Typing tool
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Typing tool
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Complete norovirus genomes
| LC644993 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5093
ORF2: 5074..6696
ORF3: 6696..7501
LOCUS LC644993 7501 bp RNA linear VRL 04-AUG-2021
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1503F/Tokyo/2021/Japan genomic RNA,
nearly complete genome.
ACCESSION LC644993
VERSION LC644993.1
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.,
Chiba,T., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo(April
2020-March 2021)
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7501)
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.,
Chiba,T., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (26-JUL-2021) 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..7501
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1503F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2021-03"
gene <1..5093
/gene="POL"
CDS <1..5093
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDA20603.1"
/translation="ASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP
PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVFGLPELTTVRQPEETN
TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK
VELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSA
SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDL
KQALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKP
KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEEVAIARATEEDFCEEEAAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTVKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5074..6696
/gene="VP1"
CDS 5074..6696
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDA20604.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEETPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRAQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6696..>7501
/gene="VP2"
CDS 6696..>7501
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDA20605.1"
/translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tggcgtctaa cgacgcttcc gctgccgctg ttgccaacag caacaacgac atcgcaaaat
61 cttcaagtga cggtgtgttt tctaacatgg ctgtcacttt taagcgggcc ctcggggcgc
121 ggcctaaaca gccgcccccg aaggaaatac cacccagacc cccgcgacca cccacaccag
181 aattggtcaa aaagatccct cctcccccac ccaacgggga ggatgaacta gtggtctctt
241 acagcgccaa agatggcgtt ttcggactgc ctgagctcac caccgtcaga caaccggaag
301 aaaccaacac ggcgttcagt gtccccccac tcaaccaaag agagagcaga gacgccaagg
361 agccattaac tggaacaatc attgaaatgt gggatggaga aatctaccat tacggcctgt
421 acgtggagcg aggtcttata cttggtgtgc acaagccacc agcagccatc agcctcgcca
481 aggtcgagct ggcaccgctc tctttgttct ggagacctgt atacaccccc cagtacctca
541 tctctccaga cactcttagg agattacatg gagagtcatt cccctacact gcatttgaca
601 acaattgcta cgccttttgt tgttgggtat tagacctaaa cgactcgtgg ctaagcagga
661 gaatgattca gagaacaaca ggctttttca ggccgtacca ggattggaac aggaaacccc
721 tccctactat ggatgattcc aaattaaaga aggtagccaa catattcttg tgcactttgt
781 cttcactatt caccagaccc attaaggata taatagggaa gttgaaacct ctcaacatcc
841 ttaatattct ggctacatgt gattggacct tcgcaggcat agtggaatcc ttaatactct
901 tggcagaact ctttggagtt ttctggacac ccccagatgt gtctgcgatg atcgccccct
961 tgctaggtga ttatgaactg caaggacccg aggaccttgc agtggaactg gtcccaatag
1021 tgatgggggg gataggtttg gtgctaggat ttaccaaaga gaaaatcgga aagatgctgt
1081 catccgctgc atccacttta agagcttgta aagaccttgg tgcatacgga ctggaaatct
1141 taaaattggt catgaagtgg ttcttcccaa agaaagagga agcaaatgaa ctggctatgg
1201 tgagatccat cgaggatgca gtgctagacc tcgaggcaat tgaaaacaac cacatgacca
1261 ctctgctcaa agacaaagac agcttgacaa cctacatgag aacccttgac cttgaggagg
1321 agaaagccag aaaactctca accaaatctg cttcacccga tattgtgggc acaatcaact
1381 ctcttctggc aagaatcgct gctgcacgct ccctagtgca tcgggcgaaa gaagagctct
1441 ccagcaggcc gagacctgtc gttgtaatga tatcgggaag accagggata gggaaaactc
1501 accttgccag ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg
1561 gccttatccc acgcaatggt gtcgaccact gggacgcata caagggcgaa agagttgtcc
1621 tatgggacga ctatggaatg agcaacccca tccatgatgc cctcaggttg caggagcttg
1681 ctgacacttg tcccctcacg ctaaattgtg acagaattga gaacaaggga aaagtctttg
1741 acagtgatgc cataattatc accaccaacc tggccaaccc agcaccactg gattatgtca
1801 actttgaagc gtgctcgaga cgcattgatt tcctcgtgta cgcagaagcc cctgaggtgg
1861 agaaggcaaa gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg
1921 acttctcaca cataaaactg tcattggctc cacagggtgg ttttgacaag aacggcaaca
1981 ccccgcatgg aaagggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat
2041 cagggttact ccatgagagg ctagatgaat atgaattgca aggcccagcc ctcaccactt
2101 tcaactttga ccgcaacaag gtacttgctt ttagacagct tgctgctgaa aacaagtatg
2161 ggctgatgga cacaatgaga gttggaaaac agctcaagga tgtcaagact atgtcagacc
2221 tcaaacaagc acttaagaac atcgcgatca agaagtgcca gatagtgtac aatggtggca
2281 cctacacact tgaggctgat ggcaagggca atgtgaaagt tgacaaagtg caaagtgcca
2341 ctgtgcagac caacaatgaa ctagccggtg ccctacacca cctaagatgc gctagaatca
2401 gatactatgt taagtgcgtc caggaggcac tgtattccat catccaaatc gctggggctg
2461 cattcgtcac cacgcgcatc gctaagcgca tgaatataca gaatctctgg tccaagccac
2521 aggtggaaga cacagaagag atggccaaca aagatggttg cctaaaaccc aaagatgatg
2581 aagagtttgt cgtttcatcc gacgacatca aaactgaggg caagaaaggg aagaacaagt
2641 ccggccgtgg caagaagcac acagcctttt caagtaaagg gctcagtgat gaggagtacg
2701 atgagtacaa aagaatcaga gaagaaagga atggtaagta ctccatagaa gagtaccttc
2761 aggacagaga caggtactac gaggaagtgg ccattgccag ggcaaccgaa gaggacttct
2821 gtgaagaaga agcggccaaa atccggcaga ggattttcag accaacaagg aaacaacgca
2881 aagaagagag ggcctctctc ggcttggtca caggatctga aatcaggaag agaaacccag
2941 aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt gactacaatg
3001 agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac tttggttcag
3061 gctggggctt ctgggtctcc cccagtctgt tcataacatc aacccatgtc ataccccaag
3121 gtgcaaaaga attcttcgga gtccctatca agcaaatcca gatacacaag tcaggtgaat
3181 tctgccgatt gagattccca aagccaatca gaactgatgt gacgggcatg attctagaag
3241 aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact ggagagctca
3301 tgcctctggc agccagaatg gggacccacg caaccatgaa aattcagggg cgcacagttg
3361 gagggcaaat gggtatgctc ctgacaggat ccaacgccaa gagtatggac ctaggcacaa
3421 caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac gtggtcatag
3481 gggtccatac ggccgctgcc cgtgggggaa acactgtcat atgtgccacc cagggaagtg
3541 agggagaggc cacacttgaa ggaggtgaca gtaaagggac atactgtggc gcgccaatct
3601 tgggcccagg gagcgctccg aagctcagca ccaagactaa gttttggaga tcatccacaa
3661 caccactccc acctggcacc tacgaaccag cctacctcgg tggcaaagac cctagagtca
3721 aaggtggccc ttcattgcaa caagttatga gggaccagct gaagccattc acagaaccca
3781 gaggcaaacc accaaggcca aatgtgttgg aagctgccaa gaaaaccatc atcaatgtcc
3841 ttgagcaaac aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc gcatcccttg
3901 acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgactgt tggaatgggg
3961 agtctttcac aggaaaattg gctgaccaag cctccaaggc caacctaatg tttgaagagg
4021 gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta aagaccgata
4081 aagtctatgg tagggtcaag aagaggcttc tgtggggttc agatctggcg accatgatac
4141 ggtgcgcccg agctttcgga ggcctcatgg atgaactcaa ggcacactgt gtcacactcc
4201 ctgtcagagt tggtatgaac atgaatgagg atggccccat catcttcgag aagcactcca
4261 gatatagata ccactatgat gctgactatt cccggtggga ctcaacacaa caaagggatg
4321 tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac ctggcccaga
4381 tagttgcaga agacctcctc tcccccagcg tgatggatgt gggtgacttt caaatatcaa
4441 taagtgaggg tctcccctct ggggtgcctt gtacctccca gtggaattcc atcgcccact
4501 ggctcctcac tctatgtgca ctctctgaag tcacggacct gtcccctgat atcattcagg
4561 ccaactccct tttctccttc tatggtgatg atgagattgt aagcacagac ataaagttgg
4621 acccagagag gctgacagta aaactcaagg agtacgggct gaaaccaacc cgccccgaca
4681 aaactgaagg accccttgtt atctctgaag acctggatgg tctgacattc ctccggagaa
4741 ctgtgacccg tgatccagcc ggctggtttg gaaaattgga acaaagttca attcttaggc
4801 aaatgtactg gaccaggggt cccaaccatg aagacccatt tgaaacaatg ataccacatt
4861 cccaaagacc catacaattg atgtctttgc tgggcgaggc tgcactccac ggtccggcat
4921 tctacagcaa agttagcaaa ttagttattg cagagttgaa ggaaggaggc atggattttt
4981 acgtacccag acaagagcca atgttcagat ggatgagatt ctcagatctg agcacgtggg
5041 agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgccaac
5101 ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctctg
5161 gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac
5221 ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt gtcccctaga
5281 aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgatctaaa tccctactta
5341 tctcatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc
5401 gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaattttcca
5461 actgaaggct tgagccccag ccaggtcact atgttccccc atatagtagt agatgttagg
5521 caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta tcattacaat
5581 caatcaaatg accccactat taagttgata gcaatgttgt atacaccact tagggctaat
5641 aatgctgggg atgatgtctt cacagtctct tgccgagttc tcacgaggcc atcccccgat
5701 tttgacttca tatttctagt gccacccaca gttgagtcaa gaactaaacc attctctgtc
5761 ccagttttga ctgttgagga gatgaccaat tcaagattcc ccatcccttt ggaaaagttg
5821 ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg cacgactgat
5881 ggcgtactcc taggcaccac ccaactgtct cctgtcaaca tctgcgcctt cagaggagat
5941 gtcacccaca tcacaggtag tcataactac acaatgaatt tggcttctca aaattggagc
6001 aattacgacc caacagaaga aactccagcc cctctaggga ctccagactt tgtggggaag
6061 attcaaggca tgcttaccca aaccacaagg acagatggct caacacgcgg ccacaaagcc
6121 acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagctca atttgaaact
6181 gacacaaaca atgattttga agctaaccaa aacacaaagt tcaccccagt tggtgtcatc
6241 caagatggtg gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc aagttactca
6301 ggcaggaaca ctcctaatgt gcatctggcc cccgctgtag cccccacttt tccgggtgag
6361 caactcctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg
6421 gattgtctgc tccctcagga atgggtgcag tacttctacc aagaggcagc cccagcacaa
6481 tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgaatgt
6541 aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc
6601 ccccccaatg gttattttag gtttgattcc tgggtcaacc agttttacac gcttgccccc
6661 atgggaaacg gagcggggcg tagacgtgca ctataatggc tggaactttc tttgctggat
6721 tggcatctga tgtccttggc tctggacttg gctcccttat caatgctggg gctggggcca
6781 tcaaccaaaa agttgagttt gaaaataata gaaaattgca acaagcatcc ttccaattta
6841 gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa gcacaaattg
6901 aggctaccaa aaggttacaa caggaaatga tgaaagttaa gcaggcaatg ctcttagagg
6961 gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccctatg acaaaagctt
7021 tggactggag cgggacaagg tactgggctc ctgatgctag gactacaaca tacaatgcag
7081 gccgcttctc caccccccaa ccatcggggg cgctgccagg aagagctaat cttagggatg
7141 ctgtccctgc tcggggttcc tctagtaagt cttctaattc ttctgctgct acttctgtgt
7201 actcaaatca aactatttca acgagacttg gttctacagc tggttctggt accagtgtct
7261 cgagcttccc gtcaactgca aggactagga gctgggttga ggatcaaagt aggaatttgt
7321 cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct agcagatcct
7381 ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt
7441 ttaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt
7501 a
//