Typing tool
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Typing tool
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Complete norovirus genomes
| LC726078 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..4777
ORF2: 4758..6380
ORF3: 6380..7186
LOCUS LC726078 7197 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1243F/Tokyo/2022/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726078
VERSION LC726078.1
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., 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JOURNAL Unpublished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 7197)
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..7197
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1243F/Tokyo/2022/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2022-02"
gene <1..4777
/gene="POL"
CDS <1..4777
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDQ32350.1"
/translation="SVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGV
HKPPAAISLAKVELAPLSLFWRPVYAPQYLISPDTLRRLHGESFPYTAFDNNCYAFCC
WVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTR
PIKDIIGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGD
YELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILK
LVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEE
EKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIG
KTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALR
LQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVY
AEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLT
TGSLIARASGLLHERLDEYELQGSALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGK
QLKDVKTMSDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVRVDKVQSATVQTNNEL
TGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTE
EMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYK
RIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKE
ERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGS
GWGFWVSPSLFITSTHVIPQGVKEFFGVPVKQIQIHKSGEFCRLRFSKPIRTDVTGMI
LEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSM
DLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGT
YCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRD
QLKPFTEPRGRPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPH
HMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKK
RLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHY
DADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEG
LPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDP
ERLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILR
QMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGM
DFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 4758..6380
/gene="VP1"
CDS 4758..6380
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32351.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHTTGSHHYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6380..7186
/gene="VP2"
CDS 6380..7186
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32352.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTATYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS
SSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cagtgtcccc ccactcaacc aaagggagag cagggacgcc aaggagccac taactggaac
61 aatcattgaa atgtgggatg gagaaatcta ccattacggc ctgtacgtgg aacgaggtct
121 tatacttggt gtgcacaagc caccagcagc aatcagcctc gccaaggtcg agttggcacc
181 gctctctttg ttctggagac ctgtatacgc cccccagtac cttatctctc cagacactct
241 taggagatta catggagagt cattccccta cactgcattt gacaacaatt gctacgcctt
301 ttgttgttgg gtattagacc taaacgactc atggctaagc aggagaatga ttcagagaac
361 aacaggcttc ttcaggccgt accaggattg gaacaggaaa cccctcccca ctatggatga
421 ttccaaatta aagaaggtag ccaacatatt cttgtgcact ttgtcttcac tattcaccag
481 acccattaag gacataatag ggaagttgag acctctcaac atccttaata ttctggctac
541 atgtgattgg accttcgcag gcatagtgga atccttaata ctcttggcag aactctttgg
601 agttttctgg acacccccag atgtgtctgc gatgatcgcc cccttgctag gtgattatga
661 actgcaagga cccgaggacc ttgcagtgga actggtccca atagtgatgg gggggatagg
721 tttggtgcta ggatttacca aagagaaaat cggaaagatg ctgtcatccg ctgcgtccac
781 tttaagagct tgtaaagacc ttggtgcata cggactggaa atcttaaaat tggtcatgaa
841 gtggttcttc ccaaagaaag aggaagcaaa tgaactggct atggtgagat ccatcgagga
901 tgcagtacta gacctcgagg cgattgaaaa caaccacatg accaccctgc tcaaagacaa
961 agacagcttg acaacctaca tgagaaccct tgaccttgag gaggagaaag ccagaaaact
1021 ctcaaccaaa tctgcttcac ccgatattgt gggtacaatt aactctcttc tggcaaggat
1081 cgctgctgca cgctccctag tgcatcgggc gaaagaagag ctctccagca ggccgagacc
1141 tgtcgttgta atgatatcgg gaagaccagg gatagggaaa actcaccttg ccagggagct
1201 ggccaagaag atcgcggcct ccctcacagg ggaccagcgt gtgggcctta tcccacgcaa
1261 tggtgtcgac cactgggacg catacaaggg cgaaagagtt gttctatggg acgactatgg
1321 aatgagcaac cccatccatg atgccctcag attgcaggag cttgctgata cttgccccct
1381 cacgctaaat tgtgacagaa ttgagaacaa gggaaaagtc tttgacagcg atgccataat
1441 tatcaccacc aacctggcca acccagcacc actggattat gtcaactttg aagcgtgctc
1501 gagacgcatt gatttcctcg tgtacgcaga agcccctgag gtggagaagg cgaagcgcga
1561 cttcccaggt caacctgaca tgtggaagaa cgctttcagt cctgacttct cacacataaa
1621 actgtcattg gctccacaag gcggttttga caaaaacggc aacaccccgc atggaaaagg
1681 ggtcatgaag accctcacca ctggctccct catcgcccga gcatcagggt tgctccatga
1741 gaggctagat gagtatgaat tgcaaggttc agccctcacc actttcaact ttgaccgcaa
1801 caagatactt gcctttagac agcttgctgc tgaaaacaag tatgggctga tggacacaat
1861 gagagttgga aaacagctta aggatgtcaa gacaatgtca gacctcaaac aagcactcaa
1921 gaacatcgcg atcaagaagt gccagatagt gtacaatggt ggcacctaca cacttgaggc
1981 tgatggcaag ggcagtgtga gagttgacaa agtgcaaagt gccactgtgc agaccaacaa
2041 tgaactaacc ggtgccctac accacctaag atgcgctaga atcaggtact atgttaagtg
2101 cgtccaggag gcactgtatt ccatcatcca aatcgctggg gctgcgttcg tcaccacgcg
2161 catcgctaag cgcatgaata tacagaatct ctggtccaag ccacaggtgg aagacacaga
2221 agagatggcc aacaaagatg gttgcctaaa acccaaagat gatgaagagt ttgtcgtttc
2281 atccgacgac atcaaaactg agggcaagaa agggaagaac aagtccggcc gtggcaagaa
2341 acatacagcc ttttcaagta aagggctcag tgatgaggag tacgatgagt acaaaagaat
2401 cagagaagaa aggaatggta agtactctat agaagagtac cttcaggaca gagacaggta
2461 ctacgaggag gtggccattg ccagggcaac cgaagaggac ttctgtgaag aagaagaggc
2521 caaaatccgg cagaggattt tcagaccaac aaggaaacaa cgcaaagaag agagggcctc
2581 tctcggcttg gtcacaggct ctgaaatcag gaagagaaac ccagaagact tcaaacccaa
2641 gggaaagctg tgggctgatg atgacagaag tgttgactac aatgagaaac tcaactttga
2701 ggccccacca agcatctggt cgcggatagt caactttggt tcaggctggg gcttctgggt
2761 ctcccccagt ctgtttataa catcaaccca tgttataccc cagggtgtaa aagagttttt
2821 cggagtccct gtcaagcaaa tccagataca caagtcaggt gaattctgcc gattgagatt
2881 ctcaaagcca atcagaaccg atgtgacggg catgattcta gaagaaggtg cgcccgaggg
2941 gaccgtggcc acactgctca tcaagagacc aactggagag ctcatgcccc tggcagccag
3001 aatggggacc catgcaacca tgaaaattca ggggcgcaca gttggagggc aaatgggtat
3061 gctcctgaca ggatccaacg ccaagagtat ggacctaggc acaacaccag gcgactgcgg
3121 ctgcccctac atctacaaga gggggaatga ctacgtggtc ataggggtcc atacggccgc
3181 tgcccgcgga ggaaacactg tcatatgtgc cacccaggga agtgagggag aggctacact
3241 cgaaggaggt gatagtaaag ggacatactg tggcgcgcca atcttgggcc cagggagcgc
3301 tccgaagctc agcaccaaga ctaagttttg gagatcatcc acaacaccac tcccacctgg
3361 cacctacgaa ccagcctacc tcggtggcaa agaccctaga gtcaaaggtg gcccttcatt
3421 gcaacaagtt atgagggacc agctgaagcc attcacagaa cccagaggca gaccaccaag
3481 accaaatgtg ttggaagctg ccaagaaaac catcatcaat gtccttgagc aaacaattga
3541 tccaccccaa aaatggtcat tcgcgcaagc ttgcgcatcc cttgacaaaa ccacctccag
3601 cggccacccg caccacatgc ggaaaaacga ctgttggaat ggggagtcct tcacaggaaa
3661 attggctgac caagcctcca aggccaacct aatgtttgaa gagggaaaga acatgactcc
3721 agtctacaca ggtgcactta aagatgagtt ggtaaagacc gataaagttt atggtaaggt
3781 caagaagagg cttctgtggg gttcagacct ggcgaccatg atacggtgcg cccgagcttt
3841 tggaggcctc atggatgaac tcaaggcaca ctgtgtcacg ctccctgtca gagttggtat
3901 gaacatgaat gaggatggcc ccatcatctt cgagaagcac tccagatata gatatcacta
3961 tgatgctgac tattcccgat gggactcaac acaacaaagg gatgtgctag cagcagcact
4021 agaaatcatg gttaagttct ctccagaacc acacctggcc cagatagttg cagaagacct
4081 cctctctcct agcgtgatgg atgtgggtga ctttcaaata tcaataagtg agggtctccc
4141 ctctggggtg ccttgtacct cccagtggaa ttccatcgcc cactggctcc tcactctgtg
4201 tgcactctct gaagtcacgg acctgtcccc tgatatcatt caggccaact cccttttctc
4261 cttttatggt gatgatgaga ttgtaagcac agacataaag ttggacccag agaggctgac
4321 agcaaaactc aaggagtacg ggctgaaacc aacccgcccc gacaaaactg aaggacccct
4381 cgttatctct gaagacctgg atggtctgac attcctccgg agaactgtga cccgtgaccc
4441 agctggttgg tttggaaaat tggaacaaag ttcaattctt aggcaaatgt actggaccag
4501 gggtcccaac catgaagatc catttgaaac aatgatacca cactcccaaa gacccataca
4561 gttgatgtcc ttgctgggcg aggctgcact ccacggcccg gcattctaca gcaaaattag
4621 caaattagtc attgcagagt tgaaggaagg tggcatggat ttttacgtac ccagacaaga
4681 gccaatgttc agatggatga gattctcaga tctgagcacg tgggagggcg atcgcaatct
4741 ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc caacccatct gatgggtccg
4801 cagccaacct cgtcccagag gtcaacaatg aggttatggc tctggagccc gttgttggtg
4861 ccgccattgc ggcgcctgta gcgggccagc aaaatgtaat tgacccctgg attagaaaca
4921 attttgtaca agcccctggt ggagagttca cagtgtcccc tagaaacgct ccaggtgaaa
4981 tactatggag cgcgcccttg ggccctgatc taaatcccta cttatctcat ttggccagaa
5041 tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat tctcgcgggg aacgcgttca
5101 ccgccgggaa ggtcatattt gcagcagtcc caccaaattt tccaactgaa ggcttgagcc
5161 ccagccaggt cactatgttc ccccatatag tagtagatgt taggcaatta gaacctgtgt
5221 tgataccctt acccgatgtt aggaataatt tctatcatta taatcaatca aatgacccca
5281 ctatcaagct gatagcaatg ttgtacacac cacttagggc taataatgct ggggatgatg
5341 tcttcacagt ttcttgccga gttctcacga ggccatcccc cgattttgac ttcatatttc
5401 tagtgccacc cacagttgag tcaagaacta agccattctc tgtcccagtt ttaactgttg
5461 aggagatgac caattcaaga ttccccattc ctttggaaaa gttgttcacg ggtcccagca
5521 gtgcctttgt tgtccaacca caaaacggta ggtgcacgac tgatggcgtg ctcctaggca
5581 ccacccaact gtctcctgtc aacatctgca ccttcagagg agatgtcacc cataccacag
5641 gtagtcacca ctacacaatg aatttggctt ctcaaaattg gagcaattac gacccaacag
5701 aagaaattcc agcccctcta gggactccag actttgtggg gaagattcaa ggcatgctta
5761 cccaaaccac aaggacagat ggctcaacac gcggccacaa agccacagtg tacactggga
5821 gcgccgactt tgccccaaaa ctgggtagag ttcaatttga aactgacaca aacaatgatt
5881 ttgaagctaa ccaaaacaca aagttcaccc cagttggtgt catccaagat ggtggcacca
5941 cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta ctcaggcagg aacactccta
6001 atgtgcatct ggcccccgct gtagccccca cttttccggg cgagcaactc ctcttcttca
6061 gatccaccat gcccggatgc agcgggtacc ccaacatgga tttggattgt ctgctccccc
6121 aggaatgggt gcagtacttc taccaagagg cagccccagc acaatctgat gtggctctgc
6181 taaggtttgt gaatccagac acaggtaggg ttttgtttga atgtaagctt cacaagtcag
6241 gttatgttac agtggctcac actggccaac atgatttggt tatccccccc aatggttatt
6301 ttaggtttga ctcctgggtc aaccagtttt acacgcttgc ccccatggga aatggagcgg
6361 ggcgtagacg tgcactataa tggctggagc tttctttgct ggattggcat ctgatgtcct
6421 tggctctggg cttggttccc ttatcaatgc tggggctggg gccatcaacc aaaaagttga
6481 gtttgaaaat aacagaaaac tgcaacaagc atccttccaa tttagcagca atctacaaca
6541 ggcttccttt caacatgaca aagagatgct ccaagcacaa attgaggcta ccaaaaggtt
6601 acaacaggaa atgatgaaag ttaaacaggc aatgctctta gagggtgggt tctctgagac
6661 agatgcagcc cgcggggcaa tcaacgcccc tatgacaaaa gctttggatt ggagcgggac
6721 aaggtactgg gctcctgatg ctaggactgc aacatacaat gcaggtcgct tttccacccc
6781 ccaaccatcg ggggcgctgc caggaagagc taaccttagg gatgctgccc ccgctcgggg
6841 ttcctctagt aagtcttcta gttcttctac tgctacttct gtgtactcaa atcaaactat
6901 ttcaacgaga cttggttcta cagctggttc tggtaccagt gtctcgagcc tcccgtcaac
6961 tgcaaggact aggagctggg ttgaggatca aagtaggaat ttgtcacctt tcatgagggg
7021 ggcccacaac atatcgtttg tcaccccacc atctagcaga tcctctagcc aaggcacagt
7081 ctcaaccgtg cctaaagaga ttttggactc ctggactggc gctttcaaca cgcgcaggca
7141 gccactcttc gctcacattc gtaagcgagg ggagtcacgg gtgtaatgtg aaaagac
//