Typing tool
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Typing tool
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Complete norovirus genomes
| LC699526 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5086
ORF2: 5067..6689
ORF3: 6689..7495
LOCUS LC699526 7523 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1851/Tokyo/2019/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699526
VERSION LC699526.1
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.,
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JOURNAL Unpublished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 7523)
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..7523
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1851/Tokyo/2019/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2019-12"
gene <1..5086
/gene="POL"
CDS <1..5086
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDG75382.1"
/translation="NDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPP
KEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTA
FSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVE
LAPLSLFWRPVYTPQYLISPDTLRRLHGELFPYTAFDNNCYAFCCWVLDLNDSWLSRR
MIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLN
ILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVEL
VPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEA
NELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASP
DIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIA
ASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLN
CDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDF
PGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLH
ERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQ
ALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIR
YYVKCAQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEEMANKDGCLKPKD
DEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEI
RKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFIT
STHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVAGMILEEGAPEGTVATL
LIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPY
IYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAP
KLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPP
RPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESF
TGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIR
CARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQR
DVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNS
IAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLK
PTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDP
FETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRW
MRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5067..6689
/gene="VP1"
CDS 5067..6689
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75383.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQSWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6689..7495
/gene="VP2"
CDS 6689..7495
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75384.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 taacgacgct tccgctgccg ctgttgccaa cagcaacaac gacattgcaa aatcttcaag
61 tgacggtgtg ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa
121 acagccgccc ccgaaggaaa taccacccag acccccgcga ccacccacac cagaattggt
181 caaaaagatc cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacaacgc
241 caaagatggc gtttccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa
301 cacggcgttc agtgtccccc cactcaacca aagggagagc agggacgcca aggagccact
361 aactgggaca atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga
421 acgaggtctt atacttggtg tgcacaagcc accagcagcc atcagcctcg ctaaggtcga
481 gctggcacca ctctctttgt tctggagacc tgtatacacc ccccagtacc ttatctctcc
541 agacactctt aggagattac atggagagtt attcccctac actgcatttg acaacaattg
601 ctacgccttt tgttgttggg tattagacct aaacgactca tggctaagca ggagaatgat
661 tcagagaaca acaggcttct ttaggccgta ccaggattgg aacaggaaac ccctccccac
721 tatggatgat tccaaattaa agaaggtagc caacatattt ttgtgcactt tgtcttcact
781 attcaccagg cccatcaagg acataatagg gaagttgaaa cctctcaaca tccttaatat
841 tctggctaca tgtgattgga ctttcgcagg catagtggaa tccttaatac tcttggcaga
901 actctttgga gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgctagg
961 tgattatgaa ctgcaaggac ccgaggacct tgcagtggaa ctggtcccaa tagtgatggg
1021 ggggataggt ttggttctag gatttaccaa agagaagatc ggaaagatgc tgtcatcagc
1081 tgcatccact ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt
1141 ggtcatgaag tggttcttcc caaagaaaga ggaagcaaat gaactggcta tggtgagatc
1201 catcgaggat gcagtactag acctcgaggc aattgaaaac aaccacatga ccaccctgct
1261 caaagacaaa gacagtttga caacctacat gagaaccctt gaccttgagg aggagaaagc
1321 cagaaaactc tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca actctcttct
1381 ggcaagaatc gctgctgcac gctccttagt gcatcgggcg aaagaagagc tctccagcag
1441 gccgagacct gtcgttgtaa tgatatcggg aagaccaggg atagggaaaa ctcaccttgc
1501 cagggagctg gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggccttat
1561 cccacgcaat ggtgtcgacc actgggacgc atacaagggc gaaagggtcg tcctatggga
1621 cgactatgga atgagcaacc ccatccatga tgcccttagg ttgcaggagc ttgctgacac
1681 ttgccccctc acactaaatt gtgacagaat tgagaacaaa ggaaaagtct ttgacagtga
1741 cgccataatt atcaccacca acctggccaa cccagcacca ctggattatg tcaactttga
1801 agcgtgctcg agacgcattg atttcctcgt gtacgcagaa gcccctgagg tggagaaggc
1861 aaagcgcgac ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc
1921 acacataaaa ctgtcattgg ctccacaggg tggttttgac aagaacggca acaccccgca
1981 tggaaaaggg gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt
2041 actccatgag aggctagatg aatatgaatt gcaaggccca gccctcacca ctttcaactt
2101 tgaccgtaac aagatacttg cttttagaca gctcgctgct gaaaacaagt atgggctgat
2161 ggacacaatg agagttggaa aacagctcaa ggatgtcaag actatgtcag acctcaaaca
2221 ggcactcaag aacatcgcga tcaagaagtg ccagatagtg tacaatggtg gcacctacac
2281 acttgaggct gatggcaagg gcagtgtgaa agttgacaaa gtgcaaagtg ccactgtgca
2341 gaccaacaat gaactagccg gtgccctaca ccacctaaga tgcgctagaa tcagatacta
2401 tgttaagtgc gcccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt
2461 caccacgcgc atcgctaagc gcatgaatat acagaatctc tggtccaagc cacaggtgga
2521 agacatagaa gagatggcca acaaagatgg ttgcctaaaa cccaaagatg atgaagagtt
2581 tgtcgtttca tccgacgaca tcaaaactga gggcaagaaa gggaagaaca agtccggccg
2641 tggcaagaag cacacagcct tttcaagtaa agggctcagt gatgaggagt atgatgagta
2701 caagagaatc agagaagaaa ggaatggtaa gtactccata gaagagtacc ttcaggacag
2761 agacaggtac tacgaggagg tggccattgc tagggcaacc gaagaggact tctgtgagga
2821 ggaggaggcc aaaatccggc agaggatttt cagaccaaca aggaaacaac gcaaagaaga
2881 gagggcttct ctcggcttgg tcacaggctc tgaaatcagg aagagaaacc cagaagactt
2941 caaacccaag ggaaagctgt gggctgatga cgacagaagt gttgactaca atgagaaact
3001 caactttgag gccccaccaa gcatctggtc gcggatagtc aactttggtt caggctgggg
3061 cttctgggtc tcccccagtc tgtttataac atcaacccat gtcatacccc aaggtgcaaa
3121 ggagttcttc ggagtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg
3181 attgagattc ccaaagccaa tcagaaccga tgtggcgggc atgattctag aagaaggtgc
3241 gcccgagggg accgtggcca cactgctcat caagagacca actggagagc tcatgcctct
3301 ggcagccaga atggggaccc atgcaaccat gaaaattcag gggcgcacag ttggagggca
3361 gatgggtatg ctcctgacag gatccaacgc caagagtatg gacctaggca caacaccagg
3421 cgactgcggc tgcccctaca tctacaagag ggggaatgac tacgtggtca taggggtcca
3481 tacggctgct gcccgtggag gaaacactgt catatgtgcc acccagggaa gtgagggaga
3541 ggccacactt gaaggaggtg acagtaaagg gacatactgt ggcgcaccaa tcttgggccc
3601 agggagcgct ccgaagctca gcaccaagac caagttttgg agatcatcta caacaccact
3661 cccacctggc acctacgaac cagcctacct cggtggcaaa gaccctagag tcaaaggtgg
3721 cccttcattg caacaagtta tgagggacca gctgaagcca ttcacagaac ccagaggcaa
3781 accaccaaga ccaaacgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca
3841 aacaattgat ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac
3901 cacctccagc ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcctt
3961 cacaggaaag ttggctgacc aagcctccaa ggccaaccta atgtttgaag agggaaagaa
4021 catgactcca gtctacacag gtgcacttaa agatgagttg gtaaagaccg ataaagttta
4081 tggtaaggtc aagaagaggc ttctatgggg ttcagatctg gcgaccatga tacggtgcgc
4141 ccgagctttt ggaggcctca tggatgaact caaggcacac tgtgttacac tccctgtcag
4201 agttggtatg aacatgaatg aggatggccc catcatcttc gagaagcact ccagatatag
4261 atatcattat gatgctgact actcccggtg ggactcaaca caacaaaggg atgtgctagc
4321 agcagcacta gaaatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc
4381 agaagacctc ctttccccta gcgtgatgga tgtgggtgac tttcaaatat caataagtga
4441 gggtctcccc tctggggtgc cttgcacctc ccagtggaat tccatcgccc actggctcct
4501 cactctgtgt gcactctctg aagtcacgga cctgtcccct gatatcattc aggccaactc
4561 ccttttctcc ttctatggtg atgatgagat tgtaagcaca gacataaagt tggacccaga
4621 gaggctaaca gcaaaactca aggagtacgg gctgaaacca acccgccccg acaaaactga
4681 aggacccctc gtcatctctg aagacctgga tggtctgaca ttcctccgga gaactgtgac
4741 ccgtgatcca gctggctggt ttggaaaatt ggaacaaagt tcaattctta ggcaaatgta
4801 ctggaccagg ggtcccaacc atgaagaccc atttgaaaca atgataccac actcccaaag
4861 acccatacaa ttgatgtcct tgttgggcga ggctgcactc cacggcccgg cattctacag
4921 caaaatcagc aaattagtca ttgcagagtt gaaggaaggt ggcatggatt tttacgtacc
4981 cagacaagag ccaatgttca ggtggatgag attctcagat ctgagcacgt gggagggcga
5041 tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgtc aacccatctg
5101 atgggtccgc agccaacctc gtcccagagg tcaacaatga ggttatggct ctggagcccg
5161 ttgttggtgc cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga
5221 ttagaaacaa ttttgtacaa gcccctggtg gagagtttac agtatcccct agaaacgctc
5281 caggtgaaat actatggagc gcgcccttgg gccctgatct aaatccctac ttgtctcatt
5341 tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga
5401 acgcgttcac cgccgggaag gtcatatttg cagcagtccc accaaatttc ccaactgaag
5461 gcttgagccc cagccaggtt actatgttcc cccatatagt agtagatgtt aggcaactag
5521 aacctgtgtt gattccctta cccgatgtta ggaataattt ctatcattat aatcaatcaa
5581 atgatcccac cattaagttg atagcaatgt tgtacacacc acttagggct aataatgctg
5641 gggatgatgt cttcacagtc tcttgccgag ttctcacgag accatccccc gattttgact
5701 tcatatttct agtgccaccc acagttgagt caagaactaa accattctct gtcccagtct
5761 taactgttga ggagatgacc aactcaagat tccccattcc tttggaaaag ttgttcacgg
5821 gtcccagcag tgcctttgtt gtccaaccac aaaacggtag gtgcacgact gatggcgtgc
5881 tcctaggcac cacccaactg tctcctgtca acatctgcac ctttagagga gatgtcaccc
5941 atatcacagg tagtcataac tatacaatga atttggcttc tcaaagttgg agtaactacg
6001 acccaacaga agaaatccca gcccctctag ggactccaga ctttgtgggg aagattcaag
6061 gcatgctcac ccaaaccaca aggacagatg gctcaacacg cggccacaaa gccacagtgt
6121 atactgggag cgccgacttt gctccaaaac tgggtagagt tcagtttgaa actgacacaa
6181 acaatgattt tgaagctaac caaaacacaa agttcacccc agttggtgtc atccaagatg
6241 gtggcaccac ccatcgaaat gaaccccaac agtgggtact cccaagttac tcaggcagga
6301 acactcctaa tgtgcatctg gcccccgctg tggcccccac ttttccgggt gagcaactcc
6361 ttttctttag atccaccatg cccggatgca gcgggtaccc caacatggat ttggattgtc
6421 tgctccccca ggaatgggtg cagtacttct accaggaggc agccccagca caatctgatg
6481 tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgaa tgtaagcttc
6541 ataaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca
6601 atggttattt taggtttgat tcctgggtca accagtttta cacgcttgcc cccatgggaa
6661 atggagcggg gcgtagacgt gcactataat ggctggagct ttctttgctg gattggcatc
6721 tgatgtcctt ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca
6781 aaaagttgag tttgaaaata acagaaaatt gcaacaagca tccttccaat ttagcagcaa
6841 tctacaacag gcttcctttc aacatgacaa agagatgctc caagcacaaa ttgaggctac
6901 caaaaggtta caacaggaaa tgatgaaagt taagcaggca atgctcctag agggtgggtt
6961 ctctgagaca gatgcagccc gcggggcaat caacgcccct atgacaaaag ccttggactg
7021 gagcgggaca aggtactggg ctcctgatgc taggactaca acatacaatg caggccgctt
7081 ttccaccccc caaccatcag gggcgctgcc aggaagagct aattttaggg atgctgtccc
7141 tgctcggggt tcctctagta agtcttctaa ttcttctact gctacttctg tgtattcaaa
7201 tcaaactact tcaacgagac ttggttctac agctggttct ggtaccagtg tctcgagctt
7261 cccgtcagct gcaaggacta ggagctgggt tgaggaccaa agtaggaatt tgtcaccttt
7321 catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcaggt cctctagcca
7381 aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg ctttcaacac
7441 gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg tgtaatgtga
7501 aaagacaaaa ttgattatct ttc
//