Typing tool
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Typing tool
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Complete norovirus genomes
| LC790061 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6686
ORF3: 6686..7492
LOCUS LC790061 7531 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221301 RNA, nearly complete genome.
ACCESSION LC790061
VERSION LC790061.1
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JOURNAL Unpublished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/2023/GII.4Sydney[P16]/TKY221301"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-01"
gene <1..5083
/gene="POL"
CDS <1..5083
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21197.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
DEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPGVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKHARI
RYYVKCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
RRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPVGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSRVSKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5064..6686
/gene="VP1"
CDS 5064..6686
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21198.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6686..7492
/gene="VP2"
CDS 6686..7492
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21199.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRLS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaggaaaaat cttcaggtga
61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca
121 gcctgccccg agagacgaac cacaaaagcc cccaagacca ccaactcccg agttgatcaa
181 gaggataccc ccccctccac ctaatggcga ggaagaagga gaaccagtca ttaggtatga
241 ggttaagagt ggggtctctg gcctgcccga gctcacaaca gtcccccaac cgggcgtggc
301 caacacagca tttagtgttc caccactgag cttgagagaa aacagggagg ccaaggagcc
361 gttaacaggg gcaatactag agatgtggga cggagagata taccactatg gcctgtacgt
421 ggagaaaggc ttagtgttag gtgtgcacaa accacctgca gccataagca tggcgagagt
481 ggagctaacg ccgctgtcat tgtattggcg tgtggtgtac actccccaat acctcatctc
541 ccctgaaact ctcaagaggc tcaacggaga ggcgtttcct tacaccgctt tcgacaacaa
601 ctgctatgcc ttttgctgct gggtgttaga cctcaatgat tcatggctta gcaggagaat
661 ggtgcaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc
721 caccatggat gactccaaaa taaagaaggt agcaaatata ttcctatgtt cattgtccac
781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa acatattgaa
841 catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtctctga tattgcttgc
901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact
961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat
1021 gggagggatt ggcttggtgt tgggattcac caaagagaaa attggcaaaa tgctgtcctc
1081 agcagcatca acactcaggg cttgtaaaga tcttggtgcc tatggcttag agatactcaa
1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagttag ccatggtaag
1201 ggccatagag gatgccgtac tagatcttga ggcaatagaa aataaccaca tgacaaccct
1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa
1321 agccagaagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa tcaacgccct
1381 gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag aactgtctag
1441 caggataagg ccagtagttg ttatgatatc tggcaaacca ggaataggca aaactcatct
1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaga gagtcggact
1561 cataccaaga aacggtgtgg atcattggga tgcatacaaa ggtgagagag tcgtgttgtg
1621 ggacgactat ggcatgagta accccattca tgatgctctc cgcatacaag aattggctga
1681 tacgtgcccc cttactttaa attgtgacag aattgaaaat aagggaaaag tttttgacag
1741 tgaagtcata ataattacaa caaaccttgc caacccagcc ccacttgatt atgtcaactt
1801 tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct gaggcaccag aagtagaaaa
1861 ggcaaaacgg gattttcctg gtcagccaga tatgtggaag gacgccttca agccggactt
1921 ttcacacatc aagctacagc ttgcacctca gggcggcttt gacaagaatg gcaacacccc
1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gtgcatcagg
2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacaatca ccactttcaa
2101 tttcgaccgg aacagaatca cagcattcag acaattggct gcggaaaaca agtatggact
2161 ggtggacacc atgaaagttg gcaatcaact aaaaggagtg aaaaccatgg aagaactcaa
2221 acaagcaatc aggaatgtga ccatcaagag gtgccggatc atctacggtg gctccacgta
2281 tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acgcctctat
2341 acagaccaac aacgagttgg tcggggccct gcaccatctt aaacatgctc gaatcaggta
2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcatg caaatcgccg gcgctgcgtt
2461 tgtcaccacg cgtattgcac gccgcatgaa catacaagaa ctctggtcga agccacaatt
2521 agatcaaaat gaatcagagt ccaaggaaga ggcccccaag tcagaagatg acgagttcat
2581 catatcttct aaggatatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg acgagtacaa
2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtaccttc aagacagaga
2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga
2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagaa aggaagagag
2881 ggccacacta gggctggtga caggttcaga aatcagaaga agaaaccctg atgacttcaa
2941 acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt gactacaatg agaaactgga
3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg gttggggctt
3061 ctgggtatca ccaagcctgt tcataacatc aactcatgtg atccctgtag gcataacaga
3121 agcatttgga gtccccatca aacaaattca gatccacaaa tcaggtgaat tttgtcgatt
3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc
3241 tgaaggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc
3301 agccagaatg ggaacacacg caaccatgaa gattcaaggc cgcatggttg gcggacagat
3361 gggtatgttg ctcactggat caaatgccaa aggaatggat ttgggaacaa cccctggtga
3421 ctgtggctgc ccttacatct ataaaagagg taatgactat gtagtcattg gggtgcacac
3481 tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca cagggaagtg agggtgaggc
3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg
3601 tggcgcacca aaattgagca ccaaaaccaa attttggagg tcatcgaaca cgccccttcc
3661 accagggaca tacgaacctg cctacctcgg tggccgtgac ccacgtgtta agggtgggcc
3721 ctccttacag caggtgatga gagaccagtt gaagccattc actgaaccca ggggcaagcc
3781 tccaagacca agtgttttgg aagcagccaa acaaaccatt atcaatgtcc ttgaacaaac
3841 cctggatcct ccacaaaaat ggacatacgc gcaggcgtgt gcctcacttg acaaaaccac
3901 ctccagcggg catccccatc acgtccgaaa gaatgaattc tggagtggtg agaccttcac
3961 tggtaaattg gctgaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat
4021 gacaccagtg tacacagcag cactcaagga tgagctagtt aagactgaga aaatctatgg
4081 aaaaatcaag aagagactgc tctggggctc tgacctgtcc accatgatcc ggtgcgctag
4141 gtcatttggt gggctcatgg acgagatgaa ggcacactgc atatcactcc cagtacgagt
4201 tggcatgaat atgaatgaag atggtccaat aatatttgag aaacattcca gatacaaata
4261 tcactatgat gcagattact ctcgttggga ttcaacacaa cagagggcag tattagcagc
4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga
4381 ggatctactg gcccctagtg tagtagatgt aggagacttt aaaatcacaa taaatgaggg
4441 gctaccatct ggcgtgccat gtacttctca atggaactcc atcgcacact ggctgctaac
4501 tctctgtgcc ttgtctgaag tcaccaaact atcccctgac attatacaag caaattccat
4561 gttctcattt tacggtgatg acgagattgt cagcaccgac ataaagttgg accctgaaca
4621 gttgaccgcc aagttgaagg agtacggcct gaaaccaacc cgcccagaca agaccgaggg
4681 acccctgatc atcagtgaag atttggacgg acttactttc ctccgaagga cggtgactcg
4741 tgacccagct ggctggtttg gaaaactgga ccaaagttca attttgaggc agatgtattg
4801 gactagagga ccaaatcatg aagaccccaa cgagacaatg ataccccatt ctcaaagacc
4861 catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt tctacagtag
4921 agtcagtaaa ttggttataa ctgaacttaa agaaggtggg atggactttt acgtgccaag
4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg
5041 caatctggct cccaattttg tgaatgaaga tggcgtcgag tgacgccaac ccatctgatg
5101 ggtccgcagc caacctcgta ccagaggtca acaatgaggt tatggctttg gagcccgttg
5161 ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa tgtaattgac ccctggatta
5221 gaaataattt tgtacaagcc cctggtgggg agtttacagt gtcccccaga aatgctccag
5281 gtgaaatact atggagcgcg cccctaggcc ctgacctaaa tccctaccta tcccatctgg
5341 ccaggatgta caatggttat gcaggtggct ttgaagtgca ggtaattctc gcggggaacg
5401 cgttcaccgc cgggaagatt atatttgcag cagtcccacc aaattttcca actgaaggct
5461 taagtcctag ccaggtcact atgttccccc atataatagt agatgttaga caattggaac
5521 ctgtgcttat ccccttgccc gatgttagga ataatttcta tcattacaac cagtcaaatg
5581 actccactat taagttgata gcaatgttgt acacaccact tagggctaat aatgctgggg
5641 atgatgtttt cacagtctcg tgtcgagttc tcacgaggcc atcccccgat tttgatttca
5701 tattcttagt accacccaca gttgagtcaa gaaccaaacc attctccgtc ccagttttaa
5761 ctgttgagga gatgaccaac tcaagattcc ccatcccttt ggaaaagttg ttcacaggcc
5821 ccagcagtgc atttgttgtt caaccacaaa acggcagatg cacaactgat ggcgtgctcc
5881 taggcaccac ccaactttct cctgtcaaca tctgcacctt cagaggggat gtcacccaca
5941 tcacaggcag tcacaactac actatgaatt tggcttctca aaattggaac aactacgacc
6001 cgacagaaga aatcccagct cccctaggaa ctccagactt tgtggggaag attcaaggca
6061 tgctcaccca aaccacaagg acagatggtt caacacgcgg ccacaaagct acagtgtaca
6121 ctgggagcgc cgactttgct ccaaaactgg gtagagttca atttgaaact gacacaaacc
6181 atgattttga agccaatcaa aacacaaagt tcaccccagt cggtgtcatc caagatggta
6241 gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc aagttactca ggcagaaata
6301 ctcacaatgt acatttagcc cccgctgtag cccccacctt tccgggtgag caacttctct
6361 tctttagatc taccatgccc ggatgcagcg ggtaccccaa catggatttg gactgtctgc
6421 tcccccagga atgggtgcag tacttttacc aagaggcagc cccagcacaa tctgatgtgg
6481 ctctgttaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc aagcttcaca
6541 aatcaggcta tgttacggtg gctcatactg gccaacatga tttggttatc ccccccaatg
6601 gttactttcg gtttgattcc tgggtcaacc agttctacac gcttgccccc atgggaaatg
6661 gaacggggcg tagacgtgca gtataatggc tggagctttc tttgctggat tggcatctga
6721 tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca tcaaccaaaa
6781 agttgagttt gaaaataaca gaaaattgca acaggcatcc ttccaattta gcagcaattt
6841 gcaacaggct tcctttcaac atgataaaga gatgctccaa gcacaaattg aggccaccaa
6901 aaagctacaa caggaaatga tgagagttaa gcaggcaatg ctcctagagg gtgggttctc
6961 tgagacagat gcggcccgcg gggcaattaa cgcccccatg acaaaggctt tggactggag
7021 cgggacaagg tactgggctc cagatgctag aattacaaca tacagtgcag gccacttttc
7081 cacccctcaa ccatcggggg cactgccagg aagagctaat cttagggatg ctgcccctgc
7141 tcggggaccc tccaccagac tttctaactc ttctactgcc acctctgtgt attcaaatca
7201 aactatttca acgagacttg gttctacagc tggttctgga accagtgtct cgagcctccc
7261 gtcaactgca aggactagga gctgggttga ggatcaaaat aggaatttgt ctcctttcat
7321 gaggggggcc cacaacatat catttgtcac cccaccatct agcagatcct ctagccaagg
7381 cacagtctca accgtgccta aagaaatttt ggactcctgg actggcgctt tcaacacgcg
7441 caggcagcct ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt aatgtgaaaa
7501 gacaaaactg attattttct ttttcttttc t
//