Typing tool
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Typing tool
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Complete norovirus genomes
| LC699530 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5093
ORF2: 5074..6696
ORF3: 6696..7502
LOCUS LC699530 7513 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2460/Tokyo/2020/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699530
VERSION LC699530.1
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JOURNAL Unpublished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 7513)
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..7513
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/2460/Tokyo/2020/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2020-02"
gene <1..5093
/gene="POL"
CDS <1..5093
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDG75394.1"
/translation="ASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP
PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETN
TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK
VELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSA
SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDL
KQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKP
KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5074..6696
/gene="VP1"
CDS 5074..6696
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75395.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6696..7502
/gene="VP2"
CDS 6696..7502
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75396.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
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 acaacgccaa agatggcgtt tccggactgc ctgagctcac cactgtcaga caaccggaag
301 aaaccaacac ggcgttcagt gtccccccac tcaaccaaag ggagagcagg gacgccaagg
361 agccactaac tgggacaatc attgaaatgt gggatggaga aatctaccat tacggcctgt
421 acgtggaacg aggtcttata cttggtgtgc acaagccacc agcagccatc agcctcgcta
481 aggtcgagct ggcaccactc tctttgttct ggagacctgt atacaccccc cagtacctta
541 tctctccaga tactcttagg agattacatg gagagtcatt cccctacact gcatttgaca
601 acaattgcta cgccttttgt tgctgggtat tagacctaaa cgactcatgg ctaagcagga
661 gaatgattca gagaacaaca ggcttcttta ggccgtacca ggattggaac aggaaacccc
721 tccccactat ggatgattcc aaattaaaga aggtagccaa catatttttg tgcactttgt
781 cttcactatt caccaggccc atcaaggaca 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 gttctaggat ttaccaaaga gaagatcgga aagatgctgt
1081 catcagctgc atccacttta agagcttgta aagaccttgg tgcatacgga ctggaaatct
1141 taaaattggt catgaagtgg ttcttcccaa agaaagagga agcaaatgaa ctggctatgg
1201 tgagatccat cgaggatgca gtactagacc tcgaggcaat tgaaaacaac cacatgacca
1261 ccctgctcaa agacaaagac agcttgacaa cctacatgag aacccttgac cttgaggagg
1321 agaaagccag aaaactctca accaaatctg cttcacccga tattgtgggc acaatcaact
1381 ctcttctggc aagaatcgct gctgcacgct ccctagtgca tcgggcgaaa gaagagctct
1441 ccagcagacc gagacctgtc gttgtaatga tatcgggaag accagggata gggaaaactc
1501 accttgccag ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg
1561 gccttatccc acgcaatggt gtcgaccatt gggacgcata caagggcgaa agggttgtcc
1621 tatgggacga ctatggaatg agcaacccca tccatgatgc ccttaggttg caggagcttg
1681 ctgacacttg ccccctcacg ctaaattgtg acagaattga gaacaaagga aaagtctttg
1741 acagtgacgc cataattatc accaccaacc tggccaaccc agcaccactg gattatgtca
1801 attttgaagc gtgctcgaga cgcattgatt tcctcgtgta cgcagaagcc cctgaggtgg
1861 agaaggcaaa gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg
1921 acttctcaca cataaaactg tcattggctc cacagggtgg ttttgacaag aacggcaaca
1981 ccccgcatgg aaaaggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat
2041 cagggttact ccatgagagg ctagatgaat atgaattgca aggcccagcc ctcaccactt
2101 tcaactttga ccgcaacaag atacttgctt ttagacagct cgctgctgaa aacaagtatg
2161 ggctgatgga cacaatgaga gttggaaaac agctcaagga tgtcaagact atgtcagacc
2221 tcaaacaggc actcaagaac atcgcgatca agaagtgcca gatagtgtac aatggtggca
2281 cctacacact tgaggctgat ggcaagggca gtgtgaaagt tgacaaagtg caaagtgcca
2341 ctgtgcagac caataatgaa 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 gaggagtatg
2701 atgagtacaa gagaatcaga gaagaaagga atggtaagta ctccatagaa gagtaccttc
2761 aggacagaga caggtactac gaggaggtgg ccattgccag ggcaaccgaa gaggacttct
2821 gtgaagagga ggaggccaaa atccggcaga ggattttcag accaacaagg aaacaacgca
2881 aagaagagag ggcttctctc ggcttggtca caggctctga aatcaggaag agaaacccag
2941 aagacttcaa acccaaggga aagctgtggg ctgatgacga cagaagtgtt gactacaatg
3001 agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac tttggttcag
3061 gctggggctt ctgggtctcc cccagtctgt ttataacatc aacccatgtc ataccccaag
3121 gtgcaaagga gttcttcgga gtccctatca agcaaatcca gatacacaag tcaggtgaat
3181 tctgccgatt gagattccca aagccaatca gaaccgatgt gacgggcatg attctagaag
3241 aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact ggagagctca
3301 tgcctctggc agccagaatg gggacccatg caaccatgaa aattcagggg cgcacagttg
3361 gagggcaaat gggtatgctc ctgacaggat ccaacgccaa gagtatggac ctaggcacaa
3421 caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac gtggtcatag
3481 gggtccatac ggctgctgcc cgtggaggaa acactgtcat atgtgccacc cagggaagtg
3541 agggagaggc cacacttgaa ggaggtgaca gtaaagggac atactgtggc gcaccaatct
3601 tgggcccagg gagcgctcca aagctcagca ccaagaccaa gttttggaga tcatccacaa
3661 caccactccc acctggcacc tacgaaccag cctacctcgg tggcagagac cctagagtca
3721 aaggtggccc ttcattgcaa caagttatga gggaccagct gaagccattc acagaaccca
3781 gaggcaaacc gccaagacca aatgtgttgg aagctgccaa gaaaaccatc atcaatgtcc
3841 ttgagcaaac aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc gcatcccttg
3901 acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgactgt tggaatgggg
3961 agtccttcac aggaaagttg gctgaccaag cctccaaggc caacctaatg tttgaagagg
4021 gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta aagaccgata
4081 aagtttatgg taaggtcaag aagaggcttc tatggggttc agatctggcg accatgatac
4141 ggtgcgcccg agcttttgga ggcctcatgg atgaactcaa ggcacactgt gtcacactcc
4201 ctgtcagagt tggtatgaac atgaatgagg atggccccat catcttcgag aagcactcca
4261 gatatagata tcattatgat gctgactatt cccggtggga ctcaacacaa caaagggatg
4321 tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac ctggcccaga
4381 tagttgcaga agacctcctt tcccctagcg tgatggatgt gggtgacttt caaatatcga
4441 taagtgaggg tctcccctct ggggtgcctt gcacctctca gtggaattcc atcgcccact
4501 ggctcctcac tctgtgtgca ctttctgaag tcacggacct gtcccctgat atcattcagg
4561 ccaactccct tttctccttc tatggtgatg atgagattgt aagcacagac ataaagttgg
4621 acccagagag gctaacagca aaactcaagg agtacgggct gaaaccaacc cgccccgaca
4681 aaactgaagg acccctcgtc atctctgaag acctggatgg tctgacattc ctccggagaa
4741 ctgtgacccg tgatccagct ggctggtttg gaaaattgga acaaagttca attcttaggc
4801 aaatgtactg gaccaggggt cccaaccatg aagacccatt tgaaacaatg ataccacact
4861 cccaaagacc catacaattg atgtccttgc tgggcgaggc tgcactccac ggcccggcat
4921 tctacagcaa aatcagcaaa ttagtcattg cagagttgaa ggaaggtggc atggattttt
4981 acgtacccag acaagagcca atgttcaggt ggatgagatt ctcagatctg agcacatggg
5041 agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgtcaac
5101 ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctctg
5161 gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac
5221 ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt atcccctaga
5281 aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgatctaaa tccctacttg
5341 tctcatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc
5401 gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaatttccca
5461 actgaaggct tgagccccag tcaggtcact atgttccccc atatagtagt agatgttagg
5521 caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta tcattataat
5581 caatcaaatg atcccaccat taagttgata gcaatgttgt atacaccact tagggctaat
5641 aatgctgggg atgatgtctt cacagtctct tgccgagttc tcacgagacc atcccccgat
5701 tttgatttca tatttctagt gccacccaca gttgagtcaa gaactaaacc attctctgtc
5761 ccagttttaa ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg
5821 ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg cacgactgat
5881 ggcgtgctcc taggcaccac ccaactgtct cctgtcaaca tctgcacctt tagaggagat
5941 gtcacccata tcacaggtag tcataattac acaatgaatt tggcttctca aaattggagt
6001 aactacgacc caacagaaga aatcccagcc cctctaggga ctccagactt tgtggggaag
6061 attcaaggca tgcttaccca aaccacaagg acagatggct caacacgcgg ccacaaagcc
6121 acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca atttgaaact
6181 gacacaaaca atgattttga agctaaccaa aacacaaagt tcaccccagt tggtgtcatc
6241 caagatggtg gcaccaccca tcgaaatgaa ccccaacagt gggtactccc aagttactca
6301 ggcaggaaca ctcctaatgt gcatctggcc cccgctgtgg cccccacttt tccgggtgag
6361 caactcctct tctttagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg
6421 gattgtctgc tcccccagga atgggtgcag tacttctacc aggaggcagc cccagcacaa
6481 tctgacgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgaatgt
6541 aagcttcata aatcaggcta tgtcacagtg gctcacactg gccaacatga tttggttatc
6601 ccccccaatg gttattttag gtttgattcc tgggttaacc agttttacac gcttgccccc
6661 atgggaaatg gagcggggcg tagacgtgca ctataatggc tggagctttc tttgctggat
6721 tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca
6781 tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaagcatcc ttccaattta
6841 gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa gcacaaattg
6901 aggctaccaa aaggttacaa caggaaatga tgaaagttaa gcaggcaatg ctcctagagg
6961 gtgggttctc tgagacagac gcagcccgcg gggcaatcaa cgcccctatg acaaaagcct
7021 tggactggag cgggacaagg tactgggctc ctgatgctag gactacaaca tacaatgcag
7081 gccgcttttc caccccccaa ccatcagggg cgctgccagg aagagctaat tttagggatg
7141 ctgtccctgc tcggggttcc tctagtaagt cttctaattc ttctactgct acttctgtgt
7201 attcaaatca aactacttca acgagacttg gttctacagc tggttctggt accagtgtct
7261 cgagcttccc gtcaactgca aggactagga gctgggttga ggaccaaagt aggaatttgt
7321 cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct agcaggtcct
7381 ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt
7441 tcaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt
7501 aatgtgaaaa gac
//