Typing tool
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Typing tool
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Complete norovirus genomes
| LC790069 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..4704
ORF2: 4685..6307
ORF3: 6307..7113
LOCUS LC790069 7148 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221979 RNA, nearly complete genome.
ACCESSION LC790069
VERSION LC790069.1
KEYWORDS .
SOURCE Norovirus GII.4 Sydney 2012
ORGANISM Norovirus GII.4 Sydney 2012
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE The Detection of Norovirus in Tokyo
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7148)
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2023) Contact:Hiroyuki Asakura Tokyo Metropolitan
Institute of Public Health, Department of Microbiology; Hyakunincho
3-24-1, Shinjyuku-ku, Tokyo 169-0073, Japan URL
:https://www.tmiph.metro.tokyo.lg.jp/
FEATURES Location/Qualifiers
source 1..7148
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221979"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-03"
gene <1..4704
/gene="POL"
CDS <1..4704
/gene="POL"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BEV21221.1"
/translation="EMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWR
VVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFF
RPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCD
WTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIG
LVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAI
EDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINAL
LARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRV
GLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGK
VFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKD
AFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQ
GPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKR
CRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELAGALHHLKHARIRYYVKCVQEA
VYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPKSEDDEFIISSKDI
KEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYE
ELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRRRNPDDFKPK
GKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPVGITE
AFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMP
LAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYVVI
GVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRS
SNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQT
IINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFWSGETFTGKLADQASKA
NLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMDE
MKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMV
RFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAL
SEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPL
IISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRP
IQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEG
DRNLAPNFVNEDGVE"
gene 4685..6307
/gene="VP1"
CDS 4685..6307
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21222.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSTDFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAI"
gene 6307..7113
/gene="VP2"
CDS 6307..7113
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21223.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGVHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWAGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gagatgtggg acggagagat ataccactat ggcctgtacg tggagaaagg cttagtgttg
61 ggtgtgcaca aaccacctgc agccataagc atggcgagag tggaactaac gccgctgtca
121 ttgtattggc gtgtggtgta cactccccaa tacctcatct cccctgaaac tctcaagagg
181 ctcaacggag aggcgtttcc ttacaccgct ttcgacaaca actgctatgc cttttgctgc
241 tgggtgttag acctcaatga ttcatggctt agcaggagaa tggtgcaaag aacaacgggc
301 ttcttcagac cttaccaaga gtggaacaga aaacccctgc ccaccatgga tgactccaaa
361 ataaagaagg tagcaaatat attcctatgt tcattgtcca cattattcac cagacccata
421 aaagacctca taggaaaaat taaaccatta aacatattga acatcctggc aacgtgtgac
481 tggacgtttg ccggaatagt ggagtctctg atattgcttg ctgaactctt cggagttttc
541 tggacacccc cagatgtgtc tgctatgatc gctcccttac tcggggacta cgagttgcaa
601 gggccagaag acctcgccgt tgaactcgta cctgtggtaa tgggagggat tggcttggtg
661 ttgggattca ccaaagagaa gattggcaaa atgctgtcct cagcagcgtc aacactcagg
721 gcttgtaaag atcttggtgc ctatggctta gagatactca aattggtcat gaagtggttc
781 ttcccaaaga aagaggaggc caatgagtta gccatggtaa gggccataga ggatgccgta
841 ctagatcttg aggcaataga aaataaccac atgacaaccc tgttgaaaga caaagacagc
901 ttagcaacat acatgaaaac actggacatg gaggaggaga aagccagaag gttgtccaca
961 aaatctgcat cccctgacat agttgggaca atcaacgccc tgctggctcg aatagcagcg
1021 gccaggtcat tagtccacag ggccaaggaa gaactgtcta gcaggataag gccagtagtt
1081 gttatgatat ctggcaaacc aggaataggc aaaactcatc tggccaggga ggtggcaaga
1141 aaggtggcat ccactctcac aggggatcag agagtcggac tcataccaag aaacggtgtg
1201 gatcattggg atgcatacaa aggtgagaga gtcgtgttgt gggacgacta tggcatgagt
1261 aaccccattc atgacgctct ccgcatacaa gaattggctg atacgtgccc ccttacttta
1321 aattgtgaca gaattgaaaa taagggaaaa gtttttgaca gtgaagtcat aataattaca
1381 acaaaccttg ccaacccagc cccacttgat tatgtcaact ttgaggcctg ttccaggaga
1441 attgatttcc tggtgtacgc tgaggcacca gaagtagaaa aggcaaaacg ggattttcct
1501 ggtcagccag atatgtggaa ggacgccttc aagccggact tttcacacat caagctacag
1561 cttgcacctc agggcggctt tgacaagaat ggcaacaccc cacatgggaa aggagtgatg
1621 aagaccctca ctaccggttc tctgattgcc cgtgcatcag gcctactgca tgagaggatg
1681 gatgaatttg aactccaagg ccccacaatc accactttca atttcgaccg gaacagaatc
1741 acagcattca gacaattggc tgcagaaaac aagtatggac tggtggacac catgaaagtt
1801 ggcaatcaac taaaaggagt gaaaaccatg gaagaactca aacaagcaat caggaatgtg
1861 accatcaaga ggtgccggat catctacggt ggctccacgt atgaccttga atctgatggc
1921 aagggcaaag ttttggtgga aaaggtcaag aacgcctcta tacagaccaa caacgagttg
1981 gccggggccc tgcaccatct taaacatgcc cgaatcaggt actatgtcaa atgtgtgcaa
2041 gaagcagtct attccatcat gcaaatcgcc ggcgctgcgt ttgtcaccac gcgtattgca
2101 cgccgcatga acatacaaga actctggtcg aagccacaat tagatcaaaa tgaatcagag
2161 tccaaggaag aggcccccaa gtcagaagat gacgagttca tcatatcttc taaggatatc
2221 aaggaggaag gaaagaaggg caaaaacaaa actggccgtg gcaagaaaca cactgcattc
2281 tccagcaagg gcttgagcga tgaggagtat gacgagtaca agaggataag agaagagaga
2341 aatggaaagt actctataga ggagtacctt caagacagag acaggtacta tgaggagctc
2401 gccattgcca aggccacgga agaagacttc tgtgaagagg aggagatcaa aatccgtcag
2461 agaattttcc gtcccaccag gaaacaaaga aaggaagaga gggccacact agggctggtg
2521 acaggttcag aaatcagaag aagaaaccct gatgacttca aacccaaagg gaagctgtgg
2581 gccgatgaca acagaagtgt tgactacaat gagaaactgg actttgaggc ccccccaagc
2641 atatggtcta ggattgtgag ctttggctct ggttggggct tctgggtatc accaagcctg
2701 ttcataacat caactcatgt gatccctgta ggcataacag aagcatttgg agtccccatc
2761 aaacaaattc agatccacaa atcaggtgaa ttttgtcgat tcagattccc aaaaccaatt
2821 agaccagatg tgacaggaat gatcttggaa gaaggtgcgc ctgaaggcac cgtggcaact
2881 gtgctcatca aacgccccac cggagagctc atgcctcttg cagccagaat gggaacacac
2941 gcaaccatga agattcaagg ccgcatggtt ggcggacaga tgggcatgtt gctcactgga
3001 tcaaatgcca aaggaatgga tttgggaaca acccctggtg actgtggctg cccttacatc
3061 tataaaagag gcaatgacta tgtagtcatt ggggtgcaca ctgcagcagc ccgtggtgga
3121 aacaccgtca tctgtgccac acagggaagt gagggtgagg caactcttga gggtggagat
3181 gacaaaggaa catactgtgg ggcacccatt ctaggccctg ggggcgcacc aaaattgagc
3241 accaaaacca aattttggag gtcatcgaac acgccccttc caccagggac atatgagcct
3301 gcctacctcg gtggccgcga cccacgtgtt aggggtgggc cctccttaca gcaggtaatg
3361 agagaccagt tgaagccatt cactgaaccc aggggcaagc ctccaagacc aagtgttttg
3421 gaagcagcca aacaaactat tatcaatgtc cttgaacaaa ccctggatcc tccacaaaaa
3481 tggacatacg cgcaggcgtg tgcctcactt gacaaaacca cctccagcgg gtatccccat
3541 cacgtccgaa agaatgaatt ctggagtggt gagaccttca ctggtaaatt ggctgaccaa
3601 gcatcaaaag caaacctaat gtttgaggaa gggaaacaca tgacaccagt gtacacagca
3661 gcactcaagg atgaactagt taagactgag aaaatctatg gaaaaatcaa gaagagactg
3721 ctctggggct ctgacctgtc caccatgatc cggtgcgcta ggtcatttgg tgggctcatg
3781 gacgagatga aggcacactg catatcactc ccagtacgag ttggcatgaa tatgaatgaa
3841 gatggtccaa taatatttga gaaacattcc agatacaaat atcattatga tgcagattac
3901 tctcgttggg attcaacaca acagagggca gtattagcag cagccttgga aatcatggtc
3961 agattctctg cagaaccaca attggcacaa atagtcgctg aggacctact ggcccctagt
4021 gtagtagatg taggagactt taaaatcaca ataaatgagg ggctaccatc tggcgtgcca
4081 tgcacttctc aatggaactc catcgcacac tggctgctaa ctctctgtgc cttgtctgaa
4141 gtcaccaaac tatcccctga cattatacaa gcaaattcca tgttctcatt ttacggtgat
4201 gacgagattg tcagcaccga cataaagttg gaccctgaac agttgaccgc caagttgaag
4261 gagtacggcc tgaaaccaac ccgcccagac aagaccgagg gacccctgat catcagtgaa
4321 gatttggacg gacttacttt cctccgaagg acggtgactc gtgacccagc tggctggttt
4381 ggaaaactgg accaaagttc aattttgagg cagatgtatt ggactagagg accaaatcat
4441 gaagacccca acgagacaat gataccccat tctcaaagac ccatacagct catggcactg
4501 cttggtgaag cctctcttca cggaccctct ttctacagta gaatcagtaa attggttata
4561 actgaactta aagaaggtgg gatggacttt tacgtgccaa ggcaggaacc catgttcagg
4621 tggatgaggt tttctgactt gagcacgtgg gagggcgatc gcaatctggc tcccaatttt
4681 gtgaatgaag atggcgtcga gtgacgccaa cccatctgat gggtccgcag ccaacctcgt
4741 accagaggtc aacaatgagg ttatggcttt ggagcccgtt gttggtgccg ctattgcggc
4801 acctgtagcg ggccaacaaa atgtaattga cccctggatt agaaataatt ttgtacaagc
4861 ccctggtggg gagtttacag tgtcccccag aaatgctcca ggtgaaatac tatggagcgc
4921 gcccctaggc cctgacctaa atccctacct atcccatctg gccaggatgt acaatggtta
4981 tgcaggtggc tttgaagtgc aggtaattct cgcggggaac gcgttcaccg ccgggaagat
5041 tatatttgca gcagtcccac caaattttcc aactgaaggc ttaagtccta gccaggtcac
5101 tatgttcccc catataatag tagatgttag acaattggaa cctgtgctga tccccttgcc
5161 cgatgttagg aataatttct atcattacaa tcagtcaaat gactccacta ttaagttgat
5221 agcaatgttg tacacaccac ttagggctaa taatgctggg gatgatgttt tcacagtctc
5281 gtgtcgagtt ctcacgaggc catcccccga ttttgatttc atattcttag taccacccac
5341 agttgagtca agaaccaaac cattctccgt cccaatttta actgttgagg agatgaccaa
5401 ctcaagattc cccatccctt tggaaaagtt gttcacaggc cccagcagtg catttgttgt
5461 tcaaccacaa aacggcagat gcacaactga tggcgtgctc ctaggcacca cccaactttc
5521 tcctgtcaac atctgcacct tcagagggga cgtcacccac atcacaggca gtcgcaacta
5581 cactatgaat ttggcttctc aaaattggaa caactacgac ccgacagaag aaatcccagc
5641 tcccctagga actccagatt ttgtggggaa gattcaaggc atgctcaccc aaaccacaag
5701 gacagatggt tcaacacgcg gccacaaagc tacagtgtac actgggagca ccgactttgc
5761 tccaaaactg ggtagagttc aatttgaaac tgacacagac catgattttg aagccaatca
5821 aaacacaaag ttcaccccag tcggtgtcat ccaagatggt agcaccaccc accgaaacga
5881 accccaacag tgggtgctcc caagttactc aggcagaaat actcacaatg tacatttagc
5941 ccccgctgta gcccccacct ttccgggtga gcaacttctc ttctttagat ctaccatgcc
6001 cggatgcagc gggtacccca acatggattt ggactgtctg ctcccccagg aatgggtgca
6061 gtacttttac caagaggcag ccccagcaca atctgatgtg gctctgctaa gatttgtgaa
6121 tccagacaca ggtagggttt tgtttgagtg caagcttcac aaatcaggct atgttacagt
6181 ggctcatact ggccaacatg atttggttat cccccccaat ggttactttc ggtttgattc
6241 ctgggtcaac cagttctaca cgcttgcccc catgggaaat ggaacggggc gtagacgtgc
6301 aatataatgg ctggagcttt ctttgctgga ttggcatctg atgtccttgg ctctggactt
6361 ggttccctta tcaatgctgg ggctggggcc atcaaccaaa aagttgagtt tgaaaataac
6421 agaaaattgc aacaggcatc cttccaattt agcagcaatt tgcaacaggc ttccttccaa
6481 catgataaag agatgctcca agcacaaatt gaggccacca aaaagctaca acaggaaatg
6541 atgagagtta agcaggcaat gctcctagag ggtgggttct ctgagacaga tgcggcccgc
6601 ggggcaatta acgcccccat gacaaaggct ttggactgga gcgggacaag gtactgggct
6661 ccagatgcta gaattacaac atacagtgca ggccactttt ccacccctca accatcgggg
6721 gcactgccag gaagagctaa tcttagggat gctgcccctg ctcggggacc ctccaccaga
6781 ccttctaact cttctactgc cacctctgtg tattcaaatc aaactatttc aacgagactt
6841 ggttctacag ctggttctgg aaccagtgtc tcgagcctcc cgtcaactgc aaggactagg
6901 agctgggttg aggatcaaaa taggaatttg tctcctttca tgaggggggt ccacaacata
6961 tcatttgtca ccccaccatc tagcagatcc tctagccaag gcacagtctc aaccgtgcct
7021 aaagaaattt tggactcctg ggctggcgct ttcaacacgc gcaggcagcc tctcttcgct
7081 cacattcgta agcgagggga gtcacgggtg taatgtgaaa agacaaaact gattattttc
7141 tttttctt
//