Typing tool
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Typing tool
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Complete norovirus genomes
| LC699540 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5070
ORF2: 5051..6673
ORF3: 6673..7470
LOCUS LC699540 7500 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1145/Tokyo/2022/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699540
VERSION LC699540.1
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JOURNAL Unpublished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 7500)
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..7500
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1145/Tokyo/2022/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2022-01"
gene <1..5070
/gene="POL"
CDS <1..5070
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDG75424.1"
/translation="AAVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPPPRETPP
RPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTAFSVPP
LNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLS
LFWRPVYTPQYLVSPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRT
TGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNIL
ATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVM
GGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAM
VRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPDIVGT
INSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTG
DQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIE
NKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPD
MWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDE
YELQGPTLATFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNI
AIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYVKC
VQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKGGCLKPKDDEEFV
VSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQD
RDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNP
EDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVI
PQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRP
TGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRG
NDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTK
TKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVL
EAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLA
DQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMVRCARAF
GGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAA
ALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWL
LTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTRPD
KTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGPNHEDPFETMI
PHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSD
LSTWEGDRNLAPSFVNEDGVE"
gene 5051..6673
/gene="VP1"
CDS 5051..6673
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75425.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGGVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6673..7470
/gene="VP2"
CDS 6673..7470
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75426.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGAMLGRRDAVPARGSSSKSSNSS
TATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNISFV
TPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gccgctgttg ccaacagcaa caacgacatc gcaaaatctt caagtgacgg tatgttttct
61 aacatggctg tcacttttaa gcgggccctc ggggcgcggc ctaaacagcc gcccccgagg
121 gaaacaccac ccaggccccc gcgaccaccc acgccagaat tggtcaaaaa gatccctcct
181 cccccaccca acggggagga tgaactagtg gtctcttaca acgccaaaga tggcgtttcc
241 ggactgcctg agctcaccac tgtcagacaa ccggaagaaa ccaacacggc gttcagtgtc
301 cccccactca accaaaggga gagcagggac gccaaggagc cactaactgg aacaatcatt
361 gaaatgtggg atggagaaat ctaccattac ggcctgtacg tggaacgagg tcttgtactt
421 ggtgtgcaca agccaccagc agccatcagc ctcgctaagg tcgagctggc accgctctct
481 ttgttctgga ggcctgtata caccccccag tacctcgtct ctccagacac tcttaggaga
541 ttacatggag agtcattccc ctacactgct tttgacaaca attgctacgc cttttgttgt
601 tgggtgttag acctaaacga ctcatggcta agcaggagaa tgattcagag aacaacaggc
661 ttcttcaggc cgtaccagga ttggaacagg aaacccctcc ccactatgga tgactccaaa
721 ttaaagaagg tagccaacat attcttgtgc actttgtctt cactattcac caggcccatc
781 aaggacataa tagggaagtt gaaacctctc aacatcctta atatcctggc tacatgtgat
841 tggaccttcg caggcatagt ggaatcctta atactcttgg cagaactctt tggagttttc
901 tggacacccc cagatgtgtc tgcgatgatc gcccccttgc ttggtgatta tgaactgcaa
961 ggacccgagg accttgcagt ggaactggtc ccagtagtga tgggggggat aggtttggtg
1021 ctaggattta ccaaagagaa gatcggtaaa atgttgtcat ccgctgcatc cactttaaga
1081 gcttgtaaag accttggtgc atacggactg gaaatcttaa aattggtcat gaagtggttc
1141 ttcccaaaga aagaggaagc aaatgaactg gccatggtga gatccatcga ggatgcagta
1201 ctagacctcg aggcaattga aaacaaccac atgaccaccc tgctcaaaga caaagacagc
1261 ttgacaacct acatgagaac ccttgacctt gaggaggaga aagccagaaa actctcaacc
1321 aaatctgctt cacccgatat tgtgggcaca atcaactctc ttctggcaag aatcgctgct
1381 gcacgctccc tagtgcatcg ggcgaaagaa gagctctcca gcaggccgag acctgtcgtt
1441 gtaatgatat cgggaagacc aggaataggg aaaactcacc ttgccaggga gctggccaag
1501 aagatcgcgg cctccctcac aggggaccag cgtgtgggcc ttatcccacg caatggtgtc
1561 gaccactggg acgcatacaa gggcgaaagg gttgtcctat gggacgacta tggaatgagc
1621 aaccccatcc atgatgccct taggttgcag gagcttgctg acacttgccc cctcacgcta
1681 aattgtgaca gaattgagaa caaaggaaaa gtctttgata gtgatgccat aattatcacc
1741 accaacctgg ccaacccagc accactagat tatgtcaatt ttgaagcgtg ctcgagacgc
1801 attgatttcc tcgtgtacgc agaagcccct gaggtggaga aggcaaagcg cgacttccca
1861 ggtcaacctg acatgtggaa gaacgctttc agtcctgact tctcacacat aaaactgaca
1921 ttggctccac agggtggttt tgataagaac ggcaacaccc cgcatggaaa aggggtcatg
1981 aagaccctca ccactggctc cctcatcgcc cgagcatcag ggttactcca tgagaggcta
2041 gatgaatatg aattgcaagg cccaaccctc gccactttca actttgaccg caacaagata
2101 ctcgctttta gacagcttgc tgctgaaaac aagtatgggc tgatggacac aatgagagtt
2161 ggaaaacagc tcaaggatgt caagactatg tcagacctca aacaagcact caagaacatc
2221 gcgatcaaga agtgccagat agtgtacaat ggtggcacct acacacttga ggctgatggc
2281 aagggcagtg tgaaagttga taaagtgcag agtgctactg tgcagaccaa caatgaacta
2341 gccggtgccc tacaccacct aagatgcgct agaatcagat actatgttaa gtgcgtccag
2401 gaggcactgt attccatcat ccaaatcgct ggggctgcat tcgtcacaac gcgcatcgct
2461 aagcgcatga atatacagaa tctctggtcc aagccgcagg tggaagacac agaagagatg
2521 gccaacaaag gtggttgcct aaaacccaaa gatgatgaag agtttgtcgt ttcatccgac
2581 gacatcaaga ctgagggcaa gaaagggaag aacaagtccg gccgtggcaa gaagcacaca
2641 gccttttcaa gtaaagggct cagtgatgag gagtacgatg agtacaagag aatcagagaa
2701 gaaaggaatg gtaagtactc catagaagag taccttcagg acagagacag gtactacgag
2761 gaggtggcca ttgccagggc aaccgaagag gacttctgtg aagaagaaga ggccaaaatc
2821 cggcagagga ttttcagacc aacaaggaaa caacgcaaag aagagagggc ttctcttggc
2881 ttggtcacgg gttctgaaat caggaagaga aacccagaag acttcaaacc caagggaaag
2941 ctgtgggctg atgacgacag aagtgttgac tacaatgaaa aactcaactt tgaggccccg
3001 ccaagcatct ggtcgcggat agtcaacttt ggttcaggct ggggcttctg ggtctccccc
3061 agtctgttta taacatcaac ccatgtcata ccccaaggtg caaaggagtt cttcggagtc
3121 cctatcaagc aaatccagat acacaagtca ggtgaattct gccgattgag atttccaaag
3181 ccaatcagaa ccgatgtgac gggcatgatt ctagaagaag gtgcgcccga ggggaccgtg
3241 gccacactgc ttatcaagag accaactgga gagctcatgc ctctggcagc cagaatgggg
3301 acccatgcaa ccatgaaaat ccaggggcgc acagttggag ggcaaatggg tatgctcctg
3361 acaggatcta acgccaagag tatggacttg ggcacaacac caggcgactg cggctgcccc
3421 tacatctaca agagggggaa tgactacgtg gtcatagggg tccatacggc tgctgcccgt
3481 ggaggaaaca ctgtcatatg tgccacccag gggagtgagg gagaggccac acttgaagga
3541 ggtgacagca aagggacata ctgtggcgcg ccaatcttag gcccagggag cgctccgaag
3601 ctcagcacta agactaagtt ttggagatca tccacaacgc cactcccacc tggcacctac
3661 gaaccagcct acctcggtgg caaagacccc agagtcaaag gtggcccttc attgcaacaa
3721 gttatgaggg accaactgaa gccattcaca gaacccagag gaaaaccacc aagaccaaac
3781 gtgttggaag ctgccaagaa aaccatcatc aatgtccttg agcaaacaat tgatccaccc
3841 caaaaatggt catttgcgca agcttgcgca tcccttgaca aaaccacctc cagcggccac
3901 ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt ccttcacagg aaagttggct
3961 gaccaagcct ccaaggccaa cctaatgttt gaagagggaa agaacatgac tccagtctac
4021 acaggtgcac ttaaagatga gttggtgaag accgataaag tgtatggtaa ggtcaagaag
4081 aggcttttat ggggttcaga tctggcgacc atggtacggt gcgcccgagc ttttggaggc
4141 ctcatggatg aactcaaggc acactgtgtc acactccctg tcagagttgg tatgaacatg
4201 aatgaggatg gccccatcat cttcgagaag cactccaggt atagatatca ttatgatgct
4261 gactattccc ggtgggactc aacacaacaa agggatgtgc tggcagcagc actagagatc
4321 atggttaagt tctctccaga accacacctg gcccagatag ttgcagaaga cctcctctcc
4381 cctagcgtga tggatgtggg tgactttcaa atatcaataa gtgagggtct cccctctggg
4441 gtaccttgca cctcccagtg gaattccatc gcccactggc tcctcactct gtgtgcactc
4501 tctgaagtca cggacctgtc ccctgatatc attcaggcta actccctttt ctccttctat
4561 ggtgatgatg agattgtaag cacagatata aagttggacc cagagaggct aacagcaaag
4621 ctcaaggagt acgggctgaa accaacccgc cccgacaaga ctgaaggacc ccttgtcatc
4681 tctgaagacc tggatggtct gacattcctc cggagaactg taacccgtga tccagctggc
4741 tggtttggaa aattggaaca aggttcaatt cttaggcaga tgtactggac caggggcccc
4801 aaccacgaag acccatttga aacaatgata ccacactccc aaagaccaat acaattgatg
4861 tccttgctgg gcgaggctgc actccacggc ccggcattct acagcaaaat tagcaaatta
4921 gtcattgcag agttgaagga aggtggcatg gatttttacg tgcccagaca agagccaatg
4981 ttcagatgga tgagattctc agatctgagc acgtgggagg gcgatcgcaa tctggctccc
5041 agttttgtga atgaagatgg cgtcgagtga cgtcaaccca tctgatgggt ccgcagccaa
5101 cctcgtccca gaggtcaaca atgaggttat ggctctggag cccgttgttg gtgccgccat
5161 tgcggcacct gtagcgggcc aacaaaatgt aattgacccc tggattagaa acaattttgt
5221 acaagcccct ggtggagagt tcacagtatc ccctagaaac gctccaggtg aaatactatg
5281 gagcgcgccc ttgggccctg atctaaaccc ctacttgtct catttggcca gaatgtacaa
5341 tggttatgca ggtggttttg aagtgcaggt aatcctcgcg gggaacgcgt tcaccgccgg
5401 gaaggtcata tttgcagcag tcccaccaaa tttcccaact gaaggcttga gccccagcca
5461 ggtcactatg ttcccccata tagtagtaga tgtcaggcaa ttagaacctg tgttgattcc
5521 cttacccgat gttaggaata atttctatca ttacaatcaa tcaaatgacc ccaccattaa
5581 gttgatagca atgttgtata caccacttag ggctaataat gctggggacg atgtcttcac
5641 ggtttcttgt cgagttctca cgagaccatc ccccgatttt gacttcatat ttctagtgcc
5701 acccacagtt gagtcaagaa ctaaaccatt ctctgtccca gttctgactg ttgaggagat
5761 gaccaattca agattcccca tccctttgga aaagttgttc acgggtccca gcagcgcctt
5821 tgttgtccaa ccacaaaatg gtaggtgcac gactgatggc gtgctcctag gcaccaccca
5881 actgtctcct gtcaacatct gcacctttag aggaggtgtc acacatatca caggcagtca
5941 taactataca atgaatttgg cttctcaaaa ttggagcaac tatgacccaa cagaagaaat
6001 cccagcccct ctaggtactc cagactttgt ggggaagata caaggcatgc tcacccaaac
6061 cacaaggaca gatggctcaa cacgcggcca caaagccaca gtgtacactg ggagcgccga
6121 ctttgctcca aaactgggta gggtccaatt tgaaactgac acaaacaatg attttgaggc
6181 taaccaaaac acaaagttca ccccagttgg tgtcatccaa gatggtggca ccactcatcg
6241 aaatgaaccc caacagtggg tgctcccaag ttactcaggc aggaacactc ctaatgtgca
6301 tctggccccc gctgtggccc ccacttttcc aggtgagcaa ctccttttct ttagatccac
6361 catgcccgga tgcagcgggt accccaacat ggatttggat tgtttgctcc cccaggaatg
6421 ggtgcagtac ttctaccagg aggcagcccc agcacaatct gatgtggctc tgctaagatt
6481 tgtgaatcca gacacaggta gggttttgtt tgaatgtaag cttcataaat caggttatgt
6541 tacagtggct cacactggcc aacatgattt ggttatcccc cccaacggtt attttaggtt
6601 tgattcctgg gtcaaccagt tctacacact tgcccccatg ggaaatggag cggggcgtag
6661 acgtgcacta taatggctgg agctttcttt gctggattgg catctgatgt tcttggctct
6721 ggacttggtt cccttatcaa tgctggggct ggggccatca accaaaaagt tgagtttgaa
6781 aataatagaa aattgcagca agcatccttc caatttagca gcaatctaca acaggcttcc
6841 tttcaacatg ataaagagat gcttcaagca caaattgagg ctaccaaaag gttacaacag
6901 gaaatgatga aagttaagca ggcaatgctc ctagaaggtg gattctctga gacagatgca
6961 gcccgcgggg caatcaacgc ccctatgaca aaagccttgg actggagcgg gacaaggtac
7021 tgggctcctg atgctaggac tacaacatac aatgcaggcc gcttctccac cccccaacca
7081 tcgggggcga tgctaggaag aagggatgct gtccctgctc ggggttcctc tagtaagtct
7141 tctaattctt ctactgcaac ttctgtgtat tcaaatcaaa caatttcaac gagacttggt
7201 tctacagctg gttctggtac cagtgtctcg agcttcccgt caactgcaag gactaggagc
7261 tgggttgagg accaaagtag gaatttgtca cctttcatga ggggggccca caacatatcg
7321 tttgtcaccc caccatctag caggtcctct agccaaggca cagtctcaac cgtgcctaaa
7381 gaggttttgg actcctggac tggcgctttc aacacgcgca ggcagccact cttcgctcac
7441 attcgtaagc gaggggagtc acgggtgtaa tgtgaaaagg caaaattgat tatctttctt
//