Typing tool
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Typing tool
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Complete norovirus genomes
| LC790054 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS LC790054 7531 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2022/GII.4Sydney[P31]/
TKY220413 RNA, nearly complete genome.
ACCESSION LC790054
VERSION LC790054.1
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JOURNAL Unpublished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 7531)
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..7531
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2022/GII.4Sydney[P31]/TKY220413"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2022-06"
gene <1..5092
/gene="POL"
CDS <1..5092
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21176.1"
/translation="ASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP
PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETN
TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK
VELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPIVMGGIGLVLGFTKEKVGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSA
SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERLDEYELQGSALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDL
KQALKNIAIKKCQIVYNGGTYTLEADGRGSVKVDKVQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKP
KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYSEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPVKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGR
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5073..6695
/gene="VP1"
CDS 5073..6695
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21177.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPVPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6695..7501
/gene="VP2"
CDS 6695..7501
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21178.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS
NSSTATSVHPNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ggcgtctaac gacgcttccg ctgccgctgt tgccaacagc aacaacgaca tcgcaaaatc
61 ttcaagtgac ggtgtgtttt ctaacatggc tgtcactttt aagcgggccc tcggggcgcg
121 gcctaaacag ccgcccccga aggaaatacc acccagaccc ccgcgaccac ccacaccaga
181 attggtcaaa aagatccctc ctcccccacc caacggggag gatgaactag tggtctctta
241 cagcgccaaa gatggcgttt ccggactgcc tgagctcacc actgtcagac aaccggaaga
301 aaccaacacg gcgttcagtg tccccccact caaccaaagg gagagcaggg acgccaagga
361 gccactaact ggaacaatca ttgaaatgtg ggatggagaa atctaccatt acggcctgta
421 cgtggaacga ggtcttatac ttggtgtgca caagccacca gcagcaatca gcctcgccaa
481 ggtcgagttg gcaccgctct ctttgttctg gagacctgta tacacccccc agtaccttat
541 ctctccagac actcttagga gattacatgg agagtcattc ccctacactg catttgacaa
601 caattgctac gccttctgtt gctgggtatt agacctaaac gactcatggc taagcaggag
661 aatgattcag agaacaacag gcttcttcag gccgtaccag gattggaaca ggaaacccct
721 ccccactatg gatgactcca agttaaagaa ggtagccaac atattcttgt gtactttgtc
781 ttcactattc accagaccca ttaaggacat aatagggaag ttgaaacctc tcaacatcct
841 taatattctg gctacatgtg attggacctt cgcaggcata gtggaatcct taatactctt
901 ggcagaactc tttggagttt tctggacacc cccagatgtg tctgcgatga tcgccccctt
961 gctaggtgat tatgaactgc aaggacccga ggaccttgca gtggaactgg tcccaatagt
1021 gatggggggg ataggtttgg tgctaggatt taccaaagag aaagttggaa agatgctgtc
1081 atccgctgcg tccactttaa gagcttgtaa agatcttggt gcatacggac tggaaatctt
1141 aaaattggtc atgaagtggt tcttcccaaa gaaagaggaa gcaaatgaac tggctatggt
1201 gagatccatc gaggatgcag tactagacct cgaggcaatt gaaaacaacc atatgaccac
1261 cctgctcaaa gacaaagaca gcttgacaac ctacatgaga acccttgacc ttgaggagga
1321 gaaagccaga aaactctcaa ccaaatctgc ttcacccgat attgtgggca caattaactc
1381 tcttctggca agaatcgctg ctgcacgctc cctagtgcat cgggcgaaag aagagctctc
1441 cagcaggccg agacctgtcg ttgtaatgat atcgggaaga ccagggatag ggaaaactca
1501 ccttgccagg gagctggcca agaagatcgc ggcctccctc acaggggacc agcgtgtggg
1561 ccttatccca cgcaatggtg tcgaccactg ggacgcatac aagggcgaaa gagttgtcct
1621 atgggacgac tatggaatga gcaaccccat ccatgatgcc ctcagattgc aggagcttgc
1681 tgacacttgc cccctcacgc taaattgtga cagaattgag aacaagggaa aagtctttga
1741 cagcgatgcc ataattatca ccaccaacct ggccaaccca gcaccactgg attatgtcaa
1801 ctttgaagcg tgctcgagac gcattgattt cctcgtgtac gcagaagccc ctgaggtgga
1861 gaaggcgaag cgcgacttcc caggtcaacc tgacatgtgg aagaacgctt tcagtcctga
1921 cttctcacac ataaaactgt cattggctcc acagggcggt tttgacaaaa acggcaacac
1981 cccgcatgga aaaggggtca tgaagaccct caccactggc tccctcatcg cccgagcatc
2041 aggattactc catgagaggc tagatgaata tgaattgcaa ggctcagccc tcaccacttt
2101 caactttgac cgcaacaaga tacttgcctt tagacagctt gctgctgaaa acaagtatgg
2161 gctgatggac acaatgagag ttgggaaaca gcttaaggat gtcaagacta tgtcagacct
2221 caaacaagca ctcaagaaca tcgcgatcaa gaagtgccag atagtgtaca atggtggtac
2281 ctacacactt gaggctgatg gcaggggcag tgtgaaagtt gacaaagtgc aaagtgccac
2341 tgtgcagacc aacaatgaac tagccggtgc cctacaccac ctaagatgcg ctagaatcag
2401 gtactatgtt aagtgcgtcc aggaggcact gtattccatc atccaaatcg ctggggctgc
2461 gttcgtcacc acgcgcatcg ctaagcgcat gaatatacag aatctctggt ccaagccaca
2521 ggtggaagac acagaagaga tggccaacaa agatggttgc ctaaaaccca aagatgatga
2581 agagtttgtc gtttcatccg acgacatcaa aactgagggc aagaaaggga agaacaagtc
2641 cggccgtggc aagaaacata cagccttttc aagtaaaggg ctcagtgatg aggagtacga
2701 tgagtacaaa agaatcagag aagaaaggaa tggtaagtac tccatagaag agtaccttca
2761 ggacagagac aggtactacg aggaggtggc cattgccagg gcaaccgaag aggacttctg
2821 tgaagaagaa gaggccaaga tccggcagag gattttcaga ccaacaagga agcaacgcaa
2881 agaagagagg gcctctctcg gcttggtcac aggctctgaa atcaggaaga gaaacccaga
2941 agacttcaaa cccaagggaa agctgtgggc tgatgatgac agaagtgttg actacagtga
3001 gaaactcaac tttgaggccc caccaagcat ctggtcgcgg atagtcaact ttggttcagg
3061 ctggggcttc tgggtctccc ccagtctgtt tataacatca acccatgtta taccccaagg
3121 tgcaaaagag ttcttcggag tccctgtcaa gcaaatccag atacacaagt caggtgaatt
3181 ctgccgattg agattcccaa agccaatcag aaccgatgtg acgggcatga ttctagaaga
3241 aggtgcgccc gaggggaccg tggccacact gctcatcaag agaccaactg gagagctcat
3301 gcccctggca gccagaatgg ggacccatgc aaccatgaaa attcaggggc gcacagttgg
3361 agggcaaatg ggtatgctcc tgacaggatc caacgccaag agtatggacc taggcacaac
3421 accaggcgac tgcggctgcc cctacatcta caagaggggg aatgactacg tggtcatagg
3481 ggtccatacg gccgctgccc gcggaggaaa cactgtcata tgtgccaccc agggaagtga
3541 gggagaggcc acactcgaag gaggtgatag taaagggaca tactgtggcg cgccaatctt
3601 gggcccaggg agcgctccga agctcagcac caagactaag ttctggagat catccacaac
3661 accactccca cctggcacct acgaaccagc ctacctcggt ggcaaagacc ctagagtcaa
3721 aggtggccct tcattgcaac aagttatgag ggaccagctg aagccattca cagaacccag
3781 aggcagacca ccaagaccaa atgtgttgga agctgccaag aaaaccatca tcaatgtcct
3841 tgagcaaaca attgatccac cccaaaaatg gtcatttgcg caagcttgcg cgtcccttga
3901 caaaaccacc tccagcggcc acccgcacca catgcggaaa aacgactgtt ggaatgggga
3961 gtccttcaca ggaaaattgg ctgaccaagc ctccaaggcc aacctaatgt ttgaagaggg
4021 aaagaacatg actccagtct acacaggtgc acttaaagat gagttggtaa agaccgataa
4081 agtttatggt aaggtcaaga agaggcttct gtggggttca gatctggcga ccatgatacg
4141 gtgcgcccga gcttttggag gcctcatgga tgaactcaag gcacactgtg tcacgctccc
4201 tgtcagagtt ggtatgaaca tgaatgagga tggccccatc atcttcgaga agcactccag
4261 atatagatat cactatgatg ctgactactc ccgatgggac tcaacacaac aaagggatgt
4321 gctagcagca gcactagaaa tcatggttaa gttctctcca gaaccacacc tggcccagat
4381 agttgcagaa gacctcctct cccctagcgt gatggatgtg ggtgactttc aaatatcaat
4441 aagtgagggt ctcccctctg gggtgccttg tacctcccag tggaattcca tcgcccactg
4501 gctcctcact ctgtgtgcac tctctgaagt cacggacctg tcccctgata tcattcaggc
4561 caactccctt ttctcctttt atggtgatga tgagattgta agcacagaca taaagttgga
4621 cccagagagg ctgacagcaa aactcaagga gtacgggctg aaaccaaccc gccccgacaa
4681 aactgaagga ccccttgtta tctctgaaga cctggatggt ttgacattcc tccggagaac
4741 tgtgacccgt gacccagctg gttggtttgg aaaattggaa caaagttcaa ttcttaggca
4801 aatgtactgg accaggggtc ccaaccatga agatccattt gaaacaatga taccacactc
4861 ccaaagaccc atacagttga tgtccttgct gggcgaggct gcactccacg gcccggcatt
4921 ctacagcaaa attagcaaat tagtcattgc agagttgaag gaaggtggca tggattttta
4981 cgtacccaga caagagccaa tgttcagatg gatgagattc tcagatctga gcacgtggga
5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgagt gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa caatgaggtt atggctctgg
5161 agcccgttgt tggtgccgcc attgcggcac ctgtagcggg ccagcaaaat gtaattgacc
5221 cctggattag aaacaatttt gtacaagccc ctggtgggga gttcacagtg tcccctagaa
5281 acgctccagg tgaaatacta tggagcgcgc ccttgggccc tgatctaaat ccctacttat
5341 ctcatttggc cagaatgtac aatggttatg caggtggttt tgaagtgcag gtaattctcg
5401 cggggaacgc gttcaccgcc gggaaggtca tatttgcagc agtcccacca aattttccaa
5461 ctgaaggctt gagccccagc caggttacta tgttccccca tatagtagta gatgtcaggc
5521 aattagaacc tgtgttgatt cccttacccg atgttaggaa taatttctat cattataatc
5581 aatcaaatga ccccactatt aagctgatag caatgttgta cacaccactt agggctaata
5641 atgctgggga tgatgtcttc acagtttctt gccgagttct tacgaggcca tcccccgatt
5701 ttgacttcat atttctagtg ccacccacag ttgagtcaag aactaagcca ttctctgtcc
5761 caattttaac tgttgaggag atgaccaatt caagattccc cgttcctctg gaaaagttgt
5821 tcacgggtcc cagcagtgcc tttgttgtcc aaccacaaaa cggtaggtgc acgactgatg
5881 gcgtgctcct aggcaccacc caactgtctc ctgtcaacat ctgcaccttc agaggagatg
5941 tcacccatat cacaggtagt cacaactaca caatgaattt ggcttctcaa aattggagca
6001 attacgaccc aacagaagaa attccagccc ctctagggac tccagacttt gtggggaaga
6061 ttcaaggcat gcttacccaa accacaagga cagatggctc aacacgcggc cacaaagcca
6121 cagtgtatac tgggagcgcc gactttgccc caaaactggg tagagttcaa tttgaaactg
6181 acacaaacaa tgattttgaa gccaaccaaa acacaaagtt caccccagtt ggagtcatcc
6241 aagatggtgg caccacccac cgaaatgaac cccaacagtg ggtgctccca agttactcag
6301 gcaggaacac tcctaatgtg catctggccc ccgctgtagc ccccactttt ccgggtgagc
6361 aactcctctt cttcagatcc accatgcccg gatgcagcgg gtaccccaac atggatttgg
6421 attgtctgct cccccaggaa tgggtgcagt acttctacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgctaagg tttgtgaatc cagacacagg tagggttttg tttgaatgta
6541 agcttcataa atcaggctat gttacagtgg ctcacactgg ccaacatgat ttggttatcc
6601 cccccaatgg ttattttagg tttgactcct gggtcaacca gttttacacg cttgccccca
6661 tgggaaatgg agcggggcgt agacgtgcac tataatggct ggagctttct ttgctggatt
6721 ggcatctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat
6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caagcatcct tccaatttag
6841 cagcaatcta caacaggctt cctttcaaca tgacaaagag atgctccaag cacaaattga
6901 ggctaccaaa aggttacaac aggaaatgat gaaagttaag caggcaatgc tcttagaggg
6961 tgggttctct gagacagatg cagcccgcgg ggcaatcaac gcccctatga caaaagcttt
7021 ggactggagc gggacaaggt actgggctcc tgatgctagg actacaacat acaatgcagg
7081 ccgcttttcc accccccaac catcgggggc gctgccagga agagctaacc ttagggatgc
7141 tgcccccgct cggggttcct ctagtaagtc ttctaattct tctactgcta cttctgtgca
7201 cccaaatcaa actatttcaa cgagacttgg ttctacagct ggttctggta ccagtgtctc
7261 gagcttcccg tcaactgcaa ggactaggag ctgggttgag gatcaaagta ggaatttgtc
7321 acctttcatg aggggggccc acaacatatc gtttgtcacc ccaccatcta gcagatcctc
7381 tagccaaggc acagtctcaa ccgtgcctaa agagattttg gactcctgga ctggcgcttt
7441 caacacgcgc aggcagccac tcttcgctca cattcgtaag cgaggggagt cacgggtgta
7501 atgtgaaaag acaaaattga ttatctttct t
//