Typing tool
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Typing tool
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Complete norovirus genomes
| LC726073 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 1..5001
ORF2: 4982..6604
ORF3: 6604..7410
LOCUS LC726073 7440 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.4 Hu/GII.4[P31]/975F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726073
VERSION LC726073.1
KEYWORDS .
SOURCE Norovirus GII.4
ORGANISM Norovirus GII.4
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April
2021-March 2022
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7440)
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (23-AUG-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..7440
/organism="Norovirus GII.4"
/mol_type="genomic RNA"
/strain="Hu/GII.4[P31]/975F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:489821"
/country="Japan:Tokyo"
/collection_date="2021-12"
gene <1..5001
/gene="POL"
CDS <1..5001
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDQ32335.1"
/translation="VTFKRALGARPKQPPPKEIPPRPWRPPTPELVKKIPPPPPNGED
ELVVSYNAKDGVSGLPELTTVRQPEETNTAFSVPPLNQRESRDAKEPLTGTIIEMWDG
EIYHYGLYVERGLILGVHKPPAAISLAKVELAPLSLFWRPVYTPQYLISPDTLRRLHG
ESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKL
KKVANIFLCTLSSLFTRPIKDIIGKLKPLNILNILATCDWTFAGIVESLILLAELFGV
FWTPPDVSAMIAPLLGDYELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAAS
TLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLL
KDRDSLTTYMRTLDLEEEKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELS
SRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERV
VLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPL
DYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGF
DKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPALTTFNFDRNKILAFRQ
LAAENKYGLMDTMRVGKQLKDVKTMSDLKQALKNIAIKKCQIVYNGSTYTLEADGKGS
VKVDKVQSATVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAK
RMNIQNLWSKPQVENTEEMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKH
TAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEE
AKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKL
NFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPVKQIQVHKSGEF
CRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRT
VGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICAT
QGSEGEATLEGGDSKGTYCGAPILGPGGAPKLSTKTKFWRSSTTPLPPGTYEPAYLGG
KDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPNVLEAAKKTIINVLEQTIDPPQKWSF
AQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGA
LKDELVKTDKVYGKIKKRLLWGSDLATMVRCARAFGGLMDELKAHCVTLPVRVGMNMN
EDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLL
SPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLF
SFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVT
RDPAGWFGKLEQSSILRQMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAF
YSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 4982..6604
/gene="VP1"
CDS 4982..6604
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32336.1"
/translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVVFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
gene 6604..7410
/gene="VP2"
CDS 6604..7410
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32337.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS
NSSIATSVYSNQTASTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtcactttta agcgggccct cggggcgcgg cctaaacagc cgcccccgaa ggaaatacca
61 cccagaccct ggagaccacc cacaccagaa ttggtcaaaa agatccctcc tcccccaccc
121 aacggggagg atgaactagt ggtctcttac aacgccaaag atggtgtttc cggactgcct
181 gagctcacca ctgtcagaca accggaagaa accaacacgg cgttcagtgt ccccccactc
241 aaccaaaggg agagcaggga cgccaaggag ccactaactg gtacaatcat tgaaatgtgg
301 gatggagaaa tctaccatta cggcctgtac gtggaacgag gtcttatact tggtgtgcac
361 aagccaccag cagccatcag cctcgctaag gtcgagctgg caccactttc tttgttttgg
421 agacctgtat acacccccca gtaccttatc tctccagata ctcttaggag attacatggg
481 gagtcattcc cctacactgc atttgacaac aattgctacg ccttttgttg ttgggtatta
541 gacctaaacg actcatggct aagcaggaga atgattcaga gaacaacagg cttctttagg
601 ccgtaccagg attggaacag gaaacccctc cccaccatgg atgattccaa attaaagaag
661 gtagccaaca tatttttgtg cactttgtct tcactattca ccaggcccat caaggacata
721 atagggaagt tgaaacctct caacatcctt aatattctgg ctacatgtga ttggactttc
781 gcaggcatag tggaatcctt aatactcttg gcagaactct ttggagtttt ctggacaccc
841 ccagatgtgt ctgcgatgat cgcccccttg ctaggtgatt acgaactgca aggacccgag
901 gaccttgcag tggaactggt cccaatagtg atggggggga taggtttggt tctaggattt
961 accaaagaga agatcggaaa gatgctgtca tcagctgcat ccactttaag agcttgtaaa
1021 gaccttggtg catacggact ggaaatctta aaattggtca tgaagtggtt cttcccaaag
1081 aaagaggagg caaatgaact ggctatggtg agatccatcg aggatgcagt actagaccta
1141 gaggcaattg aaaacaacca catgaccacc ctgctcaaag acagagacag cttgacaacc
1201 tacatgagaa cccttgacct tgaggaggag aaagccagaa aactctcaac caaatctgct
1261 tcacccgata ttgtgggcac gatcaactct cttctggcaa gaatcgctgc tgcacgctct
1321 ttagtgcatc gggcgaaaga agagctctcc agcaggccga gacctgtcgt tgtaatgata
1381 tcgggaaggc cagggatagg gaaaactcac cttgccaggg agctggccaa gaagatcgcg
1441 gcctccctca caggggacca gcgtgtgggc cttatcccac gcaatggtgt cgaccactgg
1501 gacgcataca agggcgaaag ggtcgtccta tgggacgact atggaatgag caaccccatc
1561 catgatgccc ttaggttgca ggagcttgct gacacttgcc ccctcacact aaattgtgac
1621 agaattgaga acaaaggaaa agtctttgac agtgacgcca taattatcac caccaacctg
1681 gccaacccag caccactgga ttatgtcaac tttgaagcgt gctcgagacg cattgatttc
1741 ctcgtgtacg cagaagcccc tgaggtggag aaggcgaagc gcgacttccc aggtcaacct
1801 gacatgtgga agaacgcttt cagtcctgac ttctcacaca taaaactgtc attggctcca
1861 cagggtggtt ttgacaagaa cggcaacacc ccgcatggaa aaggggtcat gaagaccctc
1921 accactggct ccctcatcgc ccgagcatca gggttactcc atgagaggct agatgaatat
1981 gaattgcaag gcccagccct caccactttc aactttgacc gcaacaagat acttgctttt
2041 agacagctcg ctgctgaaaa caagtatggg ctgatggaca caatgagagt tggaaaacag
2101 ctcaaggatg tcaagactat gtcagacctc aaacaggcac tcaagaacat cgcgatcaag
2161 aagtgccaga tagtgtacaa tggtagcacc tacacacttg aggctgatgg caagggcagt
2221 gtgaaagttg acaaagtgca aagtgccact gtgcagacca acaatgaact agccggtgcc
2281 ctacaccacc taagatgcgc tagaatcaga tactatgtta agtgcgtcca ggaggcactg
2341 tattccatca tccaaatcgc tggggctgca ttcgtcacca cgcgcatcgc taagcgcatg
2401 aatatacaga atctctggtc caagccacag gtggaaaaca cagaagagat ggccaacaaa
2461 gatggttgcc taaaacctaa agatgatgaa gagtttgtcg tttcatccga cgacatcaag
2521 actgagggca agaaagggaa gaacaagtcc ggccgtggca agaagcacac agccttttca
2581 agtaaagggc tcagtgacga ggagtatgat gaatacaaga gaatcagaga agaaaggaat
2641 ggtaagtact ccatagaaga gtaccttcag gacagagaca ggtactacga ggaggtggcc
2701 attgctaggg caaccgaaga ggatttctgt gaggaggagg aggccaaaat ccggcagagg
2761 attttcagac caacaaggaa acaacgcaaa gaagagaggg cttctctcgg cttggtcaca
2821 ggctctgaaa tcaggaagag aaacccagaa gacttcaaac ccaagggaaa gctgtgggct
2881 gatgacgaca gaagtgttga ctacaatgag aaactcaact ttgaggcccc accaagcatc
2941 tggtcgcgga tagtcaactt tggttcaggc tggggcttct gggtctcccc cagtctgttt
3001 ataacatcaa cccatgtcat accccaaggt gcaaaggagt tcttcggagt ccctgtcaag
3061 caaatccagg tacacaagtc aggtgaattc tgccgattga gattcccaaa gccaatcaga
3121 accgatgtga cgggcatgat tctagaagaa ggtgcgcccg aggggaccgt ggccacactg
3181 ctcatcaaga gaccaactgg agagctcatg cctctggcag ccagaatggg gacccatgca
3241 accatgaaaa ttcaggggcg cacagttgga gggcaaatgg gtatgctcct gacaggatcc
3301 aacgccaaga gtatggacct aggcacaaca ccaggcgact gcggctgccc ctacatctac
3361 aagaggggga atgactacgt ggtcataggg gtccatacgg ctgctgcccg tggaggaaac
3421 actgtcatat gtgccaccca gggaagtgag ggagaggcca cacttgaagg aggtgacagt
3481 aaagggacat actgtggcgc accaatcttg ggcccagggg gcgctccgaa gctcagcacc
3541 aagaccaagt tttggagatc atccacaaca ccactcccac ctggcaccta cgaaccagcc
3601 tatctcggtg gcaaagaccc tagagtcaaa ggtggccctt cattgcaaca agttatgagg
3661 gaccagctga agccattcac agagcccaga ggcaaaccac caagaccaaa tgtgttggaa
3721 gctgccaaga aaaccatcat caacgtcctt gagcaaacaa ttgatccacc ccaaaaatgg
3781 tcatttgcgc aagcttgcgc atcccttgac aaaaccacct ccagcggcca cccgcaccac
3841 atgcggaaaa atgactgttg gaatggggag tccttcacag gaaagttggc tgaccaagcc
3901 tccaaggcca acctaatgtt tgaagaggga aagaacatga ctccagtcta cacaggtgca
3961 cttaaagatg agttggtaaa gaccgataaa gtttatggta agatcaagaa gaggcttcta
4021 tggggttcag atctggcgac catggtacgg tgcgcccgag cttttggagg cctcatggat
4081 gaactcaagg cacactgtgt tacactccct gtcagagttg gtatgaacat gaatgaggat
4141 ggccccatca tcttcgagaa gcactccaga tatagatatc attatgatgc tgactattcc
4201 cggtgggact caacacaaca aagggatgtg ctagcagcag cactagaaat catggttaag
4261 ttctctccag aaccacacct ggcccagata gttgcagaag acctcctttc ccctagcgtg
4321 atggatgtgg gtgactttca aatatcaata agtgagggtc tcccctctgg ggtgccttgc
4381 acctcccagt ggaattccat cgcccactgg ctcctcactc tgtgtgcact ctctgaagtc
4441 acggacctgt cccctgatat cattcaggcc aactcccttt tctccttcta tggtgatgat
4501 gagattgtaa gcacagacat aaagttggac ccagagaggc taacagcaaa actcaaggag
4561 tacgggctaa aaccaacccg ccccgacaaa actgaaggac ccctcgtcat ctctgaagac
4621 ctggatggtc tgacattcct ccggagaact gtgacccgtg atccagctgg ctggtttgga
4681 aaattggaac aaagttcaat tcttaggcaa atgtattgga ccaggggtcc caaccatgaa
4741 gacccatttg aaacaatgat accacactcc caaagaccca tacaattgat gtccttgttg
4801 ggcgaggctg cactccacgg cccggcattc tacagcaaaa tcagcaaatt agtcattgcg
4861 gagttgaagg aaggtggcat ggatttttac gtacccagac aagagccaat gttcaggtgg
4921 atgagattct cagatctgag cacgtgggag ggcgatcgca atctggctcc cagttttgtg
4981 aatgaagatg gcgtcgagtg acgtcaaccc atctgatggg tccgcagcca acctcgtccc
5041 agaggtcaac aatgaggtta tggctctgga gcccgttgtt ggtgccgcca ttgcggcacc
5101 tgtagcgggc caacaaaatg taattgaccc ctggattaga aacaattttg tacaagcccc
5161 tggtggagag tttacagtat cccctagaaa cgctccaggt gaaatactat ggagcgcgcc
5221 cttgggccct gatctaaatc cctacttgtc tcatttggcc agaatgtaca atggttatgc
5281 aggtggtttt gaagtgcagg taattctcgc ggggaacgcg ttcaccgccg ggaaggtcgt
5341 atttgcagca gtcccaccaa atttcccaac tgaaggctta agccccagcc aggtcactat
5401 gttcccccat atagtagtag atgttaggca actagaacct gtgttgattc ccttacccga
5461 tgttaggaat aatttctatc attataatca atcaaatgac cccaccatta agttgatagc
5521 aatgttgtac acaccgctta gggctaataa tgctggggat gatgtcttca cagtctcttg
5581 ccgagttctc acgagaccat cccccgattt tgacttcata tttctagtgc cacccacagt
5641 tgagtcaaga actaaaccat tctctgtccc agtcttaact gtcgaggaga tgaccaattc
5701 aagattcccc attcctttgg aaaagttgtt cacgggtccc agcagtgcct ttgttgtcca
5761 accacaaaac ggtaggtgca cgactgatgg cgtgctccta ggcaccaccc aactgtctcc
5821 tgtcaacatc tgcaccttta gaggagatgt cacccatatc acaggtagtc ataactacac
5881 aatgaatttg gcttctcaaa attggagtaa ctatgaccca acagaagaaa tcccagcccc
5941 tctagggact ccagactttg tggggaagat tcaaggcatg ctaacccaaa ccacaaggac
6001 agatggctca acacgcggcc acaaagccac agtgtatact gggagcgccg actttgctcc
6061 aaaactgggt agagttcaat ttgaaactga cacaaacaat gactttgaag ctaaccaaaa
6121 cacaaagttc accccagttg gtgtcatcca agatggtggt accacccatc gaaatgaacc
6181 ccaacagtgg gtactcccaa gttactcagg caggaacact cctaatgtgc atctggcccc
6241 cgctgtggcc cccacttttc cgggtgagca actcctcttc tttagatcca ccatgcccgg
6301 atgcagcggg taccccaaca tggatttgga ttgtctgctc ccccaggaat gggtgcagta
6361 cttctaccag gaggcagccc cagcacaatc tgatgtggct ctgctaagat ttgtgaatcc
6421 agacacaggt agggttttgt ttgaatgtaa gcttcataaa tcaggctatg ttacagtggc
6481 tcacactggc caacatgatt tggttatccc ccccaatggt tattttaggt ttgattcctg
6541 ggtcaaccag ttttacacgc ttgcccccat gggaaatgga gcggggcgta gacgtgcact
6601 ataatggctg gggctttctt tgctggattg gcatctgatg tccttggctc tggacttggt
6661 tcccttatca atgctggggc tggggccatc aaccaaaaag ttgagtttga aaataacaga
6721 aaattgcaac aagcatcctt ccaatttagc agcaatctac aacaggcttc ctttcaacat
6781 gacaaagaga tgctccaagc acaaattgag gctaccaaaa ggttgcaaca ggaaatgatg
6841 aaagttaagc aggcaatgct cctagagggt gggttctctg agacagatgc agcccgcggg
6901 gcaatcaacg cccctatgac aaaagccttg gactggagcg ggacaaggta ctgggctcct
6961 gatgctagga ttacaacata caatgcaggc cgcttttcca ccccccaacc atcaggggcg
7021 ctgccaggaa gagctaattt tagggatgct gtccctgctc ggggttcctc tagtaagtct
7081 tctaattctt ctattgctac ttctgtgtat tcaaatcaaa ctgcttcaac gagacttggt
7141 tctacagctg gttctggcac cagtgtctcg agcttcccgt caactgcaag gactaggagc
7201 tgggttgagg accaaagtag gaatttgtca cctttcatga ggggggccca taacatatcg
7261 tttgtcaccc caccatctag caggtcctct agccaaggca cagtctcaac cgtgcctaaa
7321 gagattttgg actcctggac tggcgctttc aacacgcgca ggcagccact cttcgctcac
7381 attcgtaagc gaggggagtc acgggtgtaa tgtgaaaaga caaaattgat tatctttctt
//