Typing tool
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Typing tool
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Complete norovirus genomes
| LC699531 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7492
LOCUS LC699531 7503 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2497/Tokyo/2020/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699531
VERSION LC699531.1
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JOURNAL Unpublished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 7503)
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..7503
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/2497/Tokyo/2020/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2020-02"
gene <1..5083
/gene="POL"
CDS <1..5083
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDG75397.1"
/translation="DASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPK
EIPPRPPRPPTPELVKKVPPPTPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTAF
SVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVEL
APLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
IQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNI
LNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELV
PIVMGGIGLVLGFTKEKIGKMLSSAASTLRACRDLGAYGLEILKLVMKWFFPKKEEAN
ELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPD
IVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAA
SLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNC
DRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQA
LKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRY
YVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEEMANKDGCLKPKDD
EEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIR
KRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITS
THVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVAGMILEEGAPEGTVATLL
IKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYI
YKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPK
LSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFT
GKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRC
ARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRD
VLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKP
TRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPF
ETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5064..6686
/gene="VP1"
CDS 5064..6686
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75398.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6686..7492
/gene="VP2"
CDS 6686..7492
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75399.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgacgcttcc gctgccgctg ttgccaacag caacaacgac atcgcaaaat cttcaagtga
61 cggtgtgttt tctaacatgg ctgtcacttt taagcgggcc ctcggggcgc ggcctaaaca
121 gccgcccccg aaggaaatac cacccagacc cccgcgacca cccacaccag aattggtcaa
181 aaaggtccct cctcccacac ccaacgggga ggatgaacta gtggtctctt acaacgccaa
241 agatggcgtt tccggactgc ctgagctcac cactgtcaga caaccggaag aaaccaacac
301 ggcgttcagt gtccccccac tcaaccaaag ggagagcagg gacgccaagg agccactaac
361 tgggacaatc attgaaatgt gggatggaga aatctaccat tacggcctgt acgtggaacg
421 aggtcttata cttggtgtgc acaagccacc agcagccatc agcctcgcta aggtcgagct
481 ggcaccactc tctttgttct ggagacctgt atacaccccc cagtacctta tctctccaga
541 cactcttagg agattacatg gagagtcatt cccctacact gcatttgaca acaattgcta
601 cgccttttgt tgttgggtat tagacctaaa cgactcatgg ctaagcagga gaatgattca
661 gagaacgaca ggcttcttta ggccgtacca ggattggaac aggaaacccc tccccactat
721 ggatgattcc aaattaaaga aggtagccaa catatttttg tgcactttgt cttcactatt
781 caccaggccc atcaaggaca taatagggaa gttgaaacct ctcaacatcc ttaatattct
841 ggctacatgt gattggactt tcgcaggcat agtggaatcc ttaatactct tggcagaact
901 ctttggagtt ttctggacac ccccagatgt gtctgcgatg atcgccccct tgctaggtga
961 ttatgaactg caaggacccg aggaccttgc agtggaactg gtcccaatag tgatgggggg
1021 gataggtttg gttctaggat ttaccaaaga gaagatcgga aagatgctgt catcagctgc
1081 atccacttta agagcttgta gagaccttgg tgcatacgga ctggaaatct taaaattggt
1141 catgaagtgg ttcttcccaa agaaagagga agcaaatgaa ctggctatgg tgagatccat
1201 cgaggatgca gtactagacc tcgaggcaat tgaaaacaac cacatgacca ccctgctcaa
1261 agacaaagac agtttgacaa cctacatgag aacccttgac cttgaggagg agaaagccag
1321 aaaactctca accaaatctg cttcacccga tattgtgggc acaatcaact ctcttctggc
1381 aagaatcgct gctgcacgct ccttagtgca tcgggcgaaa gaagagctct ccagcaggcc
1441 gagacctgtc gttgtaatga tatcgggaag accagggata gggaaaactc accttgccag
1501 ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg gccttatccc
1561 acgcaatggt gtcgaccact gggacgcata caagggcgaa agggtcgtcc tatgggacga
1621 ctatggaatg agcaacccca tccatgatgc ccttaggttg caggagcttg ctgacacttg
1681 ccccctcaca ctaaactgtg acagaattga gaacaaagga aaagtctttg acagtgacgc
1741 cataattatc accaccaacc tggccaaccc agcaccactg gattatgtca actttgaagc
1801 gtgctcgaga cgcattgatt tcctcgtgta cgcagaagcc cctgaggtgg agaaggcaaa
1861 gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg acttctcaca
1921 cataaaactg tcattggctc cacagggtgg ttttgacaag aacggcaaca ccccgcatgg
1981 aaaaggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat cagggttact
2041 ccatgagagg ctagatgaat atgaattgca aggcccagcc ctcaccactt tcaactttga
2101 ccgtaacaag atacttgctt ttagacagct cgctgctgaa aacaagtatg ggctgatgga
2161 cacaatgaga gttggaaaac agctcaagga tgtcaagact atgtcagacc tcaaacaggc
2221 actcaagaac atcgcgatca agaagtgcca gatagtgtac aatggtggca cctacacact
2281 tgaggctgat ggcaagggca gtgtgaaagt tgacaaagtg caaagtgcca ctgtgcagac
2341 caacaatgaa ctagccggtg ccctacacca cctaagatgc gctagaatca gatactatgt
2401 taagtgcgtc caggaggcac tgtattccat catccaaatc gctggggctg cattcgtcac
2461 cacgcgcatc gctaagcgca tgaatataca gaatctctgg tccaagccac aggtggaaga
2521 catagaagag atggccaaca aagatggttg cctaaaaccc aaagatgatg aagagtttgt
2581 cgtttcatcc gacgacatca aaactgaggg caagaaaggg aagaacaagt ccggccgtgg
2641 caagaagcac acagcctttt caagtaaagg gctcagtgat gaggagtatg atgagtacaa
2701 gagaatcaga gaagaaagga atggtaagta ctccatagaa gagtaccttc aggacagaga
2761 caggtactac gaggaggtgg ccattgctag ggcaaccgaa gaggacttct gtgaggagga
2821 ggaggccaaa atccggcaga ggattttcag accaacaagg aaacaacgca aagaagagag
2881 ggcttctctc ggcttggtca caggctctga aatcaggaag agaaacccag aagacttcaa
2941 acccaaggga aagctgtggg ctgatgacga cagaagtgtt gactacaatg agaaactcaa
3001 ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac tttggttcag gctggggctt
3061 ctgggtctcc cccagtctgt ttataacatc aacccatgtc ataccccaag gtgcaaagga
3121 gttcttcgga gtccctatca agcaaatcca gatacacaag tcaggtgaat tctgccgatt
3181 gagattccca aagccaatca gaaccgatgt ggcgggcatg attctagaag aaggtgcgcc
3241 cgaggggacc gtggccacac tgctcatcaa gagaccaact ggagagctca tgcctctggc
3301 agccagaatg gggacccatg caaccatgaa aattcagggg cgcacagttg gagggcaaat
3361 gggtatgctc ctgacaggat ccaacgccaa gagtatggac ctaggcacaa caccaggcga
3421 ctgtggctgc ccctacatct acaagagggg gaatgactac gtggtcatag gggtccatac
3481 ggctgctgcc cgtggaggaa acactgtcat atgtgccacc cagggaagtg agggagaggc
3541 cacacttgaa ggaggtgaca gtaaagggac atactgtggc gcaccaatct tgggcccagg
3601 gagcgctccg aagctcagca ccaagaccaa gttttggaga tcatccacaa caccactccc
3661 acctggcacc tacgaaccag cctacctcgg tggcaaagac cctagagtca aaggtggccc
3721 ttcattgcaa caagttatga gggaccagct gaagccattc acagaaccca gaggcaaacc
3781 accaagacca aatgtgttgg aagctgccaa gaaaaccatc atcaatgtcc ttgagcaaac
3841 aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc gcatcccttg acaaaaccac
3901 ctccagcggc cacccgcacc acatgcggaa aaacgactgt tggaatgggg agtccttcac
3961 aggaaagttg gctgaccaag cctccaaggc caacctaatg tttgaagagg gaaagaacat
4021 gactccagtc tacacaggtg cacttaaaga tgagttggta aagaccgata aagtttatgg
4081 taaggtcaag aagaggcttc tatggggttc agatctggcg accatgatac ggtgcgcccg
4141 agcttttgga ggcctcatgg atgaactcaa ggcacactgt gttacactcc ctgtcagagt
4201 tggtatgaac atgaatgagg atggccccat catcttcgag aagcactcca gatatagata
4261 tcattatgat gctgactact cccggtggga ctcaacacaa caaagggatg tgctagcagc
4321 agcactagaa atcatggtta agttctctcc agaaccacac ctggcccaga tagttgcaga
4381 agacctcctt tcccctagcg tgatggatgt gggtgacttt caaatatcaa taagtgaggg
4441 tctcccctct ggggtgcctt gcacctccca gtggaattcc atcgcccact ggctcctcac
4501 tctgtgtgca ctctctgaag tcacggacct gtcccctgat atcattcagg ccaactccct
4561 tttctccttc tatggtgatg atgagattgt aagcacagac ataaagttgg acccagagag
4621 gctaacagca aaactcaagg agtacgggct gaaaccaacc cgccccgaca aaactgaagg
4681 acccctcgtc atctctgaag acctggatgg tctgacattc ctccggagaa ctgtgacccg
4741 tgatccagct ggctggtttg gaaaattgga acaaagttca attcttaggc aaatgtactg
4801 gaccaggggt cccaaccatg aagacccatt tgaaacaatg ataccacact cccaaagacc
4861 catacaattg atgtccttgt tgggcgaggc tgcactccac ggcccggcat tctacagcaa
4921 aatcagcaaa ttagtcattg cagagttgaa ggaaggtggc atggattttt acgtacccag
4981 acaagagcca atgttcaggt ggatgagatt ctcagatctg agcacgtggg agggcgatcg
5041 caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgtcaac ccatctgatg
5101 ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctctg gagcccgttg
5161 ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta
5221 gaaacaattt tgtacaagcc cctggtggag agtttacagt atcccctaga aacgctccag
5281 gtgaaatact atggagcgcg cccttgggcc ctgatctaaa tccctacttg tctcatttgg
5341 ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc gcggggaacg
5401 cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaatttccca actgaaggct
5461 tgagccccag ccaggttact atgttccccc atatagtagt ggatgttagg caactagaac
5521 ctgtgttgat tcccttaccc gatgttagga ataatttcta tcattataat caatcaaatg
5581 atcccaccat taagttgata gcaatgttgt acacaccact tagggctaat aatgctgggg
5641 atgatgtctt cacagtctct tgccgagttc tcacgagacc atcccccgat tttgacttca
5701 tatttctagt gccacccaca gttgagtcaa gaactaaacc attctctgtc ccagtcttaa
5761 ctgttgagga gatgaccaat tcaagattcc ccattccttt ggaaaagttg ttcacgggtc
5821 ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg cacgactgat ggcgtgctcc
5881 taggcaccac ccaactgtct cctgtcaaca tctgcacctt tagaggagat gtcacccata
5941 tcacaggtag tcataactac acaatgaatt tggcttctca aaattggagt aactacgacc
6001 caacagaaga aatcccagcc cctctaggga ctccagactt tgtggggaag attcaaggca
6061 tgctcaccca aaccacaagg acagatggct caacacgcgg ccacaaagcc acagtgtata
6121 ctgggagcgc cgactttgct ccaaaactgg gtagagttca gtttgaaact gacacaaaca
6181 atgattttga agctaaccaa aacacaaagt tcaccccagt tggtgtcatc caagatggtg
6241 gcaccaccca tcgaaatgaa ccccaacagt gggtactccc aagttactca ggcaggaaca
6301 ctcctaatgt gcatctggcc cccgctgtgg cccccacttt tccgggtgag caactccttt
6361 tctttagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg gattgtctgc
6421 tcccccagga atgggtgcag tacttctacc aggaggcagc cccagcacaa tctgatgtgg
6481 ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgaatgt aagcttcata
6541 aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc ccccccaatg
6601 gttattttag gtttgattcc tgggtcaacc agttttacac gcttgccccc atgggaaatg
6661 gagcggggcg tagacgtgca ctataatggc tggagctttc tttgctggat tggcatctga
6721 tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca tcaaccaaaa
6781 agttgagttt gaaaataaca gaaaactgca acaagcatcc ttccaattta gcagcaatct
6841 acaacaggct tcctttcaac atgacaaaga gatgctccaa gcacaaattg aggctaccaa
6901 aaggttacaa caggaaatga tgaaagttaa gcaggcaatg ctcctagagg gtgggttctc
6961 tgagacagat gcagcccgcg gggcaatcaa cgcccctatg acaaaagcct tggactggag
7021 cgggacaagg tactgggctc ctgatgctag gactacaaca tacaatgcag gccgcttttc
7081 caccccccaa ccatcagggg cgctgccagg aagagccaat tttagggatg ctgtccctgc
7141 tcggggttcc tctagtaagt cttctaattc ttctactgct acttctgtgt attcaaatca
7201 aactacttca acgagacttg gttctacagc tggttctggt accagtgtct cgagcttccc
7261 gtcagctgca aggactagga gctgggttga ggaccaaagt aggaatttgt cacctttcat
7321 gaggggggcc cacaacatat cgtttgtcac cccaccatct agcaggtcct ctagccaagg
7381 cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcca ctcttcgccc acattcgtaa acgaggggag tcacgggtgt aatgtgaaaa
7501 gac
//