Typing tool
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Typing tool
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Complete norovirus genomes
| LC790067 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS LC790067 7513 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221553 RNA, nearly complete genome.
ACCESSION LC790067
VERSION LC790067.1
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JOURNAL Unpublished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 7513)
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..7513
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221553"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-02"
gene <1..5090
/gene="POL"
CDS <1..5090
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BEV21215.1"
/translation="SNDATVAVVCNNNNDKEKSSGEGLFTNMSSTLKKALGARPKRPA
PRDELQKPPRPPTPELAKRIPPPPPNGEEEGEPVIRYEVKSGISGLPELTTVPQPDVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
RVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTTTTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE
LKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKSASIQTNNELAGALHHLKHA
RIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKS
EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMI
RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGL
KPTRPDKTEGPLIIGEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5071..6693
/gene="VP1"
CDS 5071..6693
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21216.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNFTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6693..7499
/gene="VP2"
CDS 6693..7499
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21217.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAVLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARITTYNAGHFSTPQPSGALPGRANLRDAVPARGSSTKPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgtctaatga cgctaccgtt gccgttgttt gcaacaacaa caacgacaag gaaaaatctt
61 caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc ggggctaggc
121 ccaaacgacc tgccccgaga gacgaactac aaaaaccccc aaggccacca actcccgagt
181 tggccaagag gataccccct ccgccaccta atggcgaaga agaaggagaa ccagtcatta
241 ggtatgaggt taagagtggg atttctggcc tgcccgagct cacaacagtc ccccaaccgg
301 acgtggccaa cacagcattt agtgttccac cactgagctt gagagaaaac agggaggcca
361 aggaaccgct gacaggggca atactagaga tgtgggacgg agagatatac cactatggcc
421 tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc ataagcatgg
481 caagagtgga gctggcgccg ctgtcattgt actggcgtgt ggtgtacact ccccaatacc
541 tcatctcccc tgaaactctc aggaggctca acggagaggc gtttccttac accgcttttg
601 acaacaactg ctacgccttt tgctgctggg tgttagacct caatgactca tggcttagca
661 ggaggatggt gcaacgaaca acgggcttct tcaggcctta ccaagagtgg aacagaaaac
721 ccttacccac catggatgac tccaaaataa agaaggtagc aaacatattc ctatgttcac
781 tgtccacatt attcaccaga cccataaagg acctcatagg aaaaattaaa ccattaaaca
841 tattgaacat cctggcaacg tgtgattgga cgtttgccgg aatagtggag tctctgatat
901 tgcttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct atgatcgctc
961 ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa ctcgtacctg
1021 tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt ggcaaaatgt
1081 tgtcctcagc agcatcaaca ctcagggctt gtaaagatct tggtgcctat ggcttagaga
1141 tactcaaatt ggtcatgaag tggtttttcc caaagaaaga agaggccaat gagctagcca
1201 tggtgagggc catagaggat gccgtactag accttgaggc aatagaaaac aaccacatga
1261 caaccctgtt gaaagataaa gacagcttag caacatacat gaaaacactg gatatggagg
1321 aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt gggacaatca
1381 acgccctgct ggctcgaata gcagcagcca ggtcattagt ccacagggcc aaggaagaac
1441 tgtctagcag gataagacca gtggttgtta tgatatctgg caagccagga ataggcaaaa
1501 ctcatctggc cagagaggtg gcaagaaagg tggcatccac tctcacaggg gatcaaagag
1561 tcgggctcat accaagaaac ggtgtggatc attgggatgc atacaaaggt gagagagtcg
1621 tgttgtggga cgactatggc atgagcaacc ccattcatga tgctctccgc atacaagaat
1681 tggctgatac gtgccccctt accctaaatt gcgacagaat tgaaaacaag gggaaagttt
1741 ttgacagtga agtcataata attacaacaa acctcgccaa cccagcccca cttgattatg
1801 tcaactttga ggcctgctcc aggagaattg atttcctggt gtatgctgag gcaccagaag
1861 tagaaaaggc aaaacgggat tttcctggtc agccagatat gtggaaggac gccttcaagc
1921 cggacttttc gcacatcaag ctacagcttg cacctcaggg cggctttgac aagaatggca
1981 acaccccgca tgggaaagga gtgatgaaga ccctcactac cggttctctg attgcccgtg
2041 catcaggcct attgcatgag aggatggatg aatttgagct ccaaggtccc acaaccacca
2101 ctttcaactt cgaccggaac agaatcacag cattcagaca attggctgca gaaaacaagt
2161 atggactggt ggacaccatg aaagttggca atcaactaaa aggagtgaaa accatggaag
2221 aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc tacggtggct
2281 ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag gtcaagagcg
2341 cctctataca gaccaacaac gagttggccg gggccctgca ccatcttaaa catgcccgaa
2401 tcaggtacta cgtcaaatgt gtgcaagaag cagtctattc catcatacaa attgctggtg
2461 ctgcgtttgt caccacgcgc attgcacgcc gcatgaacat acaagagctc tggtcgaagc
2521 cacaattaga tcaaaatgaa tcggagacta aggaagaggc ccccaagtca gaagatgacg
2581 agttcatcat atcttctaag gatatcaagg aggaaggaaa gaagggcaaa aacaaaactg
2641 gccgcggcaa gaaacacacc gcattctcca gcaagggctt gagcgatgag gagtatgacg
2701 agtacaagag gataagagaa gagagaaatg ggaagtactc catagaggag tatcttcaag
2761 acagagacag gtattatgag gagctcgcca ttgccaaggc cacggaagaa gatttctgtg
2821 aagaggagga gatcaaaatc cgtcagagaa tttttcgtcc caccaggaaa caaagaaagg
2881 aagagagggc aacactagga ctggtaacag gttcagaaat cagaagaaga aaccccgatg
2941 atttcaaacc caaagggaag ttatgggccg atgacaacag aagtgttgac tacaatgaga
3001 aactggattt tgaggctccc ccaagcatat ggtctaggat tgtgagcttt ggttctggct
3061 ggggcttctg ggtgtcacca agcctgttca taacatcaac tcatgtgatc cctgcaggca
3121 taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca ggtgaatttt
3181 gccgattcag attcccaaaa ccaattagac cagatgtgac aggaatgatc ttggaagaag
3241 gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga gagctcatgc
3301 ctcttgcagc cagaatggga acacacgcaa ccatgaagat tcaaggccgc atggttggtg
3361 gacagatggg tatgttgctc actggatcaa atgctaaagg aatggatttg ggaacaactc
3421 ctggtgactg tggctgccct tacatctata aaaggggcaa tgactatata gtcattgggg
3481 tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag ggaagtgagg
3541 gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca cccattctag
3601 gccctggggg tgcaccaaaa ttgagcacta aaaccaaatt ttggaggtca tcgaacacgc
3661 cccttccacc agggacgtat gagcctgcct acctcggtgg ccgtgacccg cgtgttaggg
3721 gtgggccctc cttacaacag gtaatgagag accagttgaa accattcact gaacccaggg
3781 gcaaacctcc aagaccaagt gttttggaag cagccaaaca aaccattatc aatgtccttg
3841 aacaaaccct ggatcctcca caaaaatgga catacgcaca agcgtgtgcc tcacttgaca
3901 aaaccacctc cagcgggcat ccccaccacg tccgaaagaa tgaattctgg aatggtgaga
3961 ctttcactgg taaattggca gaccaagcat caaaagcaaa cctaatgttt gaggaaggga
4021 aacacatgac accagtgtac acagcagcac tcaaggacga gctagtcaag actgagaaaa
4081 tctatggaaa gatcaagaag agactgctct ggggctctga cttatccacc atgatccggt
4141 gcgctaggtc atttggtgga ctcatggacg agatgaaggc acactgcata tcactcccag
4201 tacgagttgg catgaacatg aatgaagatg gcccaataat atttgagaaa cattccagat
4261 ataaatatca ctatgatgca gactactctc gttgggattc aacacagcag agggcagtat
4321 tagcagcagc cttggaaatt atggtcagat tctctgcaga gccacaattg gcgcaaatag
4381 tcgctgagga tctactggcc cctagtgtag tagatgtagg agactttaaa attacaataa
4441 atgaagggct cccatctggc gtgccatgca cctctcaatg gaactccatt gcacactggc
4501 tgctaactct ctgtgccctg tctgaagtca ccaaactgtc ccctgacatt atacaagcaa
4561 actccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata aaattggacc
4621 ctgaacagtt gaccgccaag ttgaaggagt acggcctgaa accaacccgc ccagacaaga
4681 ccgagggacc tctgatcatc ggtgaagatt tgaacggact cactttcctc cgaagaacgg
4741 taactcgtga cccagctggc tggtttggaa aactggacca aagctcaatt ttgaggcaga
4801 tgtactggac taggggacca aatcatgaag accccaatga gacaatgata ccccattctc
4861 agagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga ccctctttct
4921 acagtagaat cagtaaattg gtcataactg agcttaaaga aggtgggatg gacttttacg
4981 tgccaaggca ggaacccatg ttcaggtgga tgaggttctc tgacttgagc acgtgggagg
5041 gcgatcgcaa tctggctccc agctttgtga atgaagatgg cgtcgagtga cgccaaccca
5101 tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat ggctttggag
5161 cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggtgagt tcacagtgtc ccctagaaat
5281 gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc ctacctatcc
5341 cacttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg
5401 gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcttaa gccctagcca ggtcactatg ttcccccaca taatagtaga tgttagacaa
5521 ttggaacctg tgctgatccc cttacccgat gttaggaata atttctatca ttacaatcag
5581 tcaaatgact ccactattaa gttgatagca atgttgtaca caccacttag ggctaataat
5641 gctggggatg atgttttcac agtttcgtgc cgagttctta cgagaccatc ccccgatttt
5701 gatttcatat tcttagtacc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca
5761 gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga gaagctgttc
5821 acaggcccca gcagtgcatt tgttgttcaa ccacaaaacg gcaggtgcac aactgatggc
5881 gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag aggggacgtc
5941 acccacatca caggtagtca caacttcact atgaatttgg cttctcaaaa ttggaacaac
6001 tatgacccaa cagaagaaat cccagccccc ctaggaactc cagattttgt ggggaagatc
6061 caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca caaagctaca
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggta gggttcaatt tgaaactgac
6181 acaaaccatg actttgaagc taatcaaaac acaaagttca ccccagtcgg cgtcatccaa
6241 gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag ttactcaggc
6301 agaaatactc acaatgtaca cttggccccc gctgtagccc ccacctttcc gggtgagcaa
6361 ctcctcttct tcaggtccac catgcccgga tgcagcgggt accccaatat ggatttggac
6421 tgtctgctcc cccaggaatg ggtgcagtac ttttaccaag aggcagcccc agcacaatct
6481 gatgtagctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgcaag
6541 cttcacaagt caggctatgt tacagtggct cacactggcc aacatgattt ggttattccc
6601 cccaatggtt attttaggtt tgattcctgg gtcaaccagt tctacacgct tgcccccatg
6661 ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt gctggattgg
6721 catctgatgt tcttggctct ggacttggtt cccttatcaa tgctggagct ggggccatca
6781 accaaaaagt tgagtttgaa aataatagaa aattgcaaca agcatccttc caatttagca
6841 gcaatttgca acaggcttcc tttcaacatg acaaagagat gctccaagca caaattgagg
6901 ccaccaaaaa gctacagcag gaaatgatga gagttaagca ggcagtgctc ctagagggtg
6961 ggttctctga gacagatgca gcccgcgggg cagttaacgc ccccatgaca aaggctttgg
7021 actggagcgg aacaaggtac tgggctccag atgctagaat tacaacatac aatgcaggcc
7081 acttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt agagatgctg
7141 tccctgctcg tggatcatct accaaacctt ctaactcttc tactgccacc tctgtgtact
7201 caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc agtgtctcga
7261 gcctcccgtc aactgcaagg actaggagct gggttgagga tcagaatagg aatttgtcac
7321 ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc agatcctcta
7381 gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact ggcgctttca
7441 acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca cgggtgtgat
7501 gtgaaaagac caa
//