctccc tcatcgcccg agcatcaggg
2041 ttactccatg agaggctaga tgaatatgaa ttgcaaggcc caaccctcgc cactttcaac
2101 tttgaccgca acaagatact cgcttttaga cagcttgctg ctgaaaacaa gtatgggctg
2161 atggacacaa tgagagttgg aaaacagctc aaggatgtca agactatgtc agacctcaaa
2221 caagcactca agaacatcgc gatcaagaag tgccagatag tgtacaatgg tggcacctac
2281 acacttgagg ctgatggcaa gggcagtgtg aaagttgata aagtgcagag tgctactgtg
2341 cagaccaaca atgaactagc cggtgcccta caccacctaa gatgcgctag aatcagatac
2401 tatgttaagt gcgtccagga ggcactgtat tccatcatcc aaatcgctgg ggctgcattc
2461 gtcacaacgc gcatcgctaa gcgcatgaat atacagaatc tctggtccaa gccgcaggtg
2521 gaagacacag aagagatggc caacaaaggt ggttgcctaa aacccaaaga tgatgaagag
2581 tttgtcgttt catccgacga catcaagact gagggcaaga aagggaagaa caagtccggc
2641 cgtggcaaga agcacacagc cttttcaagt aaagggctca gtgatgagga gtacgatgag
2701 tacaagagaa tcagagaaga aaggaatggt aagtactcca tagaagagta ccttcaggac
2761 agagacaggt actacgagga ggtggccatt gccagggcaa ccgaagagga cttttgtgaa
2821 gaagaagagg ccaaaatccg gcagaggatt ttcagaccaa caaggaaaca acgcaaagaa
2881 gagagggctt ctcttggctt ggtcacgggt tctgaaatca ggaagagaaa cccagaagac
2941 ttcaaaccca agggaaagct gtgggctgat gacgacagaa gtgttgacta caatgaaaaa
3001 ctcaactttg aggccccgcc aagcatctgg tcgcggatag tcaactttgg ttcaggctgg
3061 ggcttctggg tctcccccag tctgtttata acatcaaccc atgtcatacc ccaaggtgca
3121 aaggagttct tcggagtccc tatcaagcaa atccagatac acaagtcagg tgaattctgc
3181 cgattgagat ttccaaagcc aatcagaacc gatgtgacgg gcatgattct agaagaaggt
3241 gcgcccgagg ggaccgtggc cacactgctt atcaagagac caactggaga gctcatgcct
3301 ctggcagcca gaatggggac ccatgcaacc atgaaaatcc aggggcgcac agttggaggg
3361 caaatgggta tgctcctgac aggatctaac gccaagagta tggacttggg cacaacacca
3421 ggcgactgcg gctgccccta catctacaag agggggaatg actacgtggt cataggggtc
3481 catacggctg ctgcccgtgg aggaaacact gtcatatgtg ccacccaggg gagtgaggga
3541 gaggccacac ttgaaggagg tgacagcaaa gggacatact gtggcgcgcc aatcttaggc
3601 ccagggagcg ctccgaagct cagcactaag actaagtttt ggagatcatc cacaacgcca
3661 ctcccacctg gcacctacga accagcctac ctcggtggca aagaccccag agtcaaaggt
3721 ggcccttcat tgcaacaagt tatgagggac caactgaagc cattcacaga acccagagga
3781 aaaccaccaa gaccaaacgt gttggaagct gccaagaaaa ccatcatcaa tgtccttgag
3841 caaacaattg atccacccca aaaatggtca tttgcgcaag cttgcgcatc ccttgacaaa
3901 accacctcca gcggccaccc gcaccacatg cggaaaaacg actgttggaa tggggagtcc
3961 ttcacaggaa agttggctga ccaagcctcc aaggccaacc taatgtttga agagggaaag
4021 aacatgactc cagtctacac aggtgcactt aaagatgagt tggtgaagac cgataaagtg
4081 tatggtaagg tcaagaagag gcttttatgg ggttcagatc tggcgaccat ggtacggtgc
4141 gcccgagctt ttggaggcct catggatgaa ctcaaggcac actgtgtcac actccctgtc
4201 agagttggta tgaacatgaa tgaggatggc cccatcatct tcgagaagca ctccaggtat
4261 agatatcatt atgatgctga ctattcccgg tgggactcaa cacaacaaag ggatgtgctg
4321 gcagcagcac tagagatcat ggttaagttc tctccagaac cacacctggc ccagatagtt
4381 gcagaagacc tcctttcccc tagcgtgatg gatgtgggtg actttcaaat atcaataagt
4441 gagggtctcc cctctggggt accttgcacc tcccagtgga attccatcgc ccactggctc
4501 ctcactctgt gtgcactctc tgaagtcacg gacctgtccc ctgatatcat tcaggctaac
4561 tcccttttct ccttctatgg tgatgatgag attgtaagca cagatataaa gttggaccca
4621 gagaggctaa cagcaaagct caaggagtac gggctgaaac caacccgccc cgacaagact
4681 gaaggacccc ttgtcatctc tgaagacctg gatggtctga cattcctccg gagaactgta
4741 acccgtgatc cagctggctg gtttggaaaa ttggaacaag gttcaattct taggcagatg
4801 tactggacca ggggccccaa ccacgaagac ccatttgaaa caatgatacc acactcccaa
4861 agaccaatac aattgatgtc cttgctgggc gaggctgcac tccacggccc ggcattctac
4921 agcaaaatta gcaaattagt cattgcagag ttgaaggaag gtggcatgga tttttacgtg
4981 cccagacaag agccaatgtt cagatggatg agattctcag atctgagcac gtgggagggc
5041 gatcgcaatc tggctcccag tttcgtgaat gaagatggcg tcgagtgacg tcaacccatc
5101 tgatgggtcc gcagccaacc tcgtcccaga ggtcaacaat gaggttatgg ctctggagcc
5161 cgttgttggt gccgccattg cggcacctgt agcgggccaa caaaatgtaa ttgacccctg
5221 gattagaaac aattttgtac aagcccctgg tggagagttc acagtatccc ctagaaacgc
5281 tccaggtgaa atactatgga gcgcgccctt gggccctgat ctaaacccct acttgtctca
5341 tttggccaga atgtacaatg gttatgcagg tggttttgaa gtgcaggtaa tcctcgcggg
5401 gaacgcgttc accgccggga aggtcatatt tgcagcagtc ccaccaaatt tcccaactga
5461 aggcttgagc cccagccagg tcactatgtt cccccatata gtagtagatg tcaggcaatt
5521 agaacctgtg ttgattccct tacctgatgt taggaataat ttctatcatt acaatcaatc
5581 aaatgacccc accattaagt tgatagcaat gttgtataca ccacttaggg ctaataatgc
5641 tggggacgat gtcttcacgg tttcttgtcg agttctcacg agaccatccc ccgattttga
5701 cttcatattt ctagtgccac ccacagttga gtcaagaact aaaccattct ctgtcccagt
5761 tctgactgtt gaggagatga ccaattcaag attccccatc cctttggaaa agttgttcac
5821 gggtcccagc agcgcctttg ttgtccaacc acaaaatggt aggtgcacga ctgatggcgt
5881 gctcctaggc accacccaac tgtctcctgt caacatctgc acctttagag gaggtgtcac
5941 acatatcaca ggcagtcata actatacaat gaatttggct tctcaaaatt ggagcaacta
6001 tgacccaaca gaagaaatcc cagcccctct aggtactcca gactttgtgg ggaagataca
6061 aggcatgctc acccaaacca caaggacaga tggctcaaca cgcggccaca aagccacagt
6121 gtacactggg agcgccgact ttgctccaaa actgggtagg gtccaatttg aaactgacac
6181 aaacaatgat tttgaggcta accaaaacac aaagttcacc ccagttggtg tcatccaaga
6241 tggtggcacc actcatcgaa atgaacccca acagtgggtg ctcccaagtt actcaggcag
6301 gaacactcct aatgtgcatc tggcccccgc tgtggccccc acttttccag gtgagcaact
6361 ccttttcttt agatccacca tgcccggatg cagcgggtac cccaacatgg atttggattg
6421 tttgctcccc caggaatggg tgcagtactt ctaccaggag gcagccccag cacaatctga
6481 tgtggctctg ctaagatttg tgaatccaga cacaggtagg gttttgtttg aatgtaagct
6541 tcataaatca ggttatgtta cagtggctca cactggccaa catgatttgg ttatcccccc
6601 caacggttat tttaggtttg attcctgggt caaccagttc tacacacttg cccccatggg
6661 aaatggagcg gggcgtagac gtgcactata atggctggag ctttctttgc tggattggca
6721 tctgatgttc ttggctctgg acttggttcc cttatcaatg ctggggctgg ggccatcaac
6781 caaaaagttg agtttgaaaa taatagaaaa ttgcagcaag catccttcca atttagcagc
6841 aatctacaac aggcttcctt tcaacatgat aaagagatgc ttcaagcaca aattgaggct
6901 accaaaaggt tacaacagga aatgatgaaa gttaagcagg caatgctcct agagggtgga
6961 ttctctgaga cagatgcagc ccgcggggca atcaacgccc ctatgacaaa agccttggac
7021 tggagcggga caaggtactg ggctcctgat gctaggacta caacatacaa tgcaggccgc
7081 ttctccaccc cccaaccatc gggggcgatg ccaggaagaa gggatgctgt ccctgctcgg
7141 ggttcctcta gtaagtcttc taattcttct actgcaactt ctgtgtatac aaatcaaaca
7201 atttcaacga gacttggttc tacagctggt tctggtacca gtgtctcgag cttcccgtca
7261 actgcaagga ctaggagctg ggttgaggac caaagtagga atttgtcacc tttcatgagg
7321 ggggcccaca acatatcgtt tgtcacccca ccatctagca ggtcctctag ccaaggcaca
7381 gtctcaaccg tgcctaaaga ggttttggac tcctggactg gcgctttcaa cacgcgcagg
7441 cagccactct tcgctcacat tcgtaagcga ggggagtcac gggtgtaatg tgaaaaggca
7501 aaattgatt
//