Typing tool
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Typing tool
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Complete norovirus genomes
| LC699539 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5076
ORF2: 5057..6679
ORF3: 6679..7476
LOCUS LC699539 7501 bp RNA linear VRL 12-MAR-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1143/Tokyo/2022/Japan genomic RNA,
nearly complete genome.
ACCESSION LC699539
VERSION LC699539.1
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JOURNAL Unpublished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 7501)
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..7501
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/1143/Tokyo/2022/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/geo_loc_name="Japan:Tokyo"
/collection_date="2022-01"
gene <1..5076
/gene="POL"
CDS <1..5076
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDG75421.1"
/translation="SAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPPPRET
PPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTAFSV
PPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAP
LSLFWRPVYTPQYLVSPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILN
ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPV
VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPDIV
GTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASL
TGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ
PDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL
DEYELQGPTLATFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALK
NIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYV
KCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKGGCLKPKDDEE
FVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKR
NPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH
VIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIK
RPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLS
TKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPN
VLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGK
LADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMVRCAR
AFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVL
AAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTR
PDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGPNHEDPFET
MIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
gene 5057..6679
/gene="VP1"
CDS 5057..6679
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDG75422.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGGVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6679..7476
/gene="VP2"
CDS 6679..7476
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDG75423.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGAMLGRRDAVPARGSSSKSSNSS
TATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNISFV
TPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tccgctgccg ctgttgccaa cagcaacaac gacatcgcaa aatcttcaag tgacggtatg
61 ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa acagccgccc
121 ccgagggaaa caccacccag gcccccgcga ccacccacgc cagaattggt caaaaagatc
181 cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacaacgc caaagatggc
241 gtttccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa cacggcgttc
301 agtgtccccc cactcaacca aagggagagc agggacgcca aggagccact aactggaaca
361 atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga acgaggtctt
421 gtacttggtg tgcacaagcc accagcagcc atcagcctcg ctaaggtcga gctggcaccg
481 ctctctttgt tctggaggcc tgtatacacc ccccagtacc tcgtctctcc agacactctt
541 aggagattac atggagagtc attcccctac actgcttttg acaacaattg ctacgccttt
601 tgttgttggg tgttagacct aaacgactca tggctaagca ggagaatgat tcagagaaca
661 acaggcttct tcaggccgta ccaggattgg aacaggaaac ccctccccac tatggatgac
721 tccaaattaa agaaggtagc caacatattc ttgtgcactt tgtcttcact attcaccagg
781 cccatcaagg acataatagg gaagttgaaa cctctcaaca tccttaatat cctggctaca
841 tgtgattgga ccttcgcagg catagtggaa tccttaatac tcttggcaga actctttgga
901 gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgcttgg tgattatgaa
961 ctgcaaggac ccgaggacct tgcagtggaa ctggtcccag tagtgatggg ggggataggt
1021 ttggtgctag gatttaccaa agagaagatc ggtaaaatgt tgtcatccgc tgcatccact
1081 ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt ggtcatgaag
1141 tggttcttcc caaagaaaga ggaagcaaat gaactggcca tggtgagatc catcgaggat
1201 gcagtactag acctcgaggc aattgaaaac aaccacatga ccaccctgct caaagacaaa
1261 gacagcttga caacctacat gagaaccctt gaccttgagg aggagaaagc cagaaaactc
1321 tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca actctcttct ggcaagaatc
1381 gctgctgcac gctccctagt gcatcgggcg aaagaagagc tctccagcag gccgagacct
1441 gtcgttgtaa tgatatcggg aagaccagga atagggaaaa ctcaccttgc cagggagctg
1501 gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggccttat cccacgcaat
1561 ggtgtcgacc actgggacgc atacaagggc gaaagggttg tcctatggga cgactatgga
1621 atgagcaacc ccatccatga tgcccttagg ttgcaggagc ttgctgacac ttgccccctc
1681 acgctaaatt gtgacagaat tgagaacaaa ggaaaagtct ttgatagtga tgccataatt
1741 atcaccacca acctggccaa cccagcacca ctagattatg tcaattttga agcgtgctcg
1801 agacgcattg atttcctcgt gtacgcagaa gcccctgagg tggagaaggc aaagcgcgac
1861 ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc acacataaaa
1921 ctgacattgg ctccacaggg tggttttgat aagaacggca acaccccgca tggaaaaggg
1981 gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt actccatgag
2041 aggctagatg aatatgaatt gcaaggccca accctcgcca ctttcaactt tgaccgcaac
2101 aagatactcg cttttagaca gcttgctgct gaaaacaagt atgggctgat ggacacaatg
2161 agagttggaa aacagctcaa ggatgtcaag actatgtcag acctcaaaca agcactcaag
2221 aacatcgcga tcaagaagtg ccagatagtg tacaatggtg gcacctacac acttgaggct
2281 gatggcaagg gcagtgtgaa agttgataaa gtgcagagtg ctactgtgca gaccaacaat
2341 gaactagccg gtgccctaca ccacctaaga tgcgctagaa tcagatacta tgttaagtgc
2401 gtccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt cacaacgcgc
2461 atcgctaagc gcatgaatat acagaatctc tggtccaagc cgcaggtgga agacacagaa
2521 gagatggcca acaaaggtgg ttgcctaaaa cccaaagatg atgaagagtt tgtcgtttca
2581 tccgacgaca tcaagactga gggcaagaaa gggaagaaca agtccggccg tggcaagaag
2641 cacacagcct tttcaagtaa agggctcagt gatgaggagt acgatgagta caagagaatc
2701 agagaagaaa ggaatggtaa gtactccata gaagagtacc ttcaggacag agacaggtac
2761 tacgaggagg tggccattgc cagggcaacc gaagaggact tctgtgaaga agaagaggcc
2821 aaaatccggc agaggatttt cagaccaaca aggaaacaac gcaaagaaga gagggcttct
2881 cttggcttgg tcacgggttc tgaaatcagg aagagaaacc cagaagactt caaacccaag
2941 ggaaagctgt gggctgatga cgacagaagt gttgactaca atgaaaaact caactttgag
3001 gccccgccaa gcatctggtc gcggatagtc aactttggtt caggctgggg cttctgggtc
3061 tcccccagtc tgtttataac atcaacccat gtcatacccc aaggtgcaaa ggagttcttc
3121 ggagtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg attgagattt
3181 ccaaagccaa tcagaaccga tgtgacgggc atgattctag aagaaggtgc gcccgagggg
3241 accgtggcca cactgcttat caagagacca actggagagc tcatgcctct ggcagccaga
3301 atggggaccc atgcaaccat gaaaatccag gggcgcacag ttggagggca aatgggtatg
3361 ctcctgacag gatctaacgc caagagtatg gacttgggca caacaccagg cgactgcggc
3421 tgcccctaca tctacaagag ggggaatgac tacgtggtca taggggtcca tacggctgct
3481 gcccgtggag gaaacactgt catatgtgcc acccagggga gtgagggaga ggccacactt
3541 gaaggaggtg acagcaaagg gacatactgt ggcgcgccaa tcttaggccc agggagcgct
3601 ccgaagctca gcactaagac taagttttgg agatcatcca caacgccact cccacctggc
3661 acctacgaac cagcctacct cggtggcaaa gaccccagag tcaaaggtgg cccttcattg
3721 caacaagtta tgagggacca actgaagcca ttcacagaac ccagaggaaa accaccaaga
3781 ccaaacgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca aacaattgat
3841 ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac cacctccagc
3901 ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcctt cacaggaaag
3961 ttggctgacc aagcctccaa ggccaaccta atgtttgaag agggaaagaa catgactcca
4021 gtctacacag gtgcacttaa agatgagttg gtgaagaccg ataaagtgta tggtaaggtc
4081 aagaagaggc ttttatgggg ttcagatctg gcgaccatgg tacggtgcgc ccgagctttt
4141 ggaggcctca tggatgaact caaggcacac tgtgtcacac tccctgtcag agttggtatg
4201 aacatgaatg aggatggccc catcatcttc gagaagcact ccaggtatag atatcattat
4261 gatgctgact attcccggtg ggactcaaca caacaaaggg atgtgctggc agcagcacta
4321 gagatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc agaagacctc
4381 ctctccccta gcgtgatgga tgtgggtgac tttcaaatat caataagtga gggtctcccc
4441 tctggggtac cttgcacctc ccagtggaat tccatcgccc actggctcct cactctgtgt
4501 gcactctctg aagtcacgga cctgtcccct gatatcattc aggctaactc ccttttctcc
4561 ttctatggtg atgatgagat tgtaagcaca gatataaagt tggacccaga gaggctaaca
4621 gcaaagctca aggagtacgg gctgaaacca acccgccccg acaagactga aggacccctt
4681 gtcatctctg aagacctgga tggtctgaca ttcctccgga gaactgtaac ccgtgatcca
4741 gctggctggt ttggaaaatt ggaacaaggt tcaattctta ggcagatgta ctggaccagg
4801 ggccccaacc acgaagaccc atttgaaaca atgataccac actcccaaag accaatacaa
4861 ttgatgtcct tgctgggcga ggctgcactc cacggcccgg cattctacag caaaattagc
4921 aaattagtca ttgcagagtt gaaggaaggt ggcatggatt tttacgtgcc cagacaagag
4981 ccaatgttca gatggatgag attctcagat ctgagcacgt gggagggcga tcgcaatctg
5041 gctcccagtt ttgtgaatga agatggcgtc gagtgacgtc aacccatctg atgggtccgc
5101 agccaacctc gtcccagagg tcaacaatga ggttatggct ctggagcccg ttgttggtgc
5161 cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaacaa
5221 ttttgtacaa gcccctggtg gagagttcac agtatcccct agaaacgctc caggtgaaat
5281 actatggagc gcgcccttgg gccctgatct aaacccctac ttgtctcatt tggccagaat
5341 gtacaatggt tatgcaggtg gttttgaagt gcaggtaatc ctcgcgggga acgcgttcac
5401 cgccgggaag gtcatatttg cagcagtccc accaaatttc ccaactgaag gcttgagccc
5461 cagccaggtc actatgttcc cccatatagt agtagatgtc aggcaattag aacctgtgtt
5521 gattccctta cccgatgtta ggaataattt ctatcattac aatcaatcaa atgaccccac
5581 cattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg gggacgatgt
5641 cttcacggtt tcttgtcgag ttctcacgag accatccccc gattttgact tcatatttct
5701 agtgccaccc acagttgagt caagaactaa accattctct gtcccagttc tgactgttga
5761 ggagatgacc aattcaagat tccccatccc tttggaaaag ttgttcacgg gtcccagcag
5821 cgcctttgtt gtccaaccac aaaatggtag gtgcacgact gatggcgtgc tcctaggcac
5881 cacccaactg tctcctgtca acatctgcac ctttagagga ggtgtcacac atatcacagg
5941 cagtcataac tatacaatga atttggcttc tcaaaattgg agcaactatg acccaacaga
6001 agaaatccca gcccctctag gtactccaga ctttgtgggg aagatacaag gcatgctcac
6061 ccaaaccaca aggacagatg gctcaacacg cggccacaaa gccacagtgt acactgggag
6121 cgccgacttt gctccaaaac tgggtagggt ccaatttgaa actgacacaa acaatgattt
6181 tgaggctaac caaaacacaa agttcacccc agttggtgtc atccaagatg gtggcaccac
6241 tcatcgaaat gaaccccaac agtgggtgct cccaagttac tcaggcagga acactcctaa
6301 tgtgcatctg gcccccgctg tggcccccac ttttccaggt gagcaactcc ttttctttag
6361 atccaccatg cccggatgca gcgggtaccc caacatggat ttggattgtt tgctccccca
6421 ggaatgggtg cagtacttct accaggaggc agccccagca caatctgatg tggctctgct
6481 aagatttgtg aatccagaca caggtagggt tttgtttgaa tgtaagcttc ataaatcagg
6541 ttatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca acggttattt
6601 taggtttgat tcctgggtca accagttcta cacacttgcc cccatgggaa atggagcggg
6661 gcgtagacgt gcactataat ggctggagct ttctttgctg gattggcatc tgatgttctt
6721 ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgag
6781 tttgaaaata atagaaaatt gcagcaagca tccttccaat ttagcagcaa tctacaacag
6841 gcttcctttc aacatgataa agagatgctt caagcacaaa ttgaggctac caaaaggtta
6901 caacaggaaa tgatgaaagt taagcaggca atgctcctag aaggtggatt ctctgagaca
6961 gatgcagccc gcggggcaat caacgcccct atgacaaaag ccttggactg gagcgggaca
7021 aggtactggg ctcctgatgc taggactaca acatacaatg caggccgctt ctccaccccc
7081 caaccatcgg gggcgatgct aggaagaagg gatgctgtcc ctgctcgggg ttcctctagt
7141 aagtcttcta attcttctac tgcaacttct gtgtattcaa atcaaacaat ttcaacgaga
7201 cttggttcta cagctggttc tggtaccagt gtctcgagct tcccgtcaac tgcaaggact
7261 aggagctggg ttgaggacca aagtaggaat ttgtcacctt tcatgagggg ggcccacaac
7321 atatcgtttg tcaccccacc atctagcagg tcctctagcc aaggcacagt ctcaaccgtg
7381 cctaaagagg ttttggactc ctggactggc gctttcaaca cgcgcaggca gccactcttc
7441 gctcacattc gtaagcgagg ggagtcacgg gtgtaatgtg aaaaggcaaa attgattatc
7501 t
//